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  • Evolution  (685)
  • 04. Solid Earth::04.04. Geology::04.04.05. Mineralogy and petrology
  • 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
  • Springer  (710)
  • AGU  (15)
  • Nature Publishing Group
  • 1
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    The Pangenome (2021)
    Springer Nature | Springer
    Details
    Publication Date: 2024-04-05
    Description: This open access book offers the first comprehensive account of the pan-genome concept and its manifold implications. The realization that the genetic repertoire of a biological species always encompasses more than the genome of each individual is one of the earliest examples of big data in biology that opened biology to the unbounded. The study of genetic variation observed within a species challenges existing views and has profound consequences for our understanding of the fundamental mechanisms underpinning bacterial biology and evolution. The underlying rationale extends well beyond the initial prokaryotic focus to all kingdoms of life and evolves into similar concepts for metagenomes, phenomes and epigenomes. The book’s respective chapters address a range of topics, from the serendipitous emergence of the pan-genome concept and its impacts on the fields of microbiology, vaccinology and antimicrobial resistance, to the study of microbial communities, bioinformatic applications and mathematical models that tie in with complex systems and economic theory. Given its scope, the book will appeal to a broad readership interested in population dynamics, evolutionary biology and genomics.
    Keywords: Microbial Genetics and Genomics ; Evolutionary Biology ; Genetics and Population Dynamics ; Microbial Ecology ; Human Genetics ; Genetics and Genomics ; Comparative genomics ; Metagenomics ; Microbial Population Analysis ; Pangenome Profile ; Supra-Genome Analysis ; Adaptive Evolution ; Computational Tools ; Bioinformatic Genomics ; Core Dispensable Genome ; Selection, Recombination, Composition ; Acquired Resistance ; Bacterial Species Concept ; Genomic Diversity ; Bacterial Ecology, Microevolution ; Open Access ; Pan-metagenomics ; Pan-microbiomics ; Pan-epigenome ; Gene Transfer ; Pan-phenomes ; Microbiology (non-medical) ; Genetics (non-medical) ; Evolution ; Applied mathematics ; Ecological science, the Biosphere ; Medical genetics ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical) ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSA Life sciences: general issues::PSAJ Evolution ; thema EDItEUR::P Mathematics and Science::PB Mathematics::PBW Applied mathematics ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSA Life sciences: general issues::PSAF Ecological science, the Biosphere ; thema EDItEUR::M Medicine and Nursing::MF Pre-clinical medicine: basic sciences::MFN Medical genetics ; thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSA Life sciences: general issues::PSAK Genetics (non-medical)
    Language: English
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    E-BOOK
  • 2
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    Dynamic feeder dyke systems in basaltic volcanoes: the exceptional example o fthe 1809 Etna eruption (Italy) (2015)
    Nature Publishing Group
    Details
    Publication Date: 2017-04-04
    Description: In this paper, we describe the 1809 eruption of Mt. Etna, Italy, which represents one historical rare case in which it is possible to observe details of the internal structure of the feeder system. This is possible thanks to the presence of two large pit craters located in the middle of the eruptive fracture field that allow studying a section of the shallow feeder system. Along the walls of one of these craters, we analysed well-exposed cross sections of the uppermost 15–20 m of the feeder system and related volcanic products. Here, we describe the structure, morphology and lithology of this portion of the 1809 feeder system, including the host rock which conditioned the propagation of the dyke, and compare the results with other recent eruptions. Finally, we propose the dynamic model of the magma behaviour inside a laterally-propagating feeder dyke, demonstrating how this dynamic triggered important changes in the eruptive style (from effusive/Strombolian to phreatomagmatic) during the same eruption. Our results are also useful for hazard assessment related to the development of flank eruptions, potentially the most hazardous type of eruption from basaltic volcanoes in densely urbanized areas, such as Mt. Etna.
    Description: Published
    Description: 1-11
    Description: 2T. Tettonica attiva
    Description: 2V. Dinamiche di unrest e scenari pre-eruttivi
    Description: 3V. Dinamiche e scenari eruttivi
    Description: 4V. Vulcani e ambiente
    Description: 6A. Monitoraggio ambientale, sicurezza e territorio
    Description: N/A or not JCR
    Description: open
    Keywords: feeder dyke ; basaltic volcanoes ; flank eruptions ; Etna ; volcanic hazards ; sill ; volcanic rift ; 04. Solid Earth::04.04. Geology::04.04.09. Structural geology ; 04. Solid Earth::04.07. Tectonophysics::04.07.07. Tectonics ; 04. Solid Earth::04.08. Volcanology::04.08.99. General or miscellaneous ; 04. Solid Earth::04.08. Volcanology::04.08.03. Magmas ; 04. Solid Earth::04.08. Volcanology::04.08.04. Thermodynamics ; 04. Solid Earth::04.08. Volcanology::04.08.05. Volcanic rocks ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk ; 05. General::05.02. Data dissemination::05.02.03. Volcanic eruptions
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 3
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    Geoscientific Communication Problem with Communities for Disaster Prevention and Land Planning in Peru (2015)
    Springer
    Details
    Publication Date: 2020-02-24
    Description: The communication process between the geoscientists and native communities in risk areas can significantly affect disaster prevention and land use planning. In Peru, the problem of disaster prevention is a fundamental policy due to unfamiliarity and deficiency of the associate information on the population. It is possible that talk of disaster prevention it will be an unlikely ideal in a country where most towns have settled on unplanned projects by the constant change and the lack of interest from the authorities in such topics. However, it is anachronistic that the rural communities and towns continue to live without a plan to enable them to improve their quality of life. The correct use of geoscience information in the mass media can help in this work. The characteristics of the enterprise in Peru require more training by professionals in the geosciences and support communication specialists. In this paper, we analyze the problem of communication for disaster prevention in Peru, with the aim of contributing to the articulation of a disaster prevention strategy.
    Description: Published
    Description: 81-83
    Description: 3T. Pericolosità sismica e contributo alla definizione del rischio
    Description: 4V. Vulcani e ambiente
    Description: 6A. Monitoraggio ambientale, sicurezza e territorio
    Description: reserved
    Keywords: Communication process ; Disaster prevention ; Risk management ; Peru ; Geoethics ; 04. Solid Earth::04.06. Seismology::04.06.11. Seismic risk ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk ; 05. General::05.03. Educational, History of Science, Public Issues::05.03.99. General or miscellaneous ; 05. General::05.08. Risk::05.08.99. General or miscellaneous ; 05. General::05.09. Miscellaneous::05.09.99. General or miscellaneous
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: book chapter
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  • 4
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    Long-time variation of soil CO2 fluxes at the summit crater of Vulcano (Italy) (2014)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Here, we report the first continuous data of geochemical parameters acquired directly from the active summit crater of Vulcano. This approach provides a means to better investigate deep geochemical processes associated with the degassing system of Vulcano Island. In particular, we report on soil CO2 fluxes from the upper part of Vulcano, a closed-conduit volcano, from September 2007 to October 2010. Large variations in the soil CO2 and plume SO2 fluxes (order of magnitude), coinciding with other discontinuous geochemical parameters (CO2 concentrations in fumarole gas) and physical parameters (increase of shallow seismic activity and fumarole temperatures) have been recorded. The results from this work suggest new prospects for strengthening geochemical monitoring of volcanic activity and for improving the constraints in the construction of a “geochemical model”, this being a necessary condition to better understand the functioning of volcanic systems.
    Description: Published
    Description: 1859-1863
    Description: 2V. Dinamiche di unrest e scenari pre-eruttivi
    Description: 4V. Vulcani e ambiente
    Description: 5V. Sorveglianza vulcanica ed emergenze
    Description: 1R. Reti di monitoraggio e Osservazioni
    Description: JCR Journal
    Description: restricted
    Keywords: Vulcano Island ; Geochemical monitoring ; CO2 flux ; CO2 fumaroles ; SO2 flux ; 01. Atmosphere::01.01. Atmosphere::01.01.07. Volcanic effects ; 04. Solid Earth::04.08. Volcanology::04.08.01. Gases ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk ; 05. General::05.02. Data dissemination::05.02.01. Geochemical data
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 5
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    Movements of the Sciara del Fuoco (2012)
    AGU
    Details
    Publication Date: 2021-01-27
    Description: The Sciara del Fuoco (SdF) landslides that occurred at the end of December 2002 prompted researchers to install geodetic networks to monitor deformations related to potential new slope failures. With this aim, an integrated multiparametric monitoring system was designed and deployed. In particular, this complex monitoring system is composed of four single systems: an electronic distance measurement network, installed immediately after the landslide events, a realtime GPS network, a ground-based interferometric linear synthetic aperture radar (GB-InSAR), and an automated topographic monitoring system (named Theodolite Robotic Observatory of Stromboli, or THEODOROS); the three last systems provided a continuous monitoring of selected points or sectors of the SdF. Data acquired from different systems have been jointly analyzed to reach a better understanding of the SdF dynamics. Displacement data obtained from the topographic systems are compared with those obtained from GB-InSAR, and the results of the comparison are analyzed and discussed. Furthermore, in this chapter, an example of a warning system that can detect slope instability precursors on the SdF based on a statistical analysis of the data collected by the THEODOROS system is reported.
    Description: Published
    Description: 183-199
    Description: 1.3. TTC - Sorveglianza geodetica delle aree vulcaniche attive
    Description: reserved
    Keywords: Flank instability ; Slope failure ; Terrestrial geodesy ; Ground Based InSAR ; Continuous GPS ; Landslide monitoring ; 04. Solid Earth::04.03. Geodesy::04.03.06. Measurements and monitoring ; 04. Solid Earth::04.03. Geodesy::04.03.07. Satellite geodesy ; 04. Solid Earth::04.03. Geodesy::04.03.09. Instruments and techniques ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 6
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    Hazard assessment at Mount Etna using a hybrid lava flow inundation model and satellite-based land classification (2012)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Using a lava flow emplacement model and a satellite-based land cover classification, we produce a map to allow assessment of the type and quantity of natural, agricultural and urban land cover at risk from lava flow invasion. The first step is to produce lava effusion rate contours, i.e., lines linking distances down a volcano’s flank that a lava flow will likely extend if fed at a given effusion rate from a predetermined vent zone. This involves first identifying a vent mask and then running a downhill flow path model from the edge of every pixel around the vent mask perimeter to the edge of the DEM. To do this, we run a stochastic model whereby the flow path is projected 1,000 times from every pixel around the vent mask perimeter with random noise being added to the DEM with each run so that a slightly different flow path is generated with each run. The FLOWGO lava flow model is then run down each path, at a series of effusion rates, to determine likely run-out distance for channel-fed flow extending down each path. These results are used to plot effusion rate contours. Finally, effusion rate contours are projected onto a land classification map (produced from an ASTER image of Etna) to assess the type and amount of each land cover class falling within each contour. The resulting maps are designed to provide a quick look-up capability to assess the type of land at risk from lava extending from any location at a range of likely effusion rates. For our first (2,000 m) vent zone case used for Etna, we find a total of area of ~680 km2 is at risk from flows fed at 40 m3 s−1, of which ~6 km2 is urban, ~150 km2 is agriculture and ~270 km2 is grass/woodland. The model can also be run for specific cases, where we find that Etna’s 1669 vent location, if active today, would likely inundate almost 11 km2 of urban land, as well as 15.6 km2 of agricultural land, including 9.5 km2 of olive groves and 5.2 km2 of vineyards and fruit/nut orchards.
    Description: Published
    Description: 1001-1027
    Description: 3.6. Fisica del vulcanismo
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: reserved
    Keywords: Lava flow ; Risk ; FLOWGO ; ASTER image ; Land classification ; Mt. Etna ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 7
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    Rapid differentiation in a sill-like magma reservoir: a case study from the campi flegrei caldera (2012)
    Nature Publishing Group
    Details
    Publication Date: 2017-04-04
    Description: In recent decades, geophysical investigations have detected wide magma reservoirs beneath quiescent calderas. However, the discovery of partially melted horizons inside the crust is not sufficient to put constraints on capability of reservoirs to supply cataclysmic eruptions, which strictly depends on the chemical-physical properties of magmas (composition, viscosity, gas content etc.), and thus on their differentiation histories. In this study, by using geochemical, isotopic and textural records of rocks erupted from the high-risk Campi Flegrei caldera, we show that the alkaline magmas have evolved toward a critical state of explosive behaviour over a time span shorter than the repose time of most volcanic systems and that these magmas have risen rapidly toward the surface. Moreover, similar results on the depth and timescale of magma storage were previously obtained for the neighbouring Somma-Vesuvius volcano. This consistency suggests that there might be a unique long-lived magma pool beneath the whole Neapolitan area.
    Description: Published
    Description: article 712
    Description: 2.3. TTC - Laboratori di chimica e fisica delle rocce
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: 3.6. Fisica del vulcanismo
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: N/A or not JCR
    Description: open
    Keywords: magma ; campi flegrei caldera ; 04. Solid Earth::04.04. Geology::04.04.05. Mineralogy and petrology ; 04. Solid Earth::04.08. Volcanology::04.08.03. Magmas ; 04. Solid Earth::04.08. Volcanology::04.08.05. Volcanic rocks ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 8
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    Volcanic ash and SO2 in the 2008 Kasatochi eruption: Retrievals comparison from different IR satellite sensors (2011)
    AGU
    Details
    Publication Date: 2012-02-03
    Description: The Kasatochi 2008 eruption was detected by several infrared satellite sensors including Moderate Resolution Imaging Spectroradiometer (MODIS), Advanced Very High Resolution Radiometer (AVHRR), and Atmospheric Infrared Sounder (AIRS). In this work a comparison between the volcanic cloud SO2 and ash retrievals derived from these instruments has been undertaken. The SO2 retrieval is carried out by using both the 7.3 and 8.7 micron absorption features while ash retrieval exploits the 10–12 micron atmospheric window. A radiative transfer scheme is also used to correct the volcanic ash effect on the 8.7 micron SO2 signature. As test cases, three near‐contemporary images for each sensor, collected during the first days of the eruption, have been analyzed. The results show that the volcanic SO2 and ash are simultaneously present and generally collocated. The MODIS and AVHRR total ash mass loadings are in good agreement and estimated to be about 0.5 Tg, while the AIRS retrievals are slightly lower and equal to about 0.3 Tg. The AIRS and MODIS 7.3 micron SO2 mass loadings are also in good agreement and vary between 0.3 and 1.2 Tg, while the MODIS ash corrected 8.7 micron SO2 masses vary between 0.4 and 2.7 Tg. The mass increase with time confirms the continuous SO2 injection in the atmosphere after the main explosive episodes. Moreover the difference between the 7.3 and 8.7 micron retrievals suggests a vertical stratification of the volcanic cloud. The results also confirm the importance of the ash correction; the corrected 8.7 micron SO2 total masses are less than 30–40% of the uncorrected values.
    Description: Published
    Description: D00L21
    Description: 1.5. TTC - Sorveglianza dell'attività eruttiva dei vulcani
    Description: 1.10. TTC - Telerilevamento
    Description: JCR Journal
    Description: reserved
    Keywords: Remote sensing ; ash retrieval ; SO2 retrieval ; multispectral satellite instruments ; MODIS ; AVHRR ; AIRS ; hyperspectral satellite instruments ; 01. Atmosphere::01.01. Atmosphere::01.01.07. Volcanic effects ; 01. Atmosphere::01.01. Atmosphere::01.01.08. Instruments and techniques ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 04. Solid Earth::04.08. Volcanology::04.08.07. Instruments and techniques ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk ; 05. General::05.02. Data dissemination::05.02.03. Volcanic eruptions
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 9
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    Degassing, crystallization and eruption dynamics at Stromboli: trace element and lithium isotopic evidence from 2003 ashes (2011)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: During its 1800-year-long persistent activity the Stromboli volcano has erupted a highly porphyritic (HP) volatile-poor scoriaceous magma and a low porphyritic (LP) volatile-rich pumiceous magma. The HP magma is erupted during normal Strombolian explosions and lava effusions, while the LP one is related to more energetic paroxysms. During the March–April 2003 explosive activity, Stromboli ejected two typologies of juvenile glassy ashes, namely highly vesicular LP shards and volatile-poor HP shards. Their textural and in situ chemical characteristics are used to unravel mutual relationships between HP and LP magmas, as well as magma dynamics within the shallow plumbing system. The mantle-normalized trace element patterns of both ash types show the typical arc-lava pattern; however, HP glasses possess incompatible element concentrations higher than LP glasses, along with Sr and Eu negative anomalies. HP shards are generally characterized by higher Li contents (to ~20 ppm) and lower δ7Li values (+1.2 to −3.8‰) with respect to LP shards (Li contents of 7–14 ppm and δ7Li ranging between +4.6 and +0.9‰). Fractional crystallization models based on major and trace element compositions, combined with a degassing model based on open-system Rayleigh distillation and on the assumption that melt/fluidDLi 〉 1, show that abundant (~30%) plagioclase precipitation and variable degrees of degassing can lead the more primitive LP magma to evolve toward a differentiated (isotopically lighter) HP magma ponding in the upper conduit and undergoing slow continuous degassing-induced crystallization. This study also evidences that in March 2003 Stromboli volcano poured out a small early volume of LP magma that traveled slower within the conduit with respect to later and larger volumes of fast ascending LP magma erupted during the April 5 paroxysm. The different ascent rates and cooling rates of the two LP magma batches (i.e., pre- and post-paroxysm) resulted in small, but detectable, differences in their chemical signatures. Finally, this study highlights the high potential of in situ investigations of juvenile glassy ashes in petrologic and geochemical monitoring the volcanic activity and of Li isotopes as tracers of degassing processes within the shallow plumbing system.
