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  • Springer  (153,756)
  • National Academy of Sciences  (11,107)
  • American Association for the Advancement of Science (AAAS)
  • 2010-2014  (110,316)
  • 1980-1984  (52,812)
  • 1925-1929  (5,815)
  • 2013  (110,316)
  • 1984  (52,812)
  • 1929  (5,815)
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  • 2010-2014  (110,316)
  • 1980-1984  (52,812)
  • 1925-1929  (5,815)
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  • 1
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    In:  Springer atmospheric sciences
    Publication Date: 2020-02-12
    Type: info:eu-repo/semantics/book
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  • 2
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    Publication Date: 2020-02-12
    Keywords: 550 - Earth sciences
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  • 3
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    Publication Date: 2020-02-12
    Keywords: 550 - Earth sciences
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  • 4
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    In:  EPIC3Earth System Science: Bridging the Gaps between Disciplines Perspectives from a Multi-disciplinary Helmholtz Research School, SpringerBriefs in Earth System Science, Heidelberg, Springer, 138 p., pp. 42-45, ISBN: ISBN 978-3-642-32234
    Publication Date: 2019-08-16
    Repository Name: EPIC Alfred Wegener Institut
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  • 5
    Publication Date: 2017-01-16
    Description: Early life stages of marine crustaceans respond sensitively to elevated seawater PCO2. However, the underlying physiological mechanisms have not been studied well. We therefore investigated the effects of elevated seawater PCO2 on oxygen consumption, dry weight, elemental composition, median developmental time (MDT) and mortality in zoea I larvae of the spider crab Hyas araneus (Svalbard 79°N/11°E; collection, May 2009; hatch, December 2009). At the time of moulting, oxygen consumption rate had reached a steady state level under control conditions. In contrast, elevated seawater PCO2 caused the metabolic rate to rise continuously leading to a maximum 1.5-fold increase beyond control level a few days before moulting into the second stage (zoea II), followed by a pronounced decrease. Dry weight of larvae reared under high CO2 conditions was lower than in control larvae at the beginning of the moult cycle, yet this difference had disappeared at the time of moulting. MDT of zoea I varied between 45 ± 1 days under control conditions and 42 ± 2 days under the highest seawater CO2 concentration. The present study indicates that larval development under elevated seawater PCO2 levels results in higher metabolic costs during premoulting events in zoea I. However, H. araneus zoea I larvae seem to be able to compensate for higher metabolic costs as larval MDT and survival was not affected by elevated PCO2 levels.
    Repository Name: EPIC Alfred Wegener Institut
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  • 6
    Publication Date: 2017-04-04
    Description: A temporary seismic network composed of 11 stations was installed in the city of Potenza (Southern Italy) to record local and regional seismicity within the context of a national project funded by the Italian Department of Civil Protection (DPC). Some stations were moved after a certain time in order to increase the number of measurement points, leading to a total of 14 sites within the city by the end of the experiment. Recordings from 26 local earthquakes (Ml 2.2−3.8 ) were analyzed to compute the site responses at the 14 sites by applying both reference and non-reference site techniques. Furthermore, the Spectral Intensity (SI) for each local earthquake, as well as their ratios with respect to the values obtained at a reference site, were also calculated. In addition, a field survey of 233 single station noise measurements within the city was carried out to increase the information available at localities different from the 14 monitoring sites. By using the results of the correlation analysis between the horizontal-to-vertical spectral ratios computed from noise recordings (NHV) at the 14 selected sites and those derived by the single station noise measurements within the town as a proxy, the spectral intensity correction factors for site amplification obtained from earthquake analysis were extended to the entire city area. This procedure allowed us to provide a microzonation map of the urban area that can be directly used when calculating risk scenarios for civil defence purposes. The amplification factors estimated following this approach show values increasing along the main valley toward east where the detrital and alluvial complexes reach their maximum thickness.
    Description: Published
    Description: 493-516
    Description: 4.1. Metodologie sismologiche per l'ingegneria sismica
    Description: JCR Journal
    Description: restricted
    Keywords: site effect ; seismic noise ; spectral intensity ; correlation ; 04. Solid Earth::04.06. Seismology::04.06.04. Ground motion
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 7
    Publication Date: 2017-04-04
    Description: We present results of a multi-temporal analysis of airborne LiDAR data collected between 2006 and 2010 on the 3 km long active Montaguto landslide (Italy). Digital Terrain Models are constructed from data acquired on May 2006, July 2009, April 2010 and June 2010. The spatial distribution of selected morphometric parameters and the statistical analysis of the temporal variations of such parameters allow us to reconstruct the evolution of the landslide. We recognize zones of uplift and subsidence, estimate the volumes of removed or accumulated material, and determine the average rate of vertical and horizontal displacement. We also map the deformations structures and provide new insights on the sliding mechanisms. Zones in which the topographic features change due to handling/removal work are also analyzed. The approach proposed here provides new insight on the use of airborne LiDAR in the surveillance strategies of landslides and other gravity-controlled processes.