    Description: Published
    Description: 541-561
    Description: 1.5. TTC - Sorveglianza dell'attività eruttiva dei vulcani
    Description: 2.3. TTC - Laboratori di chimica e fisica delle rocce
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: JCR Journal
    Description: reserved
    Keywords: Stromboli ; Volcanic ash ; Lithium isotopes ; Degassing-induced crystallization ; Petrologic monitoring ; 04. Solid Earth::04.04. Geology::04.04.05. Mineralogy and petrology ; 04. Solid Earth::04.08. Volcanology::04.08.03. Magmas ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring
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  • 10
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    Rapid terrain-based mapping of some volcaniclastic flow hazard using Gis-based automated methods: a case study from southern Campania, Italy (2011)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Destructive volcaniclastic flows are among the most recurrent and dangerous natural phenomena in volcanic areas. They can originate not only during or shortly after an eruption (syn-eruptive) but also during a period of volcanic quiescence (inter-eruptive), when heavy and/or persistent rains remobilize loose pyroclastic deposits. The area in Italy most prone to such flows is that of the Apennine Mountains bordering the southern Campania Plain. These steep slopes are covered by pyroclastic material of variable thickness (a few cm to several m) derived from the explosive activity of the Somma-Vesuvius and Campi Flegrei volcanoes a few tens of kilometers to the west. The largest and most recent devastating event occurred on May 5, 1998, causing the death of more than 150 people and considerable damage to villages at the foot of the Apennine Mountains. This tragic event was only the most recent of a number of volcaniclastic flows affecting the area in both historical and prehistoric times. Historical accounts report that more than 500 events have occurred in the last five centuries and that more than half of these occurred in the last 100 years, causing hundreds of deaths. In order to improve volcaniclastic flow hazard zonation and risk mitigation in the study area, we produced a zonation map that identifies the drainage basins potentially prone to disruption. This map was obtained by combining morphological characteristics (concavity and basin shape factor) and the mean slope distribution of drainage basins derived from a digital elevation model with a 10-m resolution. These parameters allowed for the classification of 1,069 drainage basins, which have been grouped into four different classes of proneness to disruption: low, moderate, high and very high. The map compiled in a GIS environment, as well as the linked database, can be rapidly queried.
    Description: Published
    Description: 371-387
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: reserved
    Keywords: Volcaniclastic flow hazard ; GIS ; Vesuvian area ; Southern Campania Plain ; Slope instability ; 04. Solid Earth::04.08. Volcanology::04.08.07. Instruments and techniques ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 11
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    Magnetic properties of sedimentary greigite (Fe3S4): an update (2011)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: Accepted for publication in Reviews of Geophysics. Copyright (2010) American Geophysical Union
    Description: Greigite (Fe3S4) is an authigenic ferrimagnetic mineral that grows as a precursor to pyrite during early diagenetic sedimentary sulfate reduction. It can also grow at any time when dissolved iron and sulfide are available during diagenesis. Greigite is important in paleomagnetic, environmental, biological, biogeochemical, tectonic, and industrial processes. Much recent progress has been made in understanding its magnetic properties. Greigite is an inverse spinel and a collinear ferrimagnet with antiferromagnetic coupling between iron in octahedral and tetrahedral sites. The crystallographic c-axis is the easy axis of magnetization, with magnetic properties dominated by magnetocrystalline anisotropy. Robust empirical estimates of the saturation magnetization, anisotropy constant, and exchange constant for greigite have been obtained recently for the first time, and the first robust estimate of the low-field magnetic susceptibility is reported here. The Curie temperature of greigite remains unknown, but must exceed 350°C. Greigite lacks a low-temperature magnetic transition. Based on preliminary micromagnetic modeling, the size range for stable single domain behavior is 17-200 nm for cubic crystals and 17-500 nm for octahedral crystals. Gradual variation in magnetic properties is observed through the pseudo-single domain size range. We systematically document the known magnetic properties of greigite (at high, ambient and low temperatures, and with alternating and direct fields) and illustrate how grain size variations affect magnetic properties. Recognition of this range of magnetic properties will aid identification and constrain interpretation of magnetic signals carried by greigite, which is increasingly proving to be environmentally important and responsible for complex paleomagnetic records, including widespread remagnetizations.
    Description: In press
    Description: 2.2. Laboratorio di paleomagnetismo
    Description: JCR Journal
    Description: open
    Keywords: greigite ; 04. Solid Earth::04.04. Geology::04.04.05. Mineralogy and petrology ; 04. Solid Earth::04.04. Geology::04.04.08. Sediments: dating, processes, transport ; 04. Solid Earth::04.05. Geomagnetism::04.05.06. Paleomagnetism ; 04. Solid Earth::04.05. Geomagnetism::04.05.07. Rock magnetism ; 04. Solid Earth::04.05. Geomagnetism::04.05.09. Environmental magnetism
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 12
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    Distal Turbidites and Tsunamigenic Landslides of Stromboli Volcano (Aeolian Islands, Italy) (2011)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: On 30 December 2002, a 25-30 × 106 m3 landslide on the NW flank of Stromboli volcano produced a tsunami that caused relevant damage to the Stromboli village and to the neighboring islands of the Aeolian archipelago. The NW flank of Stromboli has been the site of several, cubic kilometer-scale, landslides during the past 13 ka. In this paper we present sedimentological and compositional data of deep-sea cores recovered from a site located about 24 km north of the island. Our preliminary results indicate that: (i) turbidity currents were effectively generated by the large-scale failures and (ii) volcanogenic turbidity current deposits retain clues of the landslide source and slope failure dynamics. By analogy with Hawaii and the Canary islands we confirm that deep-sea sediments can be effectively used to assess the age and scale of past landslide events giving an important contribution to the tsunami hazard assessment of this region.
    Description: Published
    Description: 719-731
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: reserved
    Keywords: Landslide ; turbidite ; tsunami ; Stromboli ; 04. Solid Earth::04.04. Geology::04.04.04. Marine geology ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 13
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    Dynamics of ash-dominated eruptions at Vesuvius: the post-512 AD AS1a event (2011)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Recent stratigraphic studies at Vesuvius have revealed that, during the past 4,000 years, long lasting,moderate to low-intensity eruptions, associated with continuous or pulsating ash emission, have repeatedly occurred. The present work focuses on the AS1a eruption, the first of a series of ash-dominated explosive episodes which characterized the period between the two Subplinian eruptions of 472 AD and 1631 AD. The deposits of this eruption consist of an alternation of massive and thinly laminated ash layers and minor well sorted lapilli beds, reflecting the pulsatory injection into the atmosphere of variably concentrated ash-plumes alternating with Violent Strombolian stages. Despite its nearly constant chemical composition, the juvenile material shows variable external clast morphologies and groundmass textures, reflecting the fragmentation of a magma body with lateral and/or vertical gradients in both vesicularity and crystal content. Glass compositions and mineralogical assemblages indicate that the eruption was fed by rather homogeneous phonotephritic magma batches rising from a reservoir located at ~ 4 km (100 MPa) depth, with fluctuations between magma delivery and magma discharge. Using crystal size distribution (CSD) analyses of plagioclase and leucite microlites, we estimate that the transit time of the magma in the conduit was on the order of ~ 2 days, corresponding to an ascent rate of around 2× 10−2 ms−1. Accordingly, assuming a typical conduit diameter for this type of eruption, the minimum duration of the AS1a event is between about 1.5 and 6 years. Magma fragmentation occurred in an inertially driven regime that, in a magma with low viscosity and surface tension, can act also under conditions of slow ascent.
    Description: In press
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: JCR Journal
    Description: reserved
    Keywords: Ash emission activity ; Tephrite ; Vesuvius ; Stratigraphy ; Textural analyses ; 04. Solid Earth::04.08. Volcanology::04.08.05. Volcanic rocks ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 14
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    The distal segment of Etna’s 2001 basaltic lava flow (2011)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Etna’s 2001 basaltic lava flow provided a good example of the distal flow segment between the flow front and stable channel, across which the flow evolves from channel-contained to dispersed. This zone was mapped with meter precision using LIDAR data collected during 2004 and 2005. These data, supported by field mapping, show that the flow front comprised eight lobes each 10 to 20 m high. The flow front appears to have advanced not as a single unit, but as a series of lobes moving forward one lobe at a time. Primary lobes were centered on the channel axis and marginal lobes were off-axis. The lobes advanced as breakouts of low-yield-strength lava from the flow core of the stalled flow front. Marginal lobes were abandoned and contributed to marginal levees flanking the transitional channel. For Etna’s 2001 flow, the transitional channel is 140 m wide, 700 m long and fed a 240-m-long zone of dispersed flow; the change from stable to transitional channel occurred at a major reduction in slope. Above this, the stable channel is 5.2 km long, 55 to 105 m wide and bounded by 15- to 25-m-high levees, and the stable channel is located over a previous channel. In a final stage of activity, lava ponding at the break-in-slope that marks the terminus of the stable channel put pressure on the eastern levee, causing it to fail. Liberated lava then fed a final break-out to the east. Similar flow front-features occur at other volcanoes, indicating that similar processes are characteristic of dispersed flow zones.
    Description: Published
    Description: 119-127
    Description: 1.10. TTC - Telerilevamento
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: 3.6. Fisica del vulcanismo
    Description: JCR Journal
    Description: reserved
    Keywords: Basalt lava ; Channelised lava flow ; Flow front ; Zone of dispersed flow ; Flow dynamics ; LIDAR ; Etna ; 04. Solid Earth::04.08. Volcanology::04.08.05. Volcanic rocks ; 04. Solid Earth::04.08. Volcanology::04.08.07. Instruments and techniques ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 15
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    Changes of the susceptibility to lava flow invasion induced by morphological modifications of an active volcano: the case of Mount Etna, Italy (2011)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Changes of the susceptibility to lava flow invasion at Mount Etna are quantified by using lava flow simulations on four Digital Elevation Models documenting the morphostructural modifications of the volcano in the time interval 1986–2007. The probabilistic code DOWNFLOW is used to derive the areas invaded by several thousands of lava flows obtaining, for each DEM, maps of the susceptibility to lava flow invasion and of the lava flow hazard. These maps show, for the first time, the evolution of these surficial properties with time, and render a quantitative image of the effects of topographic changes on the preferential lava flow drainage paths. The results illustrate how the emplacement of new lava flows and the growth of scoria cones affect the probability of inundation by lava flows. We conclude that the persistent activity of this volcano requires a frequent updating of the topography for a reliable lava flow hazard assessment.
    Description: Published
    Description: 537-546
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: reserved
    Keywords: Lava flow simulation ; Digital Elevation Model ; Lidar ; Time series ; Lava flow hazard maps ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk ; 05. General::05.08. Risk::05.08.99. General or miscellaneous
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  • 16
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    Potential Field modeling of collapse-prone submarine volcanoes in the southern Tyrrhenian Sea (Italy) (2010)
    AGU
    Details
    Publication Date: 2021-07-14
    Description: Hydrothermal alteration may weaken volcanic rocks, causing the gravitational instability of portions of active volcanoes with potentially hazardous collapses. Here we show high‐resolution multibeam, magnetic and gravity surveys of the Marsili seamount, the largest active volcano of Europe located in the southern Tyrrhenian back‐arc basin. These surveys reveal zones with exceptionally low densities and with vanishing magnetizations, due probably to the comminution of basalts during hyaloclastic submarine eruptions and to their post‐eruptive hydrothermal alteration. The location of these regions correlates with morphological data showing the occurrence of past collapses. Similar evidence has been obtained from pre existing data at Vavilov Seamount, another older volcanic system in the Tyrrhenian back‐arc basin. Here a large volume of at least 50 km3 may have collapsed in a single event from its 40 km long western flank. Given the similarities between these volcanoes, a large collapse event may also be expected at Marsili.
    Description: Published
    Description: L03305
    Description: 2.6. TTC - Laboratorio di gravimetria, magnetismo ed elettromagnetismo in aree attive
    Description: 3.4. Geomagnetismo
    Description: JCR Journal
    Description: reserved
    Keywords: Marsili Seamount ; Gravity anomalies ; Magnetic anomalies ; Tyrrhenian Sea ; 04. Solid Earth::04.02. Exploration geophysics::04.02.02. Gravity methods ; 04. Solid Earth::04.04. Geology::04.04.04. Marine geology ; 04. Solid Earth::04.05. Geomagnetism::04.05.04. Magnetic anomalies ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 17
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    Transient processes in Stromboli’s shallow basaltic system inferred from dolerite and magmatic breccia blocks erupted during the 5 April 2003 paroxysm (2010)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: We describe the mineralogy, geochemistry, and mesomicrostructure of fresh subvolcanic blocks erupted during the 5 April 2003 paroxysm of Stromboli (Aeolian Islands, Italy). These blocks represent ∼50 vol.% of the total erupted ejecta and consist of fine- to medium-grained basaltic lithotypes ranging from relatively homogeneous dolerites to strongly or poorly welded magmatic breccias. The breccia components are represented by angular fragments of dolerites entrapped in a matrix of vesiculated (lava-like to scoriae) crystal-rich (CR) basalt. All of the studied blocks are cognates with the CR basalt of the normal Strombolian activity or lavas and they are often coated by a few-centimeter thick layer of crystal-poor (CP) basaltic pumice erupted during the paroxysm. We suggest that they result from the rapid increase of pressure and related subvolcanic rock failure that occurred shortly before the 5 April 2003 explosion, when the uppermost portion of the edifice inflated and suffered brecciation as the result of the sudden rise of the gas-rich CP basalt that triggered the eruption. Dolerites and magmatic matrix of the breccias show major and trace element compositions that match those of the CR basalts erupted during normal Strombolian activity and effusive events at Stromboli volcano. Dolerites consist of (a) phenocrysts normally found in the CR basalts and (b) late-stage magmatic minerals such as sanidine, An60-28 plagioclase, Fe–Mn-rich olivines (Fo68-48), phlogopite, apatite, and opaque mineral pairs (magnetite and ilmenite), most of which are never found both in lava flows and scoriae erupted during the persistent explosive activity that characterizes typical Strombolian behavior. Subvolcanic crystallization of the Stromboli CR magma, leading to slowly cooled equivalents of basalts, could result from transient drainage of the magma from the summit craters to lower levels. Fingering and engulfing of the material that collapsed from the summit crater floor into the shallow basaltic system during the late evening of 28 December 2002 coupled with the short break in the summit persistent explosions between December 2002 and March 2003 permitted the CR magma pockets to solidify as dolerites, which were confined to the uppermost portion of the system and thus not involved in the ongoing flank effusive activity. Crystal size distribution of the basaltic blocks and crystallization of the finer-grained (〈0.1 mm) mafic minerals of the dolerites over a time interval of ∼100 days closely agrees with the above interpretation. Vesicle filling (miarolitic cavities) locally found in some dolerites, with minerals deposited as vapor-phase crystallization is a result of continuous gas percolation through the rocks of the uppermost portion of the volcanic system. Poorly welded magmatic breccias formed during syn-eruptive processes of 5 April 2003, when the paroxysm strongly shattered the shallow subvolcanic system and many dolerite fragments were entrapped in the CR magma. In contrast, the high degree of welding between the dolerite clasts and the CR basaltic matrix in the strongly welded magmatic breccias provides a snapshot of subvolcanic intrusions of the CR basalt into the dolerite when, after a 2-month break in activity, CR magmas started to rise again to the summit craters. Blocks similar to these subvolcanic ejecta of 5 April 2003 were also erupted during previous paroxysms (e.g., 1930) suggesting that changes in the usual Strombolian activity (e.g., short breaks in the persistent mild explosions and/or flank effusive activity) lead to transient crystallization of dolerites in the shallow plumbing system.
    Description: Published
    Description: 795-813
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: JCR Journal
    Description: reserved
    Keywords: Basalt ; Subvolcanic crystallization ; Dolerite ; Magmatic breccia ; Stromboli ; 04. Solid Earth::04.04. Geology::04.04.05. Mineralogy and petrology ; 04. Solid Earth::04.08. Volcanology::04.08.03. Magmas
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  • 18
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    Distal Turbidites and Tsunamigenic Landslides of Stromboli Volcano (Aeolian Islands, Italy) (2010)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: On 30 December 2002, a 25-30 × 106 m3 landslide on the NW flank of Stromboli volcano produced a tsunami that caused relevant damage to the Stromboli village and to the neighboring islands of the Aeolian archipelago. The NW flank of Stromboli has been the site of several, cubic kilometer-scale, landslides during the past 13 ka. In this paper we present sedimentological and compositional data of deep-sea cores recovered from a site located about 24 km north of the island. Our preliminary results indicate that: (i) turbidity currents were effectively generated by the large-scale failures and (ii) volcanogenic turbidity current deposits retain clues of the landslide source and slope failure dynamics. By analogy with Hawaii and the Canary islands we confirm that deep-sea sediments can be effectively used to assess the age and scale of past landslide events giving an important contribution to the tsunami hazard assessment of this region.
    Description: Unpublished
    Description: -
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: reserved
    Keywords: Landslide ; turbidite ; tsunami ; Stromboli ; 04. Solid Earth::04.04. Geology::04.04.04. Marine geology ; 04. Solid Earth::04.04. Geology::04.04.08. Sediments: dating, processes, transport ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: book chapter
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  • 19
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    Reconstruction of the eruptive activity on the NE sector of Stromboli volcano: timing of flank eruptions since 15 ka (2010)
    Springer
    Details
    Publication Date: 2020-02-24
    Description: A multidisciplinary geological and compositional investigation allowed us to reconstruct the occurrence of flank eruptions on the lower NE flank of Stromboli volcano since 15 ka. The oldest flank eruption recognised is Roisa, which occurred at ~15 ka during the Vancori period, and has transitional compositional characteristics between the Vancori and Neostromboli phases. Roisa was followed by the San Vincenzo eruption that took place at ~12 ka during the early stage of Neostromboli period. The eruptive fissure of San Vincenzo gave rise to a large scoria cone located below the village of Stromboli, and generated a lava flow, most of which lies below sea level. Most of the flank eruptions outside the barren Sciara del Fuoco occurred in a short time, between ~9 and 7 ka during the Neostromboli period, when six eruptive events produced scoria cones, spatter ramparts and lava flows. The Neostromboli products belong to a potassic series (KS), and cluster in two differently evolved groups. After an eruptive pause of ~5,000 years, the most recent flank eruption involving the NE sector of the island occurred during the Recent Stromboli period with the formation of the large, highly K calc-alkaline lava flow field, named San Bartolo. The trend of eruptive fissures since 15 ka ranges from N30°E to N55°E, and corresponds to the magma intrusions radiating from the main feeding system of the volcano.
    Description: The mapping of Stromboli was supported by a grant to S. Calvari (Project V2/01, 2005–2007, funded by the Istituto Nazionale di Geofisica e Vulcanologia and by the Italian Civil Protection). This work was partly supported by INGV through a research grant financed by MIUR-FIRB to G. Norini. We wish to thank the former Director of INGV-Sezione di Catania, A. Bonaccorso, for making additional funds available for field trip and datings.
    Description: In press
    Description: 3.5. Geologia e storia dei vulcani ed evoluzione dei magmi
    Description: JCR Journal
    Description: restricted
    Keywords: Stromboli ; flank fissures ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 20
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    Hydrogen sulphide as a natural air contaminant in volcanic/geothermal areas: the case of Sousaki, Corinthia (Greece) (2009)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Volcanic and geothermal areas are one of the major natural sources of H2S to the atmosphere. Its environmental impact is often the main cause of the opposition to the development of geothermal energy exploitation programs. In this paper we analyze the air concentrations and dispersion pattern of naturally emitted H2S at the geothermal area of Sousaki (Corinthia, Greece). Measurements, made with a network of passive samplers, evidence a rapid decrease of concentration values away from the emission points. The fact that the decrease is more pronounced in the summer with respect to the winter indicates that it is not only due to a dilution effect, but also to redox reactions favoured by higher temperatures and intense sunlight typical of the summer period.
    Description: Published
    Description: 1723-1728
    Description: 1.2. TTC - Sorveglianza geochimica delle aree vulcaniche attive
    Description: JCR Journal
    Description: reserved
    Keywords: Hydrogen sulphide ; Environmental impact of volcanic activity ; Gas hazard ; Passive samplers ; 01. Atmosphere::01.01. Atmosphere::01.01.03. Pollution ; 01. Atmosphere::01.01. Atmosphere::01.01.07. Volcanic effects ; 04. Solid Earth::04.04. Geology::04.04.12. Fluid Geochemistry ; 04. Solid Earth::04.08. Volcanology::04.08.01. Gases ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 21
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    A quantitative approach for evaluating lava flow simulation reliability: LavaSIM code applied to the 2001 Etna eruption (2009)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: An edited version of this paper was published by AGU. Copyright (2009) American Geophysical Union.
    Description: This work developed a quantitative approach for evaluating the reliability of lava flow simulation codes. In particular, it applied the LavaSIM code to simulate the main lava flow emplaced on the south flank of Mount Etna (Italy) between 18 July and 9 August 2001 which represents an ideal test case for validating numerical codes. LavaSIM is the only full 3-D model and is thus able to account for the vertical variation of lava properties such as temperature, viscosity, velocity, and liquidus or solidus state. It presents the most complete description of the lava cooling, and its greatest peculiarity is the potential to discriminate between cells filled by liquid or solid lava. Thirteen simulation tests were performed varying the main input parameters, and they were checked thanks to the availability of syneruption maps, defining the lava flow planar expansion throughout its whole emplacement. Two parameters were adopted for quantitatively evaluate the agreement between real and simulated flows: the percent length ratio (PLR), here defined, and the fitness function (e1). Their joint analysis allowed checking both the simulated lateral spreading, through e1, and the flow lengthening, through PLR. The simulated flows follow a path very similar to the observed one, giving a good fitting of the lateral spreading, though the simulations are, after the second day, normally longer and thinner. The temporal evolution of the three-dimensional distribution of liquid lava and crust was also analyzed. Finally, the analysis presented here demonstrated the great capability of the LavaSIM simulation code.
    Description: Published
    Description: Q09003
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: reserved
    Keywords: lava flow ; quantitative assessment of simulation reliability ; 2001 Etna eruption ; LavaSIM ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 22
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    MAFALDA: An early warning modeling tool to forecast volcanic ash dispersal and deposition (2008)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: Forecasting the dispersal of ash from explosive volcanoes is a scientific challenge to modern volcanology. It also represents a fundamental step in mitigating the potential impact of volcanic ash on urban areas and transport routes near explosive volcanoes. To this end we developed a web-based early-warning modeling tool named MAFALDA (Modeling And Forecasting Ash Loading and Dispersal in the Atmosphere) able to quantitatively forecast ash concentrations in the air and on the ground. The main features of MAFALDA are: the usage of (1) a dispersal model, named VOL-CALPUFF (Barsotti et al. 2008) that couples the column ascent phase with the ash-cloud transport and (2) high-resolution weather forecasting data, the capability to run and merge multiple scenarios, and the web-based structure of the procedure that makes it suitable as an early-warning tool. MAFALDA produces plots for a detailed analysis of ash-cloud dynamics and ground deposition, as well as synthetic 2D maps of areas potentially affected by dangerous concentrations of ash. A first application of MAFALDA to the long-lasting weak plumes produced at Mt. Etna (Italy) is presented. A similar tool can be useful to civil protection authorities and volcanic observatories in reducing the impact of the eruptive events. MAFALDA can be accessed at http://mafalda.pi.ingv.it.
    Description: Published
    Description: Q12019
    Description: 3.6. Fisica del vulcanismo
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: reserved
    Keywords: volcanic ash forecast ; numerical modeling ; early warning modeling tool ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 23
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    Reply to comments by E.Galili et al. on “Holocene Tsunami's from Mount Etna and the fate of Israeli Neolithic Communities” (2008)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: No abstract
    Description: Published
    Description: L08312
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: reserved
    Keywords: landslide tsunami ; Mt. Etna ; paleo-tsunami deposits ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 24
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    Topographic control on lava flow paths at Mt. Etna (Italy): implications for hazard assesment (2008)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: Assessment of the hazard from lava flow inundation at the active volcano of Mt. Etna (Italy) was performed by calculating the probability of lava flow inundation at each position on the volcano. A probability distribution for the formation of new vents was calculated using geological and volcanological data from past eruptions. The simulated lava flows from these vents were emplaced using a maximum expected flow length derived from geological data on previous lava flows. Simulations were run using DOWNFLOW, a DEM-based model designed to predict lava flow paths. Different eruptive scenarios were simulated by varying the elevation and probability distribution of eruptive points. Inundation maps show that the city of Catania and the coastal zone may only be impacted by flows erupted from low-altitude vents (〈 1500 m elevation), and that flank eruptions at elevations 〉 2000 m preferentially inundate the northeast and southern sectors of the volcano as well as the Valle del Bove. Eruptions occurring in the summit area (〉 3000 m elevation) pose no threat to the local population. Discrepancies between the results of simple, hydrological models and those of the DOWNFLOW model show that hydrological approaches are inappropriate when dealing with Etnean lava flows. Because hydrological approaches are not designed to reproduce the full complexity of lava flow spreading, they underestimate the catchment basins when the fluid has a complex rheology.
    Description: In press
    Description: 3.6. Fisica del vulcanismo
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: open
    Keywords: lava flows ; DOWNFLOW ; hazard ; Mt. Etna ; Sicily ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 25
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    BET_EF: a probabilistic tool for long- and short-term eruption forecasting (2008)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: The main purpose of this paper is to introduce a Bayesian event tree model for eruption forecasting (BET_EF). The model represents a flexible tool to provide probabilities of any specific event at which we are interested in, by merging all the relevant available information, such as theoretical models, a priori beliefs, monitoring measures, and any kind of past data. BET_EF is based on a Bayesian procedure and it relies on the fuzzy approach to manage monitoring data. The method deals with short- and long-term forecasting, therefore it can be useful in many practical aspects, as land use planning, and during volcanic emergencies. Finally, we provide the description of a free software package that provides a graphically supported computation of short- to long-term eruption forecasting, and a tutorial application to the recent MESIMEX exercise at Vesuvius.
    Description: Published
    Description: 623-632
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: partially_open
    Keywords: eruption forecasting ; event tree ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 26
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    Newly discovered submarine flank eruption at Stromboli volcano (Aeolian Islands, Italy) (2008)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: The NW submarine portion of Stromboli volcano has been investigated by deep-towed sidescan sonar, bathymetric surveys, video camera runs and dredging during two research cruises in 2002 and 2004. The surveys resulted in the identification of an extensive pillow lava field (106-107m3) at about 2300 m of water depth and 9 km from the shoreline of Stromboli Island. The pillow lavas have a unique composition that does not match any known subaerial product, although a limited affinity exists with those erupted during the Neostromboli eruptive cycle of the island (13–6 ka). This is the first finding of a submarine eruption on the northern side of Stromboli and improves the knowledge of its flank activity and volcanic hazards. This eruption is interpreted as marking the onset of a new volcanic cycle from the edifice periphery fed by a new, distinct magma mixed with traces of the previous magma that survived the emptying of the Neostromboli magma chamber.
    Description: Published
    Description: L16310
    Description: 2.3. TTC - Laboratori di chimica e fisica delle rocce
    Description: 3.5. Geologia e storia dei sistemi vulcanici
    Description: JCR Journal
    Description: reserved
    Keywords: Stromboli ; flank eruption ; pillow lava ; 04. Solid Earth::04.04. Geology::04.04.04. Marine geology ; 04. Solid Earth::04.04. Geology::04.04.05. Mineralogy and petrology ; 04. Solid Earth::04.08. Volcanology::04.08.05. Volcanic rocks
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  • 27
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    Reply to comment by Luigi Vigliotti on “Lost tsunami” (2008)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: No abstract
    Description: Published
    Description: L02609
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: reserved
    Keywords: Mt. Etna tsunami ; homogenite ; 365 A.D. tsunami ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 28
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    Volcanic Eruptions:Cyclicity during Lava Dome Growth (2008)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: We consider the process of slow extrusion of very viscous magma that forms lava domes. Dome-building eruptions are commonly associated with hazardous phenomena, in- cluding pyroclastic flows generated by dome collapses, explosive eruptions and volcanic blasts. These eruptions commonly display fairly regular alternations between pe- riods of high and low or no activity with time scales from hours to years. Usually hazardous phenomena are asso- ciated with periods of high magma discharge rate, thus, understanding the causes of pulsatory activity during ex- trusive eruptions is an important step towards forecasting volcanic behavior, especially the transition to explosive ac- tivity when magma discharge rate increases by a few orders of magnitude. In recent years the risks have increased be- cause the population density in the vicinity of many active volcanoes has increased.
    Description: Published
    Description: 3.6. Fisica del vulcanismo
    Description: open
    Keywords: Volcanic Eruptions ; Cyclicity ; During Lava ; 04. Solid Earth::04.01. Earth Interior::04.01.99. General or miscellaneous ; 04. Solid Earth::04.08. Volcanology::04.08.04. Thermodynamics ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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    A quantitative model for volcanic hazard assessment (2007)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Volcanic hazard assessment is a basic ingredient for risk-based decision-making in land-use planning and emergency management. Volcanic hazard is defined as the probability of any particular area being affected by a destructive volcanic event within a given period of time (Fournier d’Albe 1979). The probabilistic nature of such an important issue derives from the fact that volcanic activity is a complex process, characterized by several and usually unknown degrees of freedom that are often linked by nonlinear relationships (e.g. Bak et al. 1988). Except in sporadic cases, the result of this complexity is an intrinsic, and perhaps unavoidable, unpredictability of the time evolution of the volcanic system from a deterministic point of view.
    Description: Published
    Description: open
    Keywords: model ; volcanic risk ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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    Type: book
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    BET_EF: a probabilistic tool for long- and short-term eruption forecasting (2007)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: The main purpose of this paper is to introduce a Bayesian event tree model for eruption forecasting (BET EF). The model represents a flexible tool to provide probabilities of any specific event at which we are interested in, by merging all the relevant available information, such as theoretical models, a priori beliefs, monitoring measures, and any kind of past data. BET EF is based on a Bayesian procedure and it relies on the fuzzy approach to manage monitoring data. The method deals with short- and long-term forecasting, therefore it can be useful in many practical aspects, as land use planning, and during volcanic emergencies. Finally, we provide the description of a free software package that provides a graphically supported computation of short- to long-term eruption forecasting, and a tutorial application to the recent MESIMEX exercise at Vesuvius.
    Description: Published
    Description: on line first
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: partially_open
    Keywords: Eruption forecasting ; Long- and short-term volcanic hazard ; Bayesian inference ; Event tree ; Fuzzy sets ; MESIMEX ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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    Hydrologic and geochemical survey of the lake “Specchio di Venere” (Pantelleria island, Southern Italy) (2007)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Hydrological and geochemical studies performed on Lake Specchio di Venere on Pantelleria island (Italy) indicate that this endorheic basin has been formed through upwelling of the water table, and that it is continuously fed by the thermal springs situated on its shores. The lake is periodically stratified both thermally and in salinity, albeit this stratification is rather unstable over time since meteorological events such as strong rain or wind can determine the mixing of its waters. Periodical analyses of the lake water chemistry show large variations of the salt content due to the yearly evaporation-rain dilution cycle. These processes are also responsible for the saline stratification during steady meteorological conditions. The mineralogical characterisation of the bottom sediments shows the almost exclusive presence of neoformation minerals, mainly carbonates, formed in response to the pH gradient between spring- (pH≈6) and lake-waters (pH≈9). Finally, the CO2 partial pressures in the lake water slightly exceeding the atmospheric one, are due to the large amounts of CO2 brought to the lake through the bubbling free gas phase of the thermal springs. Nevertheless the high pH value of the lake water, its small volume and its periodical mixing prevent dangerous built up of this gas.
    Description: Published
    Description: 1.2. TTC - Sorveglianza geochimica delle aree vulcaniche attive
    Description: JCR Journal
    Description: reserved
    Keywords: Pantelleria island ; volcanic lake ; gas hazard ; 03. Hydrosphere::03.02. Hydrology::03.02.02. Hydrological processes: interaction, transport, dynamics ; 03. Hydrosphere::03.04. Chemical and biological::03.04.03. Chemistry of waters ; 04. Solid Earth::04.04. Geology::04.04.12. Fluid Geochemistry ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 32
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    The morphology and evolution of the Stromboli 2002–2003 lava flow field: an example of a basaltic flow field emplaced on a steep slope (2007)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: The use of a hand-held thermal camera during the 2002–2003 Stromboli effusive eruption proved essential in tracking the development of flow field structures and in measuring related eruption parameters, such as the number of active vents and flow lengths. The steep underlying slope on which the flow field was emplaced resulted in a characteristic flow field morphology. This comprised a proximal shield, where flow stacking and inflation caused piling up of lava on the relatively flat ground of the vent zone, that fed a medial–distal lava flow field. This zone was characterized by the formation of lava tubes and tumuli forming a complex network of tumuli and flows linked by tubes. Most of the flow field was emplaced on extremely steep slopes and this had two effects. It caused flows to slide, as well as flow, and flow fronts to fail frequently, persistent flow front crumbling resulted in the production of an extensive debris field. Channel-fed flows were also characterized by development of excavated debris levees in this zone (Calvari et al. 2005). Collapse of lava flow fronts and inflation of the upper proximal lava shield made volume calculation very difficult. Comparison of the final field volume with that expecta by integrating the lava effusion rates through time suggests a loss of ~70% erupted lava by flow front crumbling and accumulation as debris flows below sea level. Derived relationships between effusion rate, flow length, and number of active vents showed systematic and correlated variations with time where spreading of volume between numerous flows caused an otherwise good correlation between effusion rate, flow length to break down. Observations collected during this eruption are useful in helping to understand lava flow processes on steep slopes, as well as in interpreting old lava–debris sequences found in other steep-sided volcanoes subject to effusive activity.
    Description: Published
    Description: JCR Journal
    Description: reserved
    Keywords: Lava flow field ; Morphology ; Tumuli ; Lava tubes ; Effusion rate ; Rheology ; Stromboli volcano ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 04. Solid Earth::04.08. Volcanology::04.08.07. Instruments and techniques ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 33
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    Thermal model of the Vesuvius magma chamber (2007)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: A thermal modeling of the Vesuvius is presented, based on its magmatic and volcanic history. A 2D numerical scheme has been developed to evaluate the heat transfer inside and around a magma body, the latent heat of crystallization and the inputs of magma from the asthenosphere to a crustal reservoir. Assuming a ratio 〉1 between velocities of magma ascending in the conduit and magma laterally displaced in the reservoir, the results indicate that, after 40 ka, the reservoir is vertically thermally zoned. As a consequence it hosts magma batches that can individually differentiate, mix and be contaminated by the crust, and produce the spectrum of isotopic compositions of the Vesuvian products. The thermal model reproduces the geothermal gradient and the brittle-ductile transition (250– 300 C) at 6 km of depth (the maximum depth of earthquake foci) only after 0.5–1 Ma, implying a long lived magma chamber below the volcano.
    Description: Published
    Description: L17302
    Description: reserved
    Keywords: NONE ; 04. Solid Earth::04.01. Earth Interior::04.01.02. Geological and geophysical evidences of deep processes ; 04. Solid Earth::04.04. Geology::04.04.05. Mineralogy and petrology ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 34
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    Evidence for fluid migration as the source of deformation at Campi Flegrei (2007)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: We model the location, geometry and density of the source of the recent geological unrest at Campi Flegrei caldera (Italy) by inverting levelling, trilateration and gravity measurements collected between 1980 and 1995. The best fitting source for the 1980–84 inflation is a horizontal penny-shaped crack with a density 142 to 1115 kg/m3. The source best fitting the deflation period (1990–95) is a vertical spheroid with density between 902 and 1015 kg/m3. These results exclude the intrusion of magma, and indicate the migration of fluid to and from the caldera hydrothermal system as the cause of ground deformation and consequent unrest.
    Description: Published
    Description: L01307
    Description: reserved
    Keywords: NONE ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 35
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    Empirical hazard mapping of small debris flows in Sarno (Italy) using LAHARZ (2007)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: The catastrophic events that occurred in May 1998 in the area of Sarno (Southern Italy) highlight the destructive potential of debris flows, even when they are of relatively low magnitude. More than 130 people were killed and severe property damage took place when volcaniclastic debris flows triggered by heavy rainfall inundated various towns located in piedmont areas. This work investigates the suitability of LAHARZ, a GIS-assisted method for the automatic delineation of lahar inundation areas, for reproducing the May 1998 flows at Sarno. It was found that recalibration of the empirical relationship employed by LAHARZ is required in order to realistically hind-cast the inundation areas of considered events. The potential for further improvements in prediction outputs for this type of geomorphic setting is discussed, taking into account the observed lower mobility of these small volcaniclastic debris flows as compared to lahars of similar size.
    Description: Published
    Description: JCR Journal
    Description: reserved
    Keywords: Sarno ; LAHARZ ; Debris flows ; Lahars ; Debris flow modelling ; Hazard assessment ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 36
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    An immersed boundary method for compressible multiphase flows: application to the dynamics of pyroclastic density currents (2007)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: An immersed boundary technique suitable for the solution of multiphase compressible equations of gas–particle flows of volcanic origin over complex 2D and 3D topographies has been developed and applied. This procedure combines and extends different existing methods designed for incompressible flows. Furthermore, the extension to compressible multiphase flows is achieved through a flux correction term in the mass continuity equations of the immersed cells that accounts for density variations in the partial volumes. The technique is computationally accurate and inexpensive, if compared to the use and implementation of the finite-volume technique on unstructured meshes. The first applications that we consider are the simulations of pyroclastic density currents generated by the collapse of a volcanic column in 2D axisymmetric geometry and by a dome explosion in 3D. Results show that the immersed boundary technique can significantly improve the description of the no-slip flow condition on an irregular topography even with relatively coarse meshes. Although the net effect of the present technique on the results is difficult to quantify in general terms, its adoption is recommended any time that cartesian grids are used to describe the large-scale dynamics of pyroclastic density currents over volcano topographies.
    Description: Published
    Description: 183-198
    Description: 3.6. Fisica del vulcanismo
    Description: JCR Journal
    Description: reserved
    Keywords: Pyroclastic density currents ; Compressible flows ; Cartesian grids ; Finite-volume method ; Immersed boundary method ; Numerical simulation ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 37
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    Volcaniclastic debris-flow occurrences in the Campania region (Southern Italy) and their relation to Holocene-Late Pleistocene pyroclastic fall deposits: implications for large-scale hazard mapping (2007)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: The Campania Region (southern Italy) is characterized by the frequent occurrence of volcaniclastic debris flows that damage property and loss of life (more than 170 deaths between 1996 and 1999). Historical investigation allowed the identification of more than 500 events during the last four centuries; in particular, more than half of these occurred in the last 100 years, causing hundreds of deaths. The aim of this paper is to quantify debris-flow hazard potential in the Campania Region. To this end, we compared several elements such as the thickness distribution of pyroclastic fall deposits from the last 18 ka of the Vesuvius and Phlegrean Fields volcanoes, the slopes of relieves, and the historical record of volcaniclastic debris flows from A.D. 1500 to the present. Results show that flow occurrence is not only a function of the cumulative thickness of past pyroclastic fall deposits but also depends on the age of emplacement. Deposits younger than 10 ka (Holocene eruptions) apparently increase the risk of debris flows, while those older than 10 ka (Late Pleistocene eruptions) seem to play a less prominent role, which is probably due to different climatic conditions, and therefore different rates of erosion of pyroclastic falls between the Holocene and the Late Pleistocene. Based on the above considerations, we compiled a large-scale debris-flow hazard map of the study area in which five main hazard zones are identified: very low, low, moderate, high, and very high.
    Description: Published
    Description: 157-167
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: 5.4. TTC - Sistema Informativo Territoriale
    Description: JCR Journal
    Description: reserved
    Keywords: Debris flows ; Explosive eruptions ; Hazard mapping ; Vesuvius volcano ; Erosion ; Campania region ; Southern Italy ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 38
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    The Campanian Ignimbrite (southern Italy) geochemical zoning: insight on the generation of a super-eruption from catastrophic differentiation and fast withdrawal (2007)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: More than ca 100 km3 of nearly homogeneous crystal-poor phonolite and ca 100 km3 of slightly zoned trachyte were erupted 39 ka during the Campanian Ignimbrite super eruption, the most powerful in the Neapolitan area. Partition coefficient calculations, equilibrium mineral assemblages, glass compositions and texture were used to reconstruct compositional, thermal and pressure gradients in the pre-eruptive reservoir as well as timing and mechanisms of evolution towards magma chamber overpressure and eruption. Our petrologic data indicate that a wide sill-like trachytic magma chamber was active under the Campanian Plain at 2.5 kbar before CI eruption. Thermal exchange between high liquidus (1199 C) trachytic sill and cool country rocks caused intense undercooling, driving a catastrophic and fast (102 years) in situ fractional crystallization and crustal assimilation that produced a water oversaturated phonolitic cap and an overpressure in the chamber that triggered the super eruption. This process culminated in an abrupt reservoir opening and in a fast single-step high decompression. Sanidine phenocrysts crystal size distributions reveal high differentiation rate, thus suggesting that such a sill-like magmatic system is capable of evolving in a very short time and erupting suddenly with only short-term warning.
    Description: Published
    Description: On line First
    Description: 2.3. TTC - Laboratori di chimica e fisica delle rocce
    Description: 3.6. Fisica del vulcanismo
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: JCR Journal
    Description: reserved
    Keywords: Campanian Ignimbrite ; Super eruption ; Crystal size distribution ; Partition coefficients ; 04. Solid Earth::04.04. Geology::04.04.04. Marine geology ; 04. Solid Earth::04.04. Geology::04.04.05. Mineralogy and petrology ; 04. Solid Earth::04.08. Volcanology::04.08.05. Volcanic rocks
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  • 39
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    Probabilistic Volcanic Hazard and Risk Assessment (2007)
    AGU
    Details
    Publication Date: 2022-06-08
    Description: No abstract
    Description: Published
    Description: 318
    Description: 4.3. TTC - Scenari di pericolosità vulcanica
    Description: N/A or not JCR
    Description: partially_open
    Keywords: Probabilistic Volcanic Hazard ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 40
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    Hydrothermal alteration of oceanic crust in the West Philichemistry investigationppine Sea Basin(Ocean Drilling Program Leg 195,Site 1201): inferences from a mineral (2006)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Secondary minerals of a 91 meters-thick sequence of pillow basalts cored during ODP Leg 195 (Site 1201, West Philippine Basin) were investigated to reconstruct the hydrothermal alteration history and regime. The basement was first buried by red clays, and then by a thick turbidite sequence, thereby isolating it from seawater. The basalts are primitive to moderately fractionated, texturally variable from hypocrystalline and spherulitic to intersertal, sub-ophitic and intergranular. Relic primary minerals are plagioclase, clinopyroxene and opaques. Hydrothermal alteration pervasively affected the basalts, generating secondary clay minerals (mostly glauconite, minor Al-saponite and Fe-beidellite, Na-zeolites, minor alkali-feldspar and calcite. The secondary mineral paragenesis and mutual relationships suggest that the hydrothermal alteration occurred under zeolite-facies conditions, at temperatures 100-150 C. The main phase of alteration occurred under oxidizing conditions, with a high seawater rock ratio, in an open-circulation regime, at temperatures of 30-60 C, with precipitation of abundant glauconite and iddingsite. A later stage of alteration occurred at ca. 70 C, with precipitation of abundant Na-zeolites and minor calcite, in a more restricted circulation regime as a consequence of basement burial under the sedimentary cover, which supplied an altered, Ca-rich and Magma-sulfate-poor water causing precipitation of almost pure calcite.
    Description: Published
    Description: 87-112
    Description: open
    Keywords: west Philippine ; Mineral chemistry ; 04. Solid Earth::04.04. Geology::04.04.05. Mineralogy and petrology ; 04. Solid Earth::04.04. Geology::04.04.07. Rock geochemistry
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  • 41
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    Dynamics of 2004–2005 Mt. Etna effusive eruption as inferred from petrologic monitoring (2005)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: From early September to early November, during the 2004–2005 Mt. Etna effusive eruption, petrologic monitoring was enabled by near-vent sampling of erupting lava and onsite SEM-EDS capabilities at INGV-CT. Significant differences in composition and temperature of lava erupted from 2920–2620 m and 2820–2320 m vents, attest to variably evolved shallow magmatic conditions within a geometrically complex storage volume. The petrography and glass compositions of water-quenched samples indicate that the magma feeding the 2004–2005 activity was likely to have been stored in the shallow plumbing system during the 2000 and 2001 activity, where it experienced volatile loss and extensive crystallization. Both geophysical and petrologic data suggest that this eruption was not triggered by the intrusion of a new dike from depth, but it was more likely that existing shallow magma reservoirs were passively mobilized and erupted in response to edifice deformation.
    Description: Published
    Description: 1-5
    Description: partially_open
    Keywords: Mineralogy and Petrology: Petrography, microstructures, and textures ; Mineralogy and Petrology: Igneous petrology ; Volcanology: Eruption mechanisms and flow emplacement ; Volcanology: Volcano monitoring ; 04. Solid Earth::04.04. Geology::04.04.05. Mineralogy and petrology ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring
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  • 42
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    The role of the Pernicana Fault System in the spreading of Mt. Etna (Italy) during the 2002-2003 eruption (2005)
    Springer
    Details
    Publication Date: 2017-04-04
    Description: Flank instability and collapse are observed at many volcanoes. Among these, Mt. Etna is characterized by the spreading of its eastern and southern flanks. The eastern spreading area is bordered to the north by the EW-trending Pernicana Fault System (PFS). During the 20022003 Etna eruption, ground fracturing along the PFS migrated eastward from the NE Rift, to as far as the 18 km distant coastline. The deformation consisted of dextral en-echelon segments, with sinistral and normal kinematics. Both of these components of displacement were one order of magnitude larger (~1 m) in the western, previously known, portion of the PFS with respect to the newly surveyed (~9 km long) eastern section (~0.1 m). This eastern section is located along a pre-existing, but previously unknown, fault, where displaced man-made structures give overall slip rates (11.9 cm/year), only slightly lower than those calculated for the western portion (1.42.3 cm/year). After an initial rapid motion during the first days of the 20022003 eruption, movement of the western portion of the PFS decreased dramatically, while parts of the eastern portion continued to move. These data suggest a model of spreading of the eastern flank of Etna along the PFS, characterized by eruptions along the NE Rift, instantaneous, short-lived, meter-scale displacements along the western PFS and more long-lived centimeter-scale displacements along the eastern PFS. The surface deformation then migrated southwards, reactivating, one after the other, the NNWSSE-trending Timpe and Trecastagni faults, with displacements of ~0.1 and ~0.04 m, respectively. These structures, along with the PFS, mark the boundaries of two adjacent blocks, moving at different times and rates. The new extent of the PFS and previous activity over its full length indicate that the sliding eastern flank extends well below the Ionian Sea. The clustering of seismic activity above 4 km b.s.l. during the eruption suggests a deep décollement for the moving mass. The collected data thus suggests a significant movement (volume 〉1,100 km3) of the eastern flank of Etna, both on-shore and off-shore.
    Description: Published
    Description: 417-430
    Description: partially_open
    Keywords: Volcano spreading ; Fracturing ; Mt. Etna ; Pernicana Fault System ; NE Rift ; 04. Solid Earth::04.04. Geology::04.04.09. Structural geology ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 05. General::05.02. Data dissemination::05.02.03. Volcanic eruptions ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 43
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    Feedback processes between magmatic events and flank movement at Mount Etna (Italy) during the 2002-2003 eruption (2005)
    AGU
    Details
    Publication Date: 2017-04-04
    Description: The 2002–2003 Mount Etna eruption and the associated deformation provide a unique possibility to study the relationships between volcanism and volcano instability. The sequence started with movement of the eastern volcano flank and was associated with earthquakes and the formation of surface ruptures. Then the eruption occurred from fissures at the north and south rift zones and was followed by additional flank movement, seismic swarms, and surface ruptures. The overall area of flank movement implicated more than 700 km2. In this paper we investigate how episodes of magmatic events (eruptions and intrusions) and flank movement interact. In three-dimensional numerical models we simulate the volcano-tectonic events and calculate changes in the static stress field. The models suggest that the 2002–2003 events are the result of interrelated processes consisting of (1) the preeruptive intrusion of magma and inflation of the volcano, which induced (2) the movement of the volcano east flank, (3) facilitated the eruption, and (4) led to the slip of a much larger part of the eastern and southeastern flanks. Understanding the precise interconnectivity of these processes may help to forecast the behavior during future volcanic crisis at Mount Etna, which is crucial in minimizing volcanic and seismic hazards on the highly populated eastern sector of the volcano.
    Description: Published
    Description: 1-12
    Description: partially_open
    Keywords: Mount Etna ; flank instability ; volcano deformation ; volcano-tectonic interaction ; elastic stress field modeling ; 04. Solid Earth::04.08. Volcanology::04.08.03. Magmas ; 04. Solid Earth::04.08. Volcanology::04.08.06. Volcano monitoring ; 04. Solid Earth::04.08. Volcanology::04.08.08. Volcanic risk
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  • 44
    Electronic Resource
    Electronic Resource
    Class I and class II MHC bind self peptide sets that are strikingly different in their evolutionary characteristics (2000)
    Springer
    Immunogenetics 51 (2000), S. 8-15 
    Details
    ISSN: 1432-1211
    Keywords: Key words Antigen presentation ; Autoimmune disease ; Evolution ; MHC ; Self peptides
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Comparison of peptides eluted from human class I and class II major histocompatibility complex (MHC) molecules and the proteins from which they are derived (source proteins) revealed that class I MHC bind peptides derived from proteins that are highly conserved, hydrophilic, and universally expressed, while the peptides themselves are hydrophobic and even more conserved than their source proteins. In contrast, source proteins for class II-bound peptides were not significantly more conserved than a random sample of proteins. Class II-bound peptides were generally more conserved than their source proteins but were significantly less conserved than class I-bound peptides. The characteristics of class I-bound peptides can probably be explained by the selectivity of processing and transport of peptides for binding by class I, while the relative lack of selectivity of peptide binding for class II may explain the high incidence of autoimmune diseases associated with alleles of these molecules.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/s002510050002
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  • 45
    Electronic Resource
    Electronic Resource
    Molecular and functional characterization of a fish inducible-type nitric oxide synthase (2000)
    Springer
    Immunogenetics 51 (2000), S. 339-346 
    Details
    ISSN: 1432-1211
    Keywords: Key words iNOS ; Fish ; Parasite ; Evolution ; Transcription
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Using an oligonucleotide primer based on a partial goldfish inducible nitric oxide synthase (iNOS) sequence, a complete carp iNOS cDNA was isolated from an activated carp phagocyte cDNA library. Nucleotide and predicted amino acid sequence analysis indicate that carp iNOS encodes a 1127-amino acid protein with 57% sequence identity to human iNOS. Like mammalian NOSs, carp iNOS protein contains putative binding sites for heme, tetrahydrobiopterin, calmodulin, flavine mononucleotide, flavine adenine dinucleotide, and NADPH. Phylogenetic analysis, using neighbor joining, showed that the carp iNOS protein clustered together with the other vertebrate iNOS proteins. Inducibility of carp iNOS was confirmed by reverse transcription-polymerase chain reaction after stimulation of carp phagocytes with lipopolysaccharide or the protozoan blood flagellate Trypanoplasma borreli. These stimulators produced high amounts of nitric oxide that were toxic for T. borreli in vitro. The nuclear transciption factor NF-κB was shown to play a role in the induction of iNOS transcription.
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    Major histocompatibility complex class I diversity in a West African chimpanzee population: implications for HIV research (2000)
    Springer
    Immunogenetics 51 (2000), S. 398-409 
    Details
    ISSN: 1432-1211
    Keywords: Key words HLA ; Patr class I molecules ; Evolution ; Polymorphism ; AIDS
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Human immunodefiency virus (HIV) poses a major threat to humankind. And though, like humans, chimpanzees are susceptible to HIV infection, they are considered to be resistant to the development of the acquired immune deficiency syndrome (AIDS). Little is known about major histocompatibility complex (MHC) class I diversity in chimpanzee populations and, moreover, whether qualitative aspects of Patr class I molecules may control resistance to AIDS. To address these questions, we assayed MHC class I diversity in a West African chimpanzee population and in some animals from other subspecies of chimpanzee. Application of different techniques allowed the detection of 17 full-length Patr-A, 19 Patr-B, and 10 Patr-C alleles. All Patr-A alleles cluster only into the HLA-A1/A3/A11 family, which supports the idea that chimpanzees have experienced a reduction in their repertoire of A locus alleles. The Patr-B alleles do not cluster in the same lineages as their human equivalents, due to frequent exchange of polymorphic sequence motifs. Furthermore, polymorphic motifs may have been exchanged between Patr-A and Patr-B loci, resulting in convergence. With regard to evolutionary stability, the Patr-C locus is more similar to the Patr-A locus than it is to the Patr-B locus. Despite the relatively low number of animals analyzed, humans and chimpanzees were ascertained as sharing similar degrees of diversity at the contact residues constituting the B and F pockets in the peptide-binding side of MHC class I molecules. Our results indicate that within a small sample of a West African chimpanzee population, a high degree of Patr class I diversity is encountered. This is in agreement with the fact that chimpanzees display more mitochondrial DNA variation than humans. In addition, population analyses demonstrated that particular Patr-B molecules, with the capacity to bind conserved HIV-1 epitopes, are characterized by high gene frequencies. These findings have important implications for evaluating immune responses in HIV vaccine studies and, more importantly, may help in understanding the relative resistance of chimpanzees to AIDS.
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    Is a mutator analogous to the Ig hypermutator of the sheep ileal Peyer's patch active on MHC class I genes in the germ line? (2000)
    Springer
    Immunogenetics 51 (2000), S. 462-472 
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    ISSN: 1432-1211
    Keywords: Key words HLA genes ; IgV genes ; Evolution ; Gene conversion ; Sheep ileal Peyer's patch
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Polymorphic sequence variation in the peptide-binding domains of MHC class I molecules appears to have been driven largely by the constructive action of natural selection on the specificity of the peptide-binding groove. Similar features are displayed by the variable domains of immunoglobulins generated in the sheep ileal Peyer's patch, but in this case there is evidence that the action of a targeted hypermutator acting on a selected substrate rather than antigen-driven selection is responsible for the pattern of variation in the system. Such a hypermutator acting in the germ line would not only mimic the action of natural selection but also, by convergent mutation, generate similar patterns of variation in unrelated alleles that could be interpreted as evidence for short-tract gene conversion. We analyzed human class I MHC alleles in the light of these data, but failed to find evidence of the action of a similar hypermutator. A search for other mutationally driven patterns of variation also failed, even in hypervariable residues from parsimonious phylogenies. Single-nucleotide variation at these residues is also frequent in recent allelic variants, but the data are as consistent with short-tract gene conversion as with base mutation. We conclude that the patterns of allelic variation in MHC molecules are not driven by mutational pressure, but rather by conventional mutational processes, accompanied by short-tract gene conversion and intense natural selection.
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    The sequence of J chain in an amphibian, Rana catesbeiana (2000)
    Springer
    Immunogenetics 51 (2000), S. 587-590 
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    ISSN: 1432-1211
    Keywords: Key words J chain ; Immunoglobulin ; Amphibian ; Evolution ; Comparative immunology
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
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    URL: http://dx.doi.org/10.1007/s002510000169
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    A novel Mhc-B-related processed pseudogene in two species of New World primates (2000)
    Springer
    Immunogenetics 51 (2000), S. 606-609 
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    ISSN: 1432-1211
    Keywords: Key words MHC ; Evolution ; Primate ; Callithrix ; Callicebus
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
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    URL: http://dx.doi.org/10.1007/s002519900143
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    The arbuscular mycorrhizas of pteridophytes in Yunnan, southwest China: evolutionary interpretations (2000)
    Springer
    Mycorrhiza 10 (2000), S. 145-149 
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    ISSN: 1432-1890
    Keywords: Keywords Arbuscular mycorrhiza ; Pteridophyte ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  The percentage of arbuscular mycorrhizal pteridophytes among 256 pteridophyte species distributed in Yunnan (southwest China) was found to be lower than that in angiosperms. In the pteridophytes, the occurrence of arbuscular mycorrhizas was low in sporophytes of fern-allies and leptosporangiates, whereas in the eusporangiates it was relatively high. From the standpoint of mycotrophism, the evolutionary trend in the Filicineae may be from constantly mycorrhizal to facultative mycorrhizal and finally to nonmycorrhizal plants.
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    Multiple motor patterns in the stomatogastric ganglion of the shrimp Penaeus japonicus (2000)
    Springer
    Journal of comparative physiology 186 (2000), S. 105-118 
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    ISSN: 1432-1351
    Keywords: Key words Stomatogastric nervous system ; Penaeus ; Motor pattern ; Neural network ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Motor patterns of the cardiac sac, the gastric and the pyloric network in the stomatogastric nervous system of the shrimp Penaeus japonicus, the most primitive decapod species, were studied. Single neurons can switch from the gastric or the pyloric pattern to the cardiac sac pattern. Some of the pyloric neurons fire with the gastric pattern. All of the gastric neurons fire with the pyloric pattern, unlike those in reptantians. Proctolin activates and modulates the cardiac sac and the pyloric rhythm, and promotes reconfiguration of the networks. Neurons of the three networks have so many interconnections that they construct a multifunctional neural network like those in Cancer. This network may function in different configurations under the appropriate conditions. Several modes of interactions between the networks found in different reptantian species can apply to the penaeidean shrimp. Such interactions are general features of the stomatogastric nervous system in decapods. Phylogenetic differences among the decapod infraorders are seen in the number and orientation of muscles and the innervation pattern of muscles. The multifunctional networks have existed in the most primitive decapod species, and types of configurations of the networks would have evolved to produce a wide range of motor patterns as the foregut structure has become complex.
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    Origin of the paired domain (2000)
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    Development genes and evolution 210 (2000), S. 644-650 
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    ISSN: 1432-041X
    Keywords: Keywords Pax protein ; Paired domain ; Homeobox ; Transposase ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  Pax proteins play a diverse role in early animal development and contain the characteristic paired domain, consisting of two conserved helix-turn-helix motifs. In many Pax proteins the paired domain is fused to a second DNA binding domain of the paired-like homeobox family. By amino acid sequence alignments, secondary structure prediction, 3D-structure comparison, and phylogenetic reconstruction, we analyzed the relationship between Pax proteins and members of the Tc1 family of transposases, which possibly share a common ancestor with Pax proteins. We suggest that the DNA binding domain of an ancestral transposase (proto-Pax transposase) was fused to a homeodomain shortly after the emergence of metazoans about one billion years ago. Using the transposase sequences as an outgroup we reexamined the early evolution of the Pax proteins. Our novel evolutionary scenario features a single homeobox capturing event and an early duplication of Pax genes before the divergence of porifera, indicating a more diverse role of Pax proteins in primitive animals than previously expected.
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    The evolution of paired appendages in vertebrates: T-box genes in the zebrafish (2000)
    Springer
    Development genes and evolution 210 (2000), S. 82-91 
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    ISSN: 1432-041X
    Keywords: Key words T-box genes ; Zebrafish ; Fins ; Evolution ; Gene duplication
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  The presence of two sets of paired appendages is one of the defining features of jawed vertebrates. We are interested in identifying genetic systems that could have been responsible for the origin of the first set of such appendages, for their subsequent duplication at a different axial level, and/or for the generation of their distinct identities. It has been hypothesized that four genes of the T-box gene family (Tbx2–Tbx5) played important roles in the course of vertebrate limb evolution. To test this idea, we characterized the orthologs of tetrapod limb-expressed T-box genes from a teleost, Danio rerio. Here we report isolation of three of these genes, tbx2, tbx4, and tbx5. We found that their expression patterns are remarkably similar to those of their tetrapod counterparts. In particular, expression of tbx5 and tbx4 is restricted to pectoral and pelvic fin buds, respectively, while tbx2 can be detected at the anterior and posterior margins of the outgrowing fin buds. This, in combination with conserved expression patterns in other tissues, suggests that the last common ancestor of teleosts and tetrapods possessed all four of these limb-expressed T-box genes (Tbx2–Tbx5), and that these genes had already acquired, and have subsequently maintained, their gene-specific functions. Furthermore, this evidence provides molecular support for the notion that teleost pectoral and pelvic fins and tetrapod fore- and hindlimbs, respectively, are homologous structures, as suggested by comparative morphological analyses.
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    A role for Fringe in segment morphogenesis but not segment formation in the grasshopper, Schistocerca gregaria (2000)
    Springer
    Development genes and evolution 210 (2000), S. 329-336 
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    ISSN: 1432-041X
    Keywords: Key words Development ; Evolution ; Notch ; Insect
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  Studies of somitogenesis in vertebrates have identified a number of genes that are regulated by a periodic oscillator that patterns the pre-somitic mesoderm. One of these genes, hairy, is homologous to a Drosophila segmentation gene that also shows periodic spatial expression. This, and the periodic expression of a zebrafish homologue of hairy during somitogenesis, has suggested that insect segmentation and vertebrate somitogenesis may use similar molecular mechanisms and possibly share a common origin. In chicks and mice expression of the lunatic fringe gene also oscillates in the presomitic mesoderm. Fringe encodes an extracellular protein that regulates Notch signalling. This, and the finding that mutations in Notch or its ligands disrupt somite patterning, suggests that Notch signalling plays an important role in vertebrate somitogenesis. Although Notch signalling is not known to play a role in the formation of segments in Drosophila, we reasoned that it might do so in other insects such as the grasshopper, where segment boundaries form between cells, not between syncytial nuclei as they do in Drosophila. Here we report the cloning of a single fringe gene from the grasshopper Schistocerca. We show that it is not detectably expressed in the forming trunk segments of the embryo until after segment boundaries have formed. We conclude that fringe is not part of the mechanism that makes segments in Schistocerca. Thereafter it is expressed in a pattern which shows that it is a downstream target of the segmentation machinery and suggests that it may play a role in segment morphogenesis. Like its Drosophila counterpart, Schistocerca fringe is also expressed in the eye, in rings in the legs, and during oogenesis, in follicle cells.
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    Volcanic history of El Chichón Volcano (Chiapas, Mexico) during the Holocene, and its impact on human activity (2000)
    Springer
    Bulletin of volcanology 62 (2000), S. 90-104 
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    ISSN: 1432-0819
    Keywords: Stratigraphy ; Evolution ; El Chichón ; México
    Source: Springer Online Journal Archives 1860-2000
    Topics: Geosciences
    Notes: 2 abundance and depletion in MgO, CaO, TiO2, as well as trace and rare earth elements. This suggests segregation of olivine and orthopyroxene from the melt. Since human settlements in southeast Mexico and Central America can be traced as far back as approximately 2500 years BP, most of these events probably affected human activity. In fact, there are reports of pottery shards and other artifacts in deposits from the eruption of 1250 BP. Pottery fragments in deposits of an eruption that took place 2500 BP are also reported in this paper. Thus, the impact of the volcano on human activities has been frequent, with most of the repose intervals lasting between 100 to 600 years. The impact of the eruptions was probably of greater than local extent, because airfall tephra could reach distant sites and possibly even affect weather. The eruptive history of El Chichón also offers clues in the investigation of the Maya civilization. Several researchers have considered the volcano as an important factor in the answer to some intriguing questions such as the extensive use of volcanic ash in Late Classic Maya ceramics or, of greater importance, the causes of the collapse of the Classic Maya civilization.
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    The genomic organization and evolution of the natural killer immunoglobulin-like receptor (KIR) gene cluster (2000)
    Springer
    Immunogenetics 51 (2000), S. 268-280 
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    ISSN: 1432-1211
    Keywords: Key words KIR ; Multigene family ; Gene duplication ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract. Natural killer (NK) immunoglobulin-like receptors (KIRs) are a family of polymorphic receptors which interact with specific motifs on HLA class I molecules and modulate NK cytolytic activity. In this study, we analyzed a recently sequenced subgenomic region on chromosome 19q13.4 containing eight members of the KIR receptor repertoire. Six members are clustered within a 100-kb continuous sequence. These genes include a previously unpublished member of the KIR gene family 2DS6, as well as 2DL1, 2DL4, 3DL1, 2DS4, 3DL2, from centromere to telomere. Two additional KIR genes, KIRCI and 2DL3, which may be located centromeric of this cluster were also analyzed. We show that the KIR genes have undergone repeated gene duplications. Diversification between the genes has occurred postduplication primarily as a result of retroelement indels and gene truncation. Using pre- and postduplication Alu sequences identified within these genes as evolutionary molecular clocks, the evolution and duplication of this gene cluster is estimated to have occurred 30–45 million years ago, during primate evolution. A proposed model of the duplication history of the KIR gene family leading to their present organization is presented.
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    Isolation of the HLA-H orthologue in gorillas and chimpanzees (2000)
    Springer
    Immunogenetics 51 (2000), S. 69-74 
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    ISSN: 1432-1211
    Keywords: Key words MHC class I ; Pseudogene ; Evolution ; Gorilla ; Chimpanzee
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
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    Characterization of approximately 50 kb of the immunoglobulin VH locus of the Japanese pufferfish, Fugu rubripes (2000)
    Springer
    Immunogenetics 51 (2000), S. 443-451 
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    ISSN: 1432-1211
    Keywords: Key words Immunoglobulin ; Fugu ; VH family ; Teleosts ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract. The variable region of the immunoglobulin heavy chain is created by a somatic rearrangement of a limited number of germline genes. This mechanism of gene assembly [V(D)J recombination] has been found to take place only in jawed vertebrates (gnathostomes). To understand how this mechanism evolved and diversified it is necessary to study the genomic organization of the heavy-chain gene in different vertebrate lineages. Since there is scant sequence information on the VH locus in fish, shotgun sequencing of a cosmid clone containing part of the VH genomic region of the Japanese pufferfish, Fugu rubripes, was undertaken. Eight full-length VH genes were isolated and characterized. They have higher homology to trout genes, but show the same structural features as VHs found in other vertebrates. Two VH subgroups have been identified whose members are interspersed. The frequency of synonymous and nonsynonymous substitution for VH comparisons between family members was found to be higher in the complementarity-determining regions than in the framework regions. Finally, there are four other genes interspersed with the VH genes, one of which is the first full-length retrotransposon element characterized in vertebrates.
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    Cloning and expression of the chicken immunoglobulin joining (J)-chain cDNA (2000)
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    Immunogenetics 51 (2000), S. 85-91 
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    ISSN: 1432-1211
    Keywords: Key words J chain ; Polymeric immunoglobulin ; Ontogeny ; Evolution ; Comparative immunology
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  The J chain is a component of polymeric immunoglobulin (Ig) molecules and may play an important role in their polymerization and the transport of polymeric Ig across epithelial cells. In this study, the primary structure of the chicken J chain was determined by sequencing cDNA clones. The cDNA had an open reading frame of 476 nucleotides encoding a putative protein of 158 amino acid residues including the signal sequence. The 3′ untranslated region consisted of 1216 nucleotides and a poly(A) tail. The deduced amino acid sequence of the chicken J chain had a high degree of homology to that of human, cow, rabbit, mouse, frog, and earthworm, with eight conserved Cys residues identical to the mammalian J chains. Northern blot hybridization performed with total RNA from various chicken tissues revealed high levels of J-chain mRNA expression in spleen, intestine, Harderian gland, and bursa of Fabricius, and low levels in the thymus. The J chain was expressed in the bursa as early as day 15 of embryogenesis. These data indicated that the chicken J-chain gene displays a high degree of homology with that of other species, and is expressed at an early stage of development of the chicken immune system.
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    Is atmospheric CO2 a selective agent on model C3 annuals? (2000)
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    Oecologia 123 (2000), S. 330-341 
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    ISSN: 1432-1939
    Keywords: Key words  Arabidopsis thaliana ; Carbon dioxide ; Evolution ; Reproduction ; Selection
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  Atmospheric CO2 partial pressure (pCO2) was as low as 18 Pa during the Pleistocene and is projected to increase from 36 to 70 Pa CO2 before the end of the 21st century. High pCO2 often increases the growth and reproduction of C3 annuals, whereas low pCO2 decreases growth and may reduce or prevent reproduction. Previous predictions regarding the effects of high and low pCO2 on C3 plants have rarely considered the effects of evolution. Knowledge of the potential for evolution of C3 plants in response to CO2 is important for predicting the degree to which plants may sequester atmospheric CO2 in the future, and for understanding how plants may have functioned in response to low pCO2 during the Pleistocene. Therefore, three studies using Arabidopsis thaliana as a model system for C3 annuals were conducted: (1) a selection experiment to measure responses to selection for high seed number (a major component of fitness) at Pleistocene (20 Pa) and future (70 Pa) pCO2 and to determine changes in development rate and biomass production during selection, (2) a growth experiment to determine if the effects of selection on final biomass were evident prior to reproduction, and (3) a reciprocal transplant experiment to test if pCO2 was a selective agent on Arabidopsis. Arabidopsis showed significant positive responses to selection for high seed number at both 20 and 70 Pa CO2 during the selection process. Furthermore, plants selected at 20 Pa CO2 performed better than plants selected at 70 Pa CO2 under low CO2 conditions, indicating that low CO2 acted as a selective agent on these annuals. However, plants selected at 70 Pa CO2 did not have significantly higher seed production than plants selected at 20 Pa CO2 when grown at high pCO2. Nevertheless, there was some evidence that high CO2 may also be a selective agent because changes in development rate and biomass production during selection occurred in opposite directions at low and high pCO2. Plants selected at high pCO2 showed no change or reductions in biomass relative to control plants due to a decrease in the length of the life cycle, as indicated by earlier initiation of flowering and senescence. In contrast, selection at low CO2 resulted in an average 35% increase in biomass production, due to an increase in the length of the life cycle that resulted in a longer period for biomass accumulation before senescence. From the Arabidopsis model system we conclude that some C3 annuals may have produced greater biomass in response to low pCO2 during the Pleistocene relative to what has been predicted from studies exposing a single generation of C3 plants to low pCO2. Furthermore, C3 annuals may exhibit evolutionary responses to high pCO2 in the future that may result in developmental changes, but these are unlikely to increase biomass production. This series of studies shows that CO2 may potentially act as a selective agent on C3 annuals, producing changes in development rate and carbon accumulation that could not have been predicted from single-generation studies.
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    The plasma membrane H+-ATPase gene family in the arbuscular mycorrhizal fungus Glomus mosseae (2000)
    Springer
    Current genetics 37 (2000), S. 112-118 
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    ISSN: 1432-0983
    Keywords: Key words Arbuscular mycorrhizas ; Evolution ; Glomus mosseae ; Plasma membrane H+-ATPase genes
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  To identify genes that encode plasma membrane H+-ATPases in the arbuscular mycorrhizal fungus Glomus mosseae two sets of degenerate primers matching highly conserved motifs present in all plant and fungal ATPases were designed. Nested PCR-amplification of G. mosseae genomic DNA using the designed degenerate primers was carried out. Sequence analysis of the cloned PCR products identified five different clones (GmHA1, GmHA2, GmHA3, GmHA4 and GmHA5) encoding putative plasma membrane H+-ATPases. Comparison of the deduced amino-acid sequences of GmHA1–GmHA5 indicate that GmHA1, GmHA3 and GmHA4 are highly identical, while GmHA2 and GmHA5 are more divergent. The evolutionary and functional significance of the divergence found among the different members of the H+-ATPase gene family in G. mosseae is discussed.
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    Conservation and variability of sequence-tagged microsatellite sites (STMSs) from chickpea (Cicer aerietinum L.) within the genus Cicer (2000)
    Springer
    Theoretical and applied genetics 101 (2000), S. 269-278 
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    ISSN: 1432-2242
    Keywords: Key words Cicer species ; Microsatellites ; Zero-allele ; Phylogenetic tree ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  The conservation of 90 microsatellite-flanking sequences from chickpea in 39 accessions of eight annual and 1 accession of a perennial species of the genus Cicer was investigated. All of the primer sequences successfully amplified microsatellites in related species, indicating the conservation of microsatellite-flanking sequences in chickpea’s relatives. However, the degree of conservation of the primer sites varied between species depending on their known phylogenetic relationship to chickpea, ranging from 92.2% in C. reticulatum, chickpea’s closest relative and potential ancestor, down to 50% for C. cuneatum. A phylogenetic tree revealed that chickpea and the other members of its crossability group were more closely related to the perennial C. anatolicum than to other annual species of the genus. Considerable variation in size and number of amplification products between and within species was observed. Sequence analysis of highly divergent amplification products proved that variation is either due to large differences in the number of microsatellite repeats or to the amplification of a locus unrelated to the one amplified from chickpea. Sequence information and bootstrapping using PAUP suggested that STMSs derived from chickpea may be efficiently and reliably used for synteny studies in chickpea’s crossability group, including C. anatolicum. However, care should be taken when applying these markers to other species of the genus. Considering the data presented here and the known historical record, the age of section Monocicer, including chickpea, is estimated to be about 100,000 years.
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    The genetic basis of seed-weight variation: tomato as a model system (2000)
    Springer
    Theoretical and applied genetics 100 (2000), S. 1267-1273 
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    ISSN: 1432-2242
    Keywords: Keywords Domestication ; Evolution ; QTL ; Map-based cloning ; Lycopersicon esculentum
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  The seeds of domesticated plants are normally much larger than those of their wild counterparts. This change in seed weight was most likely in response to the selection pressure for yield, uniform germination and seedling vigor which was exerted by humans during domestication. However, despite the evolutionary and agronomic significance of seed weight, very little is know about the genetic and developmental controls of this trait; and, thus far, none of the genes in this pathway have been isolated from any plant species. QTL mapping experiments conducted in tomato during the past decade have allowed the identification of many seed-weight QTLs and have also revealed that only a few loci are responsible for the majority of the seed-weight changes that accompanied the domestication of tomato. This review presents a consensus map for seed weight QTL identified in previously published reports and in unpublished results from our laboratory. This summary of seed-weight QTL data allows for the identification of the major loci controlling this trait in the genus Lycopersicon. It is hoped that this work will allow the elucidation of this important phenotypic transition that occurred during crop-plant domestication and will also provide the starting point for the cloning of a gene responsible for seed-weight variation.
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    URL: http://dx.doi.org/10.1007/s001220051433
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    Geographic distribution and multilocus organization of isozyme variation of rice (Oryza sativa L.) (2000)
    Springer
    Theoretical and applied genetics 101 (2000), S. 379-387 
    Details
    ISSN: 1432-2242
    Keywords: Key words Rice ; Isozyme variation ; Multilocus organization ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  Genetic organization of isozyme variation in rice (Oryza sativa L.) was investigated based on 17 polymorphic isozyme loci using a sample of 511 accessions of worldwide origin. The genetic diversity within the species was very high (H=0.36 with 4.82 alleles per locus), as compared with most selfing plant species. Three diversity centers were detected for isozyme variation including South Asia, China and Southeast Asia. The accessions were classified into three well-differentiated cultivar groups corresponding to the indica and japonica subspecies, and a new unnamed group. Variation within the cultivar groups accounted for 80% of the total isozyme variation. Within-country variation accounted for 58% of the total variation while among-region and among-country variation within the cultivar groups accounted for only 14% and 8% of the total variation. Analyses using log-linear models revealed that pronounced non-random associations between and among alleles at many unlinked isozyme loci were organized in a non-hierarchical pattern, and subspecific and macro-geographic differentiation was much more pronounced in multilocus phenotype frequencies than in allelic frequencies at individual loci. These results suggest that selection on multilocus gene complexes was largely responsible for the maintenance of the extensive isozyme variation within the species and the indica-japonica differentiation. Our results further suggest the independent domestication of indica and japonica, the dual origins of the indica rice from China and South Asia (India), and the differentiation of the ecotypes ’javanica’ and the ’temperate japonica’ within the japonica subspecies.
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    URL: http://dx.doi.org/10.1007/s001220051494
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    The development of oat microsatellite markers and their use in identifying relationships among Avena species and oat cultivars (2000)
    Springer
    Theoretical and applied genetics 101 (2000), S. 1259-1268 
    Details
    ISSN: 1432-2242
    Keywords: Key words Enriched-library ; SSR ; Repetitive elements ; Allelic diversity ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  Microsatellites have many desirable marker properties. There has been no report of the development and utilization of microsatellite markers in oat. The objectives of the present study were to construct oat microsatellite-enriched libraries, to isolate microsatellite sequences and evaluate their level of polymorphism in Avena species and oat cultivars. One hundred clones were isolated and sequenced from three oat microsatellite-libraries enriched for either (AC/TG) n , (AG/TC) n or (AAG/TTC) n repeats. Seventy eight clones contained microsatellites. A database search showed that 42% of the microsatellite flanking sequences shared significant homology with various repetitive elements. Alu and retrotransposon sequences were the two largest groups associated with the microsatellites. Forty four primer sets were used to amplify the DNA from 12 Avena species and 20 Avena sativa cultivars. Sixty two percent of the primers revealed polymorphism among the Avena species, but only 36% among the cultivars. In the cultivars, the microsatellites associated with repetitive elements were less polymorphic than those not associated with repetitive elements. Only 25% of the microsatellites associated with repetitive elements were polymorphic, while 46% of the microsatellites not associated with repetitive elements showed polymorphism in the cultivars. An average of four alleles with a polymorphism information content (PIC) of 0.57 per primer set was detected among the Avena species, and 3.8 alleles with a PIC of 0.55 among the cultivars. In addition, 54 barley microsatellite primers were tested in Avena species and 26% of the primers amplified microsatellites from oat. Using microsatellite polymorphisms, dendrograms were constructed showing phylogenetic relationships among Avena species and genetic relationships among oat cultivars.
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    URL: http://dx.doi.org/10.1007/s001220051605
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    Does phylogenetic inertia explain the evolution of ineffective antipredator behavior in a sunfish-salamander system? (2000)
    Springer
    Behavioral ecology and sociobiology 49 (2000), S. 48-56 
    Details
    ISSN: 1432-0762
    Keywords: Keywords Antipredator behavior ; Phylogenetic inertia ; Conflicting selection pressures ; Evolution ; Salamanders
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  The streamside salamander, Ambystoma barbouri, exhibits ineffective antipredator behavior (high emergence rate from refuge, and high activity while out of refuge) and thus suffers heavy predation in stream pools with sunfish. A. barbouri evolved relatively recently from an ancestor that closely resembled a sister species, A. texanum, which breeds in fishless, ephemeral ponds. Sunfish thus represent a relatively new selection pressure for A. barbouri. Phylogenetic inertia predicts that (1) A. texanum should be very poor at coping with fish and (2) because it has only recently been exposed to fish, A. barbouri should still be poor at avoiding fish, but due to its recent exposure to fish, A. barbouri should be better than A. texanum at coping with sunfish. Experimental results provided mixed support for these predictions. As predicted, A. texanum suffered heavy sunfish predation. Compared to A. texanum, A. barbouri showed a greater tendency to initiate alarm moves that enhanced escape success from fish. However, in both the presence and absence of fish, A. barbouri showed higher emergence rates from refuge and higher movement while out of refuge than A. texanum. These behaviors tend to increase exposure to sunfish, i.e., for these key behaviors, A. barbouri apparently evolved in the wrong direction as far as fish predation is concerned. Due to these offsetting effects (increased exposure to fish, increased escape success), A. barbouri is no better at surviving with sunfish than A. texanum. A possible explanation for the high activity of A. barbouri is its use of highly ephemeral habitats (relative to A. texanum) that favor the evolution of higher activity, feeding, and developmental rates for A. barbouri relative to A. texanum.
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    URL: http://dx.doi.org/10.1007/s002650000263
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    Acquisition of a potential marker for insect transformation: isolation of a novel alcohol dehydrogenase gene from Bactrocera oleae by functional complementation in yeast (2000)
    Springer
    Molecular genetics and genomics 263 (2000), S. 90-95 
    Details
    ISSN: 1617-4623
    Keywords: Key wordsDrosophila melanogaster ; Ceratitis capitata ; Tephritids ; Evolution ; Dacus
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The alcohol dehydrogenase genes make up one of the best studied gene families in Drosophila, both in terms of expression and evolution. Moreover, alcohol dehydrogenase genes constitute potential versatile markers in insect transformation experiments. However, due to their rapid evolution, these genes cannot be cloned from other insect genera by DNA hybridization or PCR-based strategies. We have therefore explored an alternative strategy: cloning by functional complementation of appropriate yeast mutants. Here we report that two alcohol dehydrogenase genes from the medfly Ceratitis capitata can functionally replace the yeast enzymes, even though the medfly and yeast genes have evolved independently, acquiring their enzymatic function convergently. Using this method, we have cloned an alcohol dehydrogenase gene from the olive pest Bactrocera oleae. We conclude that functional complementation in yeast can be used to clone alcohol dehydrogenase genes that are unrelated in sequence to those of yeast, thus providing a powerful tool for isolation of dominant insect transformation marker genes.
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    URL: http://dx.doi.org/10.1007/PL00008679
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    The mitochondrial DNA of Dictyostelium discoideum: complete sequence, gene content and genome organization (2000)
    Springer
    Molecular genetics and genomics 263 (2000), S. 514-519 
    Details
    ISSN: 1617-4623
    Keywords: Key wordsDictyostelium discoideum ; Mitochondrial DNA ; Genome sequencing ; Genetic map ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract We present an overview of the gene content and organization of the mitochondrial genome of Dictyostelium discoideum. The mitochondria genome consists of 55,564 bp with an A + T content of 72.6%. The identified genes include those for two ribosomal RNAs (rnl and rns), 18 tRNAs, ten subunits of the NADH dehydrogenase complex (nad1, 2, 3, 4, 4L, 5, 6, 7, 9 and 11), apocytochrome b (cytb), three subunits of the cytochrome oxidase (cox1/2 and 3), four subunits of the ATP synthase complex (atp1, 6, 8 and 9), 15 ribosomal proteins, and five other ORFs, excluding intronic ORFs. Notable features of D. discoideum mtDNA include the following. (1) All genes are encoded on the same strand of the DNA and a universal genetic code is used. (2) The cox1 gene has no termination codon and is fused to the downstream cox2 gene. The 13 genes for ribosomal proteins and four ORF genes form a cluster 15.4 kb long with several gene overlaps. (3) The number of tRNAs encoded in the genome is not sufficient to support the synthesis of mitochondrial protein. (4) In total, five group I introns reside in rnl and cox1/2, and three of those in cox1/2 contain four free-standing ORFs. We compare the genome to other sequenced mitochondrial genomes, particularly that of Acanthamoeba castellanii.
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    URL: http://dx.doi.org/10.1007/PL00008685
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    Cooperative exploration of distributed worlds in WAVE (2000)
    Springer
    Artificial life and robotics 4 (2000), S. 109-118 
    Details
    ISSN: 1614-7456
    Keywords: Parallel and distributed processing ; Space navigation ; Evolution ; WAVE model ; Cooperative behavior ; Mobile robots
    Source: Springer Online Journal Archives 1860-2000
    Topics: Computer Science
    Notes: Abstract This paper modifies the WAVE model for parallel processing in virtual networks to explore and process continuous physical worlds. Expressing distributed activity by cooperative jobs spreading in space and “seeing” each other, rather than as vehicles exchanging messages, the model allows complex missions to be planned in a very flexible manner, with mobile hardware being assigned to the evolving space-conquering programs (waves) dynamically, when required or available. A number of cooperative scenarios in a physical world demonstrate the simplicity and compactness of the wave code. The execution of waves by mobile hardware is discussed, including run-time mapping of waves to vehicles, and supporting multiple distributed jobs in cases of hardware shortages. WAVE can be used efficiently for solving complex problems in space by organized groups of cheap specialized mobile robots, where intelligent behavior is provided by very high level of system organization rather than by the smartness of individual units. In a broader sense, it may also serve as a basic technology for parallel and distributed simulation, and the management of evolution and self-organization of large open systems of different natures.
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    URL: http://dx.doi.org/10.1007/BF02480865
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    Transfer RNA Identity Change in Anticodon Variants of E. coli tRNAPhe in Vivo (2000)
    Springer
    Molecules and cells 10 (2000), S. 76-82 
    Details
    ISSN: 0219-1032
    Keywords: Anticodon ; Evolution ; Identity ; tRNA
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The anticodon sequence is a major recognition element for most aminoacyl-tRNA synthetases. We investigated the in vivo effects of changing the anticodon on the aminoacylation specificity in the example of E. coli tRNAPhe. Constructing different anticodon mutants of E. coli tRNAPhe by site-directed mutagenesis, we isolated 22 anticodon mutant tRNAPhe; the anticodons corresponded to 16 amino acids and an opal stop codon. To examine whether the mutant tRNAs had changed their amino acid acceptor specificity in vivo, we tested the viability of E. coli strains containing these tRNAPhe genes in a medium which permitted tRNA induction. Fourteen mutant tRNA genes did not affect host viability. However, eight mutant tRNA genes were toxic to the host and prevented growth, presumably because the anticodon mutants led to translational errors. Many mutant tRNAs which did not affect host viability were not aminoacylated in vivo. Three mutant tRNAs containing anticodon sequences corresponding to lysine (UUU), methionine (CAU) and threonine (UGU) were charged with the amino acid corresponding to their anticodon, but not with phenylalanine. These three tRNAs and tRNAPhe are located in the same cluster in a sequence similarity dendrogram of total E. coli tRNAs. The results support the idea that such tRNAs arising from in vivo evolution are derived by anticodon change from the same ancestor tRNA.
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    URL: http://dx.doi.org/10.1007/s10059-000-0076-7
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    Purification and characterization of an ADP-dependent phosphofructokinase from Thermococcus zilligii (1999)
    Springer
    Extremophiles 3 (1999), S. 121-129 
    Details
    ISSN: 1433-4909
    Keywords: Key words Thermococcus ; Pyrococcus ; Thermophilic ; Phosphofructokinase ; Evolution ; ADP ; Glycolysis ; ATP
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The ADP-dependent phosphofructokinase (PFK) from Thermococcus zilligii has been purified 950 fold; it had a specific activity of 190 U mg−1. The enzyme required Mg2+ ions for optimal activity and was specific for ADP. The forward reaction kinetics were hyperbolic for both cosubstrates (pH optimum of 6.4), and the apparent K m values for ADP and fructose-6-phosphate were 0.6 mM (apparent V max of 243 U mg−1) and 1.47 mM (apparent V max of 197 U mg−1), respectively. Significantly, the enzyme is indicated to be nonallosteric but was slightly activated by some monovalent cations including Na+ and K+. The protein had a subunit size of 42.2 kDa and an estimated native molecular weight of 66 kDa (gel filtration). Maximal reaction rates for the reverse reaction were attained at pH 7.5–8.0, and the apparent K m values for fructose-1,6-bisphosphate and AMP were 0.56 mM (apparent V max of 2.9 U mg−1) and 12.5 mM, respectively. The biochemical characteristics of this unique ADP-dependent enzymatic activity are compared to ATP and pyrophosphate-dependent phosphofructokinases.
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    Isolation of a chymotrypsinogen B-like enzyme from the archaeon Natronomonas pharaonis and other halobacteria (1999)
    Springer
    Extremophiles 3 (1999), S. 153-161 
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    ISSN: 1433-4909
    Keywords: Key wordsNatronomonas pharaonis ; Natronobacteria ; Archaea ; Serine protease ; Chymotrypsinogen ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract A protease of a molecular mass of approximately 30 kDa was isolated and purified from the haloalkaliphilic archaeon Natronomonas (formerly Natronobacterium) pharaonis. The enzyme hydrolyzed synthetic peptides, preferentially at the carboxyl terminus of phenylalanine or leucine, as well as large proteins. Hydrolysis occurred over the range of pH from 6 to 12, with an optimum at pH 10. The temperature optimum was 61°C. The enzyme was nearly equally active over the range of salt concentration from 0.5 to 4 M (NaCl or KCl). A strong cross-reaction with a polyclonal antiserum against human chymotrypsin was observed. Enzymatic activity was inhibited by typical serine protease inhibitors. There was significant homology between N-terminal and internal sequences from autolytic fragments and the sequence of bovine chymotrypsinogen B; the overall amino acid composition was similar to that of vertebrate chymotrypsinogens. Evidence for a zymogen-like processing of the protease was obtained. Cell extracts from other halobacteria exhibited similar proteolytic activity and immunoreactivity. The data suggested a widespread distribution of a chymotrypsinogen B-like protease among halo- and haloalkaliphilic Archaea.
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    Multiple class I loci expressed by the quail Mhc (1999)
    Springer
    Immunogenetics 49 (1999), S. 456-460 
    Details
    ISSN: 1432-1211
    Keywords: Key words Antigen processing ; Evolution ; Cell surface molecules ; Mhc ; Class I antigens
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
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    URL: http://dx.doi.org/10.1007/s002510050519
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    Identification and characterization of a fish natural resistance-associated macrophage protein (NRAMP) cDNA (1999)
    Springer
    Immunogenetics 50 (1999), S. 60-66 
    Details
    ISSN: 1432-1211
    Keywords: Key words NRAMP ; Fish ; Carp ; Evolution ; Expression
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  The mouse Lsh/Ity/Bcg locus regulates natural resistance to intracellular pathogens, and the Nramp1 gene was isolated as its candidate. Nramp is part of a small family of at least two genes, Nramp1 and Nramp2. In the present study, a full-length cDNA for carp NRAMP has been isolated and characterized. Nucleotide and predicted amino acid sequence analysis indicate that the carp NRAMP encodes a 548 amino acid membrane protein with 12 putative transmembrane domains, two N-linked glycosylation sites, and an evolutionarily conserved consensus transport motif. The peptide sequence identity among carp and human NRAMP2 is 78%, and 65% with human NRAMP1. Reverse transcription-polymerase chain reaction revealed that carp NRAMP is ubiquitously expressed. Phylogenetic analysis, using neigbor-joining, showed that the carp NRAMP protein clustered together with mammalian NRAMP2 proteins.
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    Diversity and evolution of T-cell receptor variable region genes in mammals and birds (1999)
    Springer
    Immunogenetics 50 (1999), S. 301-308 
    Details
    ISSN: 1432-1211
    Keywords: Key words T-cell receptors ; Variable region genes ; Evolution ; Phylogeny ; Diversity
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  The receptor of a T lymphocyte (TCR) recognizes nonself antigens in the company of major histocompatibility complex (MHC) molecules presented to it by the antigen-presenting cell. The variable region of TCR is encoded by either a concatenation of variable region (TCR-V), diversity region (TCR-D), and joining region (TCR-J) genes, or a concatenation of TCR-V and TCR-J genes. The TCR-V genes exist as a multigene family in vertebrate species. Here we study the evolutionary relationships of TCR-V genes from humans, sheep, cattle, rabbits, mice, and chicken. These six species can be classified into two groups according to the frequency of γδ T-cells in their peripheral T-cell populations. The "γδ low" group of species includes humans and mice, in which γδ T-cells constitute very limited portion of the T-cell population. The "γδ high" group includes sheep, cattle, rabbits, and chicken, in which γδ T-cells comprise up to 60% of the T-cell population. Here, we compiled TCR-V sequences from the six species and conducted a phylogenetic analysis. We identified various TCR-V gene subgroups based on the analysis. We found that humans and mice have representatives from nearly all of the subgroups identified, while other species have lost subgroups to different extent. Therefore, the γδ low species have a high degree of diversity of TCR-V genes, while γδ high species all have limited diversity of TCR-V genes. This pattern is similar to that found for immunoglobulin variable region (IGV) genes.
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    Marsupial light chains: IGK with four V families in the opossum Monodelphis domestica (1999)
    Springer
    Immunogenetics 50 (1999), S. 329-335 
    Details
    ISSN: 1432-1211
    Keywords: Key words Marsupials ; Light chains ; Variable regions ; IGK ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  A full-length and several partial cDNAs encoding IGK light chains from the marsupial South American opossum, Monodelphis domestica, were isolated and characterized. Using these clones as a starting point, the expressed IGKV repertoire was sampled by anchored polymerase chain reaction using an IGKC-specific primer. Based on nucleotide sequences of twenty unique, expressed IGKV-J combinations, there are at least four IGKV families and two J segments. Southern blot analysis revealed each IGK-V family contains multiple gene segments totaling at least thirty-five IGKV in the opossum genome. No evidence for particular, recurrent IGKV-J combinations in the opossum IGK repertoire was seen, rather the V-J combinations appeared random and diverse. Each of the four IGKV families appear more closely related to V segments from placental mammals than to each other, suggesting the duplication of the IGKV families prior to the separation of marsupials and placental mammals more than one-hundred-million years ago. Overall, the complexity of opossum light chain V segments appears greater than that found in the heavy chain, and light chains are likely to contribute significantly to Ig diversity in this species.With this report, the homologues encoding all three classes of eutherian Ig chains, IGH, IGL, and IGK, have been described in a non-placental mammal.
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    Major histocompatibility complex-linked MIC genes in rhesus macaques and other primates (1999)
    Springer
    Immunogenetics 50 (1999), S. 358-362 
    Details
    ISSN: 1432-1211
    Keywords: Key words MHC ; MIC ; Nonhuman primates ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
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    URL: http://dx.doi.org/10.1007/s002510050614
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    Isolation and mapping of the rabbit DM genes (1999)
    Springer
    Immunogenetics 49 (1999), S. 295-302 
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    ISSN: 1432-1211
    Keywords: Key words Major histocompatibility complex ; Class II ; Antigen processing ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Proper peptide presentation by major histocompatibility complex (MHC)-encoded class II antigens is dependent on the products of the MHC DM loci. We identified the rabbit orthologues (RLA-DMA and -DMB) of human HLA-DMA and -DMB and found that they have 76.9% and 78.8% identity with HLA-DMA and -DMB, respectively. Like classical class II MHC genes, RLA-DM genes are more closely related to human HLA-DM genes than to mouse H2-DM. Among the DM family, there is a high degree of variability at the amino terminus of the DMa chains, and length variability in the cytoplasmic tails of both DMα and DMβ. The rabbit DM genes are coexpressed with class II genes in lymphoid tissues, as are the DM genes of other mammals. The RLA-DM locus maps to the class II region of the rabbit MHC, and is flanked by the DP and DOB loci. Despite having some similarities to class II genes of bony fishes, the DM family represents a separate branch of the MHC class II family.
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    New family of Mhc class II A genes identified from cDNA sequences in the cichlid fish Aulonocara hansbaenschi (1999)
    Springer
    Immunogenetics 49 (1999), S. 544-548 
    Details
    ISSN: 1432-1211
    Keywords: Key words Mhc ; Class II A ; Cichlid ; Fish ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
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    Characterization of beta2-microglobulin in a primitive fish, the Siberian sturgeon (Acipenser baeri) (1999)
    Springer
    Immunogenetics 50 (1999), S. 79-83 
    Details
    ISSN: 1432-1211
    Keywords: Key words Beta2-microglobulin ; Evolution ; Sturgeon ; cDNA ; Genomic
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
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    A nose that looks like a hand and acts like an eye: the unusual mechanosensory system of the star-nosed mole (1999)
    Springer
    Journal of comparative physiology 185 (1999), S. 367-372 
    Details
    ISSN: 1432-1351
    Keywords: Key words Cortical magnification ; Somatosensory cortex ; Development ; Evolution ; Behavior
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract The star-nosed mole (Condylura cristata) has a snout surrounded by 22 fleshy and mobile appendages. This unusual structure is not an olfactory organ, as might be assumed from its location, nor is it used to manipulate objects as might be guessed from its appearance. Rather, the star is devoted to the sense of touch, and for this purpose the appendages are covered with thousands of small mechanoreceptive Eimer's organs. Recent behavioral studies find that the star acts much like a tactile eye, having a small behavioral focus, or “fovea” at the center – used for detailed explorations of objects of interest. The peripheral and central nervous systems of the mole reflect these behavioral specializations, such that the small behavioral focus on the nose is more densely innervated in the periphery, and has a greatly enlarged representation in the somatosensory cortex. This somatosensory representation of the tactile fovea is not correlated with anatomical parameters (innervation density) as found in other species, but rather is highly correlated with patterns of behavior. The many surprising parallels between the somatosensory system of the mole, and the visual systems of other mammals, suggest a convergent and perhaps common organization for highly developed sensory systems.
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    Peripheral frequency mis-match in the primitive ensiferan Cyphoderris monstrosa (Orthoptera: Haglidae) (1999)
    Springer
    Journal of comparative physiology 184 (1999), S. 543-551 
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    ISSN: 1432-1351
    Keywords: Key words Auditory physiology ; Insect ; Frequency discrimination ; Evolution ; Song recognition
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract Peripheral auditory frequency tuning in the ensiferan insect Cyphoderris monstrosa (Orthoptera: Haglidae) was examined by comparing tympanal vibrations and primary auditory receptor responses. In this species there is a mis-match between the frequency of maximal auditory sensitivity and the frequency content of the species' acoustic signals. The mis-match is not a function of the mechanical properties of the tympanum, but is evident at the level of primary receptors. There are two classes of primary receptors: low-tuned and broadly tuned. Differences in the absolute sensitivity of the two receptor types at the male song frequency would allow the auditory system to discriminate intraspecific signals from sounds containing lower frequencies. Comparisons of tympanal and receptor tuning indicated that the sensitivity of the broadly tuned receptors did not differ from that of the tympanum, while low-tuned receptors had significantly narrower frequency tuning. The results suggest that the limited specialization for the encoding of intraspecific signals in the auditory system of C. monstrosa is a primitive rather than a degenerate condition. The limited specialization of C. monstrosa may reflect the evolutionary origin of communication-related hearing from a generalized precursor through the addition of peripheral adaptations (tympana, additional receptors) to enhance frequency sensitivity and discrimination.
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    Comparison of morphology and physiology of two plurisegmental sound-activated interneurones in a bushcricket (1999)
    Springer
    Journal of comparative physiology 185 (1999), S. 199-205 
    Details
    ISSN: 1432-1351
    Keywords: Key words Hearing ; Orthoptera ; Phaneropteridae ; Cercal system ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract The unusual morphology of a sound-activated plurisegmental ascending interneurone (AN5-AG7) in an insect (Ancistrura nigrovittata, Ensifera, Phaneropteridae) is described. This neurone's soma is located in the penultimate abdominal ganglion. The most prominent arborisations with smooth endings are found in the prothoracic ganglion. The neurone terminates with numerous beaded endings in the brain (protocerebrum). All abdominal ganglia including the penultimate contain only tiny side branches of beaded appearance. The neurone's morphology is compared to the morphology of a `typical' sound-activated plurisegmental neurone of bushcrickets with its soma in the prothorax. In the prothoracic ganglion and in the brain the arborisations of the two cells are very similar. Graded potentials and action potentials are generated in the prothoracic portion of both neurones. Both receive excitation mainly by ultrasound, and inhibition by soma-ipsilateral stimuli. Neither wind, substrate vibration nor touch of the abdomen evoke responses in AN5-AG7. It is assumed that early in evolution this neurone had its dendrites in the ganglion which houses the cell body (like cercal interneurones of this neuromere). Profound evolutionary changes probably have taken place to bring about this neuron's modern morphology.
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    URL: http://dx.doi.org/10.1007/s003590050378
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    Spatial discrimination of pheromones and behavioural antagonists by the tortricid moths Cydia pomonella and Adoxophyes orana (1999)
    Springer
    Journal of comparative physiology 185 (1999), S. 419-425 
    Details
    ISSN: 1432-1351
    Keywords: Key wordsCydia pomonella ; Adoxophyes orana ; Sex pheromone ; Interspecific interruption ; Evolution ; AbbreviationsZ9-14:Ac (Z9)-tetradecenylacetate Z11-14:Ac (Z11)-tetradecenylacetate ; E8, E10-12:OH (E8, E10)-dodecadienol
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract Male moths responding to their species-specific sex pheromone, may cease their upwind flight when pheromone components of sympatric species are added to the mixture. The interspecific interaction between the pheromone response of the tortricid moths Cydia pomonella and Adoxophyes orana was investigated in field-trapping and wind-tunnel studies. Addition of the A. orana pheromone [(Z9)-tetradecenylacetate and (Z11)-tetradecenylacetate] to a source containing the C. pomonella pheromone [(E8, E10)-dodecadienol] resulted in a significant inhibition of attraction by male C. pomonella. It is demonstrated that this behavioural antagonist for C. pomonella must be emitted from the same point source to induce this inhibitory effect. A spatial separation of the two interspecific pheromones (at 14 cm, 5 cm and 0.5 cm crosswind) restored the attraction of the conspecific pheromone for male C. pomonella. In contrast to C. pomonella, male A. orana were not inhibited by point sources releasing both the C. pomonella and A. orana pheromone. We suggest that the discrepancy in the interspecific pheromone interaction between these two tortricids can be explained if we consider the evolutionary ecology of interspecific pheromone communication in C. pomonella and A. orana.
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    URL: http://dx.doi.org/10.1007/s003590050402
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    Risk and evolution (1999)
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    Economic theory 13 (1999), S. 329-343 
    Details
    ISSN: 1432-0479
    Keywords: Keywords and Phrases: Risk ; Evolution ; Entrepreneur. ; JEL Classification Numbers: C72 ; D81.
    Source: Springer Online Journal Archives 1860-2000
    Topics: Economics
    Notes: Summary. I examine a Knightian (1921) model of risk using a general equilibrium model of investment and trade. A population of agents with various preference types can choose between a safe production technology and a risky production technology. In addition, the distribution of types of agents changes through a standard evolutionary dynamic. For a given population distribution, the equilibrium is in general inefficient, however, by allowing the population distribution to change in response to market generated rewards, the population will converge to one where the equilibrium is efficient and where the population as a whole behaves as if all agents were risk neutral.
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    URL: http://dx.doi.org/10.1007/s001990050257
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    Evolution of groundwater chemical composition under human activity in an oilfield (1999)
    Springer
    Environmental geology 38 (1999), S. 34-46 
    Details
    ISSN: 1432-0495
    Keywords: Key words Alkaline/acid/neutral water ; Acid rain ; Geochemical modeling ; Brine ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Geosciences
    Notes: Abstract  Analysis and hydrogeochemical modeling of hydrocarbonate groundwater, including its buffering geochemical properties, have demonstrated that this water has undergone a geochemical transformation almost throughout the whole of one industrial region. It is known that hydrocarbonate groundwater possesses a high protective natural geochemical potential, supporting neutralization of acid atmospheric precipitation. Natural hydrocarbonate water undergoes three stages of anthropogenic transformation caused by acid atmospheric precipitation over more than 50 years. The first stage is transformation of neutral hydrocarbonate water into alkaline water, accompanied by calcite precipitation and sodium carbonate dissolution from the unsaturated zone. The second stage is transformation of alkaline water into neutral hydrocarbonate water; the hydrocarbonate content, being less than the lower limit for background concentrations, showed reduced water buffering properties or protective potential relative to acid precipitation. The third stage is transformation of neutral hydrocarbonate water into acidic water, with a complete loss of protective geochemical potential. This unfavorable ecological situation with natural geochemically hydrocarbonate groundwater shows that natural groundwater less protected from the impact of acid atmospheric precipitation is in a worse ecological condition, which is confirmed by observations in northern and Western Europe and other regions of the world.
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    Evolution of homeobox genes: Q50 Paired-like genes founded the Paired class (1999)
    Springer
    Development genes and evolution 209 (1999), S. 186-197 
    Details
    ISSN: 1432-041X
    Keywords: Key words Cnidaria ; Paired class ; Paired-like ; Homeobox gene ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  The genes belonging to the Paired class exert primary developmental functions. They are characterized by six invariant amino acid residues in the homeodomain, while the residue at position 50 can be a serine, glutamine or lysine as in the Pax-type, Q50 Paired-like or the K50 Paired-like homeodomains respectively. Genes in this class emerged early in animal evolution: three distinct Pax genes and two Q50 Paired-like genes have recently been characterised from cnidarians. Phylogenetic molecular reconstructions taking into account homeodomain and paired-domain sequences provide some new perspectives on the evolution of the Paired-class genes. Analysis of 146 Paired-class homeodomains from a wide range of metazoan taxa allowed us to identify 18 families among the three sub-classes from which the aristaless family displays the least diverged position. Both Pax-type and K50 families branch within the Q50 Paired-like sequences implying that these are the most ancestral. Consequently, most Pax genes arose from a Paired-like ancestor, via fusion of a Paired-like homebox gene with a gene encoding only a paired domain; the Cnidaria appear to contain genes representing the ’before’ and ’after’ fusion events.
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    Rapid divergence in the course of Drosophila evolution reveals structural important domains of the Notch antagonist Hairless (1999)
    Springer
    Development genes and evolution 209 (1999), S. 155-164 
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    ISSN: 1432-041X
    Keywords: Key words Notch pathway ; Antagonist ; Hairless ; Orthologue ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  Hairless is a member of the Notch signalling pathway, where it acts as antagonist by binding to Suppressor of Hairless [Su(H)], thereby inhibiting Notch target gene activation. The pathway and its members are highly conserved in metazoans from worms to humans. However, a Hairless orthologue from another species has not yet been identified. The identification of Hairless in largely diverged species by cross-hybridization has failed so far probably due to a low degree of conservation. Therefore, we turned to D. hydei where a Hairless mutation has been described before. The D. hydei Hairless orthologue is reasonably well conserved with regard to gene structure and expression. The prospective Hairless protein orthologues share several highly conserved regions which are separated by quite diverged stretches. As to be expected, the largest region of high conservation corresponds to the Su(H) binding domain. This region is also functionally conserved, since this D. hydei protein domain binds very strongly to the D. melanogaster Su(H) protein. The other conserved regions support our earlier structure-function analysis since they nicely correspond to previously defined, functionally important protein domains. Most notably, the very C-terminal domain which is very sensitive to structural alterations, is nearly identical between the two species. In summary, this evolutionary study improves the knowledge on functionally significant domains of the Hairless protein, and may be helpful for the future identification of homologues in other animals, especially in vertebrates.
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    Maternal factors and the evolution of developmental mode: Evolution of oogenesis in Heliocidaris erythrogramma (1999)
    Springer
    Development genes and evolution 209 (1999), S. 275-283 
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    ISSN: 1432-041X
    Keywords: Key words Echinoid ; Oogenesis ; Development ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract  Evolutionary change in developmental mode in sea urchins is closely tied to an increase in maternal provisioning. We examined the oogenic modifications involved in production of a large egg by comparison of oogenesis in congeneric sea urchins with markedly different sized oocytes and divergent modes of development. Heliocidaris tuberculata has small eggs (95 µm diameter) and the ancestral mode of development through feeding larvae, whereas H. erythrogramma has large eggs (430 µm diameter) and highly modified non-feeding lecithotrophic larvae. Production of a large egg in H. erythrogramma involved both conserved and divergent mechanisms. The pattern and level of vitellogenin gene expression is similar in the two species. Vitellogenin processing is also similar with the gonads of both species incorporating yolk protein from coelomic and hemal stores into nutritive cells with subsequent transfer of this protein into yolk granules in the developing vitellogenic oocyte. Immunocytology of the eggs of both Heliocidaris species indicates they incorporate similar levels of yolk protein. However, H. erythrogramma has evolved a highly divergent second phase of oogenesis characterised by massive deposition of non-vitellogenic material including additional maternal protein and lipid. Maternal provisioning in H. erythrogramma exhibits recapitulation of the ancestral vitellogenic program followed by a novel oogenic phase with hypertrophy of the lipogenic program being a major contributor to the increase in egg size.
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    Identification and genetic mapping of Xenopus TAP2 genes (1999)
    Springer
    Immunogenetics 49 (1999), S. 171-182 
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    ISSN: 1432-1211
    Keywords: Key words MHC ; Transporter ; Evolution ; PCR cloning ; Allelic lineage
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  The amphibian Xenopus laevis is one non-mammalian vertebrate in which the major histocompatibility complex (MHC) has been analyzed extensively. Class IIβ, class Ia, LMP2, LMP7, HSP70, C4, Factor B, and Ring3 genes have been identified and mapped to the MHC. Here, we report the isolation of a transporter associated with antigen processing (TAP) gene, TAP2, and demonstrate its linkage to the MHC. While the ATP-binding region of Xenopus TAP2 is highly conserved in evolution, amino acid identity to other vertebrate TAP proteins was not detected in the N-terminal region. Segregation analysis of 34 individuals from two families showed exact restriction fragment length polymorphism matching between the MHC class Ia gene and the one TAP2 gene demonstrating linkage conservation since the mammalian/amphibian divergence ∼350 million years ago. In addition, one non-MHC-linked TAP2–hybridizing fragment was detected in approximately half of the individuals tested. Interestingly, TAP2 allelic lineages appear to match those of LMP7 and classical class I, which previously were categorized into two highly divergent groups that emerged at least 60 million years ago. Similar to LMP7 and class Ia,TAP2 is expressed ubiquitously with highest levels in intestine and spleen.
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    Organization of the genes encoding the human proteasome activators PA28α and β (1999)
    Springer
    Immunogenetics 49 (1999), S. 438-445 
    Details
    ISSN: 1432-1211
    Keywords: Key words PA28 ; Proteasome ; Gene structure ; Evolution ; Human
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Two proteasome activators PA28α and β, which have been implicated in antigen processing for loading class I MHC molecules, are synthesized in response to Ifn-γ. The human genes encoding these activators (PSME1 and PSME2, respectively) were analyzed by sequencing. Each gene comprised 11 exons, consistent with gene duplication during vertebrate evolution. The intron/exon organization of both genes was highly conserved, the major difference being the absence of the exon encoding the lysine and glutamic acid-rich 'KEKE' motif in PA28β. Two other genes of relevance to the immune system were located close to those for PA28 at 14q11.2 including ISGF3G, a protein involved in transcription after IFNα signalling. These sequences were also characterized.
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    Variation in the number of expressed MHC genes in different cattle class I haplotypes (1999)
    Springer
    Immunogenetics 50 (1999), S. 319-328 
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    ISSN: 1432-1211
    Keywords: Key words Cattle ; MHC class I ; Haplotypes ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Analysis of cattle major histocompatibility complex (MHC) (BoLA) class I gene expression using serological and biochemical methods has demonstrated a high level of polymorphism. However, analysis of class I cDNA sequences has failed to produce conclusive evidence concerning the number and nature of expressed genes. Such information is essential for detailed studies of cattle immune responses, and to increase our understanding of the mechanisms of MHC evolution. In this study a selective breeding programme has been used to generate a number of MHC homozygous cattle expressing common serologically defined class I specificities. Detailed analysis of five class I haplotypes was carried out, with transcribed class I genes identified and characterized by cDNA cloning, sequence analysis, and transfection/expression studies. Surface expression of the gene products (on lymphocytes) was confirmed using monoclonal antibodies of defined BoLA specificity. Phylogenetic analysis of available transcribed cattle MHC class I sequences revealed complex evolutionary relationships including possible evidence for recombination. The study of individual haplotypes suggests that certain groupings of related sequences may correlate with loci, but overall it was not possible to define the origin of individual alleles using this approach. The most striking finding of this study is that none of the cattle class I genes is consistently expressed, and that in contrast to human, haplotypes differ from one another in both the number and composition of expressed classical class I genes.
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    A divergent non-classical class I gene conserved in salmonids (1999)
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    Immunogenetics 49 (1999), S. 479-490 
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    ISSN: 1432-1211
    Keywords: Key words Comparative immunology ; Evolution ; MHC class I ; Molecular biology ; Salmonids
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Complementary DNA for two class I genes of the rainbow trout, Oncorhynchus mykiss, were characterized. MhcOnmy-UBA*01 is similar to Onmy-UA-C32 and the classical major histocompatibility complex class I genes of other fish species, whereas Onmy-UAA*01 is divergent from all class I genes so far characterized. Onmy-UAA*01 is expressed at lower levels than Onmy-UBA*01. Although Onmy-UAA*01 exhibits restriction fragment length polymorphism on Southern blotting, the encoded protein is highly conserved. Two allotypes, which differ only by substitution at amino acid position 223 of the α3 domain, have been defined. Onmy-UAA*01 has an exon-intron organization like other class I genes and contains a Tc1-like transposon element in intron III. Orthologues of Onmy-UAA*01 have been characterized in four other species of salmonid. Between four species of Oncorhynchus, UAA*01 proteins differ by only 2–6 amino acids, whereas comparison of Oncorhynchus with Salmo trutta (brown trout) reveals 14–16 amino acid differences. The Onmy-UAA*01 gene has properties indicative of a particularly divergent non-classical class I gene.
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    Evolution of the Mhc class I region: the framework hypothesis (1999)
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    Immunogenetics 49 (1999), S. 362-367 
    Details
    ISSN: 1432-1211
    Keywords: Key words Major histocompatibility complex ; Class I region ; Evolution ; Orthology ; Olfactory receptor genes
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  A comparison of the major histocompatibility complex (Mhc) region between human and mouse highlights both stability and differences. The class II and class III regions are orthologous; they probably existed in the ancestor in a similar organization and were not subjected to major rearrangement. The class I genes, by contrast, are definitely paralogous, having been reorganized several times. As long as only class I genes were identified, the class I regions of human and mouse were difficult to compare directly. The identification of non-class I genes has allowed a comparative map to be drawn, which shows that the class I region is orthologous between human and mouse as well. The lack of orthology specifically applies to the class I sequences. However, the comparative map shows that the non-orthologous class I sequences occupy homologous locations with regard to the conserved genes. I propose a model to explain this paradox. The conserved genes may represent samples of a dense "framework" of genes whose alterations are deleterious. The homologous positions occupied by class I genes would thus represent the few permissive places allowing major perturbations. The evolution of the class I sequences, by duplication and deletion, independently in the two species, has taken place within the scope defined by the framework: insertion at the permissive places, and expansion by creation of class I-related DNA by duplication, thus pushing back the boundaries of the framework.
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    Gene organization of the quail major histocompatibility complex (MhcCoja) class I gene region (1999)
    Springer
    Immunogenetics 49 (1999), S. 384-394 
    Details
    ISSN: 1432-1211
    Keywords: Key words Antigen processing ; Evolution ; Cell surface ; molecules ; Mhc ; Transporters
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Class I genomic clones of the quail (Coturnix japonica) major histocompatibility complex (MhcCoja) were isolated and characterized. Two clusters spanning the 90.8 kilobase (kb) and 78.2 kb class I gene regions were defined by overlapping cosmid clones and found to contain at least twelve class I loci. However, unlike in the chicken Mhc, no evidence for the existence of any Coja class II gene was obtained in these two clusters. Based on comparative analysis of the genomic sequences with those of the cDNA clones, Coja-A, Coja-B, Coja-C, and Coja-D (Shiina et al. 1999), these twelve loci were assigned to represent one Coja-A gene, two Coja-B genes (Coja-B1 and -B2), four Coja-C genes (Coja-C1-C4), four Coja-D genes (Coja-D1-D4), and one new Coja-E gene. A class I gene-rich segment of 24.6 kb in which five of these genes (Coja-B1, -B2, -D1, -D2 and -E) are densely packed were sequenced by the shotgun strategy. All of these five class I genes are very compact in size [2089 base pairs (bp)–2732 bp] and contain no apparent genetic defect for functional expression. A transporter associated with the antigen processing (TAP) gene was identified in this class I gene-rich segment. These results suggest that the quail class I region is physically separated from the class II region and characterized by a large number of the expressible class I loci (at least seven) in contrast to the chicken Mhc, where the class I and class II regions are not clearly differentiated and only at most three expressed class I loci so far have been recognized.
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    MHC class I genes in a New World primate, the cotton-top tamarin (Saguinus oedipus), have evolved by an active process of loci turnover (1999)
    Springer
    Immunogenetics 49 (1999), S. 196-205 
    Details
    ISSN: 1432-1211
    Keywords: Key words New world primates ; MHC ; Evolution ; Gene duplication
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  Lymphocytes of a New World primate, the cotton-top tamarin (Saguinus oedipus), express classical G–related major histocompatibility complex (MHC) class I molecules with unusually limited polymorphism and variability. Three G-related loci, an F locus, an E locus, and two pseudogenes (So-N1 and So-N3) have been identified by cDNA library screening and extensive PCR analysis of both cDNA and genomic DNA from the cotton-top tamarin. Furthermore, each genus of the subfamily Callitrichinae (tamarins and marmosets) appears to express its own unique set of MHC class I genes, likely due to a rapid turnover of loci. The rapid emergence of unique MHC class I genes in the Callitrichinae genera, resulting from an active process of duplication and inactivation of loci, may account for the limited diversity of the MHC class I genes in the cotton-top tamarin. To determine the nature of the entire complement of MHC class I genes in the cotton-top tamarin, we synthesized a genomic DNA library and screened it with MHC class I-specific probes. We isolated nine new MHC class I pseudogenes from this library. These newly isolated tamarin G–related MHC class I pseudogenes are not closely related to any of their functional counterparts in the tamarin, suggesting that they do not share a recent common ancestral gene with the tamarin's currently expressed MHC class I loci. In addition, these tamarin sequences display a high rate of nonsynonymous substitutions in their putative peptide binding region. This indicates that the genes from which they have derived were likely subject to positive selection and, therefore, were once functional. Our data support the notion that an extremely high rate of loci turnover is largely responsible for the limited diversity of the MHC class I genes in the cotton-top tamarin.
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    Evolution of a new nonclassical MHC class I locus in two Old World primate species (1999)
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    Immunogenetics 49 (1999), S. 86-98 
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    ISSN: 1432-1211
    Keywords: Key words MHC ; Primates ; Reproduction ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  HLA-G is a nonclassical major histocompatibility complex (MHC) class I molecule that is expressed only in the human placenta, suggesting that it plays an important role at the fetal-maternal interface. In rhesus monkeys, which have similar placentation to humans, the HLA-G orthologue is a pseudogene. However, rhesus monkeys express a novel placental MHC class I molecule, Mamu-AG, which has HLA-G-like characteristics. Phylogenetic analysis of AG alleles in two Old World primate species, the baboon and the rhesus macaque, revealed limited diversity characteristic of a nonclassical MHC class I locus. Gene trees constructed using classical and nonclassical primate MHC class I alleles demonstrated that the AG locus was most closely related to the classical A locus. Interestingly, gene tree analyses suggested that the AG alleles were most closely related to a subset of A alleles which are the products of an ancestral interlocus recombination event between the A and B loci. Calculation of the rates of synonymous and nonsynonymous substitution at the AG locus revealed that positive selection was not acting on the codons encoding the peptide binding region. In exon 4, however, the rate of nonsynonymous substitution was significantly lower than the rate of synonymous substitution, suggesting that negative selection was acting on these codons.
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    Opposite orientation of the α- and υ-chain constant region genes in the immunoglobulin heavy chain locus of the duck (1999)
    Springer
    Immunogenetics 49 (1999), S. 692-695 
    Details
    ISSN: 1432-1211
    Keywords: Key words Duck ; Immunoglobulin genes ; IgH locus ; Class switching ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
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    Sequences and evolution of mammalian RH gene transcripts and proteins (1999)
    Springer
    Immunogenetics 49 (1999), S. 15-25 
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    ISSN: 1432-1211
    Keywords: Key words Rh blood group system ; Phylogenesis ; RH genes ; Evolution ; Nonhuman primates
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  The presence of Rh30-like polypeptides with an apparent relative molecular mass of 33 000 in the erythrocyte membranes from nonhuman primates and nonprimate mammals (mouse, rat, and dog) was demonstrated by immunoblotting. Nonhuman primates (orangutan, baboon, New World monkeys, lemur) and mouse Rh-like transcripts were amplified and sequenced. Analysis of the deduced amino acids sequences allowed us to determine the amino acid variability of Rh-like polypeptides which correlated with the hydrophylicity indexes. Hence, the putative transmembrane domains exhibited low indexes of variability, while the highest indexes were observed on extramembrane loops with a maximum on the sixth external loop. The cDNA sequences were compared with those previously reported in human, nonhuman primates, and cattle. The time of coalescence of mammalian Rh cDNA sequences was estimated by phylogenetic analysis to be 100 million years.
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    The catalytic group-I introns of the psbA gene of Chlamydomonas reinhardtii : core structures, ORFs and evolutionary implications (1999)
    Springer
    Current genetics 36 (1999), S. 69-78 
    Details
    ISSN: 1432-0983
    Keywords: Key wordsChlamydomonas ; Chloroplast ; Evolution ; Group-I introns ; psbA gene ; Self-splicing
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The sequences and predicted secondary structures of the four catalytic group-I introns in the psbA gene of Chlamydomonas reinhardtii, Cr.psbA-1–Cr.psbA-4, have been determined. Cr.psbA-1 and Cr.psbA-4 are subgroup-IA1 introns and have similar secondary structures, except at the 3′ end where Cr.psbA-1 contains a large inverted-repeat domain. Cr.psbA-4 is closely related to intron 1 of the Chlamydomonas moewusii psbA gene, with which it shares the same location, high nucleotide identity in the core, and an identically placed ORF that shows 58% amino-acid identity. Cr.psbA-2 is a subgroup-IA3 intron, and shows similarities to the Chlamydomonas eugametos rRNA intron, Ce.LSU-1. Cr.psbA-3 is a subgroup-IA2 intron, and is remarkably similar to the T4 phage intron, sunY. Interestingly, a degenerate version of Cr.psbA-3 is located in the intergenic region between the chloroplast petA and petD genes. All four introns contain ORFs, which potentially code for basic proteins of 11–38 kDa. The ORFs in introns 2 and 3 contain variants of the GIY-YIG motif; however, the Cr.psbA-2 ORF is free-standing, whereas the Cr.psbA-3 ORF is contiguous and in-frame with the upstream exon. The Cr.psbA-4 ORF contains an H-N-H motif, and possibly a GIY-YIG motif. These data indicate that the C. reinhardtiipsbA introns have multiple origins, and illustrate some of the evolutionary DNA dynamics associated with group-I introns in Chlamydomonas.
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