    Description: Published
    Description: 147-151
    Description: 1.10. TTC - Telerilevamento
    Description: 5.5. TTC - Sistema Informativo Territoriale
    Description: restricted
    Keywords: LiDAR ; Multi-temporal analysis ; Gravity processes ; 04. Solid Earth::04.04. Geology::04.04.03. Geomorphology ; 05. General::05.08. Risk::05.08.01. Environmental risk
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: book chapter
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  • 8
    Publication Date: 2017-04-03
    Description: The Salina, Lipari, and Vulcano volcanic ridge and the surrounding sea sectors (Aeolian Archipelago, Southern Tyrrhenian Sea, Italy) are characterized by vents responsible for a recent (〈40 ka—1889/1890 AD) effusive and explosive subareal activity and repeated, 56 to 7 ka in age, submarine explosive eruptions from source areas located between Lipari and Vulcano. A spectral depth estimation of the magnetic bottom using a fractal method on aeromagnetic data from Vulcano, Lipari, and Salina volcanic ridge allows us to constrain the Curie isotherm depth. The elevated portion of the isotherm is between 2 and 3 km below Salina and Vulcano and about 1 km below Lipari. The Curie depth results in the context of other geological and geophysical evidence suggest that the rise of the Curie isotherm is mainly due to the occurrence of shallow heat sources such as magma ponds and associated hydrothermal systems. The short-wavelength magnetic anomaly field reflects magnetic contrasts from highly magnetized volcanic bodies, low-magnetization sediments, and hydrothermally altered rocks. Borehole temperature data verify the Curie temperature derived from the magnetic methods on the island of Vulcano.We conclude that the whole Vulcano, Lipari, and Salina volcanic ridge is active and should be monitored.
    Description: INGV
    Description: Published
    Description: article 710
    Description: 1.10. TTC - Telerilevamento
    Description: 3.3. Geodinamica e struttura dell'interno della Terra
    Description: 3.4. Geomagnetismo
    Description: 3.6. Fisica del vulcanismo
    Description: 5.4. Banche dati di geomagnetismo, aeronomia, clima e ambiente
    Description: JCR Journal
    Description: restricted
    Keywords: Magnetic spectral depths ; Curie temperature ; volcanism ; Aeolian Islands ; 04. Solid Earth::04.01. Earth Interior::04.01.04. Mineral physics and properties of rocks ; 04. Solid Earth::04.02. Exploration geophysics::04.02.04. Magnetic and electrical methods ; 04. Solid Earth::04.05. Geomagnetism::04.05.03. Global and regional models ; 04. Solid Earth::04.05. Geomagnetism::04.05.07. Rock magnetism ; 04. Solid Earth::04.07. Tectonophysics::04.07.02. Geodynamics ; 04. Solid Earth::04.07. Tectonophysics::04.07.03. Heat generation and transport ; 04. Solid Earth::04.08. Volcanology::04.08.05. Volcanic rocks
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
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  • 9
    Publication Date: 2020-02-10
    Description: Approximately 1700 Pg of soil carbon (C) are stored in the northern circumpolar permafrost zone, more than twice as much C than in the atmosphere. The overall amount, rate, and form of C released to the atmosphere in a warmer world will influence the strength of the permafrost C feedback to climate change. We used a survey to quantify variability in the perception of the vulnerability of permafrost C to climate change. Experts were asked to provide quantitative estimates of permafrost change in response to four scenarios of warming. For the highest warming scenario (RCP 8.5), experts hypothesized that C release from permafrost zone soils could be 19–45 Pg C by 2040, 162–288 Pg C by 2100, and 381–616 Pg C by 2300 in CO2 equivalent using 100-year CH4 global warming potential (GWP). These values become 50 % larger using 20-year CH4 GWP, with a third to a half of expected climate forcing coming from CH4 even though CH4 was only 2.3 % of the expected C release. Experts projected that two-thirds of this release could be avoided under the lowest warming scenario (RCP 2.6). These results highlight the potential risk from permafrost thaw and serve to frame a hypothesis about the magnitude of this feedback to climate change. However, the level of emissions proposed here are unlikely to overshadow the impact of fossil fuel burning, which will continue to be the main source of C emissions and climate forcing.
    Repository Name: EPIC Alfred Wegener Institut
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  • 10
    Publication Date: 2019-07-16
    Description: Copepods can be associated with different kinds and different numbers of bacteria. This was already shown in the past with culture-dependent microbial methods or microscopy and more recently by using molecular tools. In our present study, we investigated the bacterial community of four frequently occurring copepod species, Acartia sp., Temora longicornis, Centropages sp. and Calanus helgolandicus from Helgoland Roads (North Sea) over a period of two years using DGGE (denaturing gradient gel electrophoresis) and subsequent sequencing of 16S-rDNA fragments. To complement the PCR-DGGE analyses, clone libraries of copepod samples from June 2007 and 208 were generated. Based on the DGGE banding patterns of the two years survey, we found no significant differences between the communities of distinct copepod species, nor did we find any seasonality. Overall, we identified 67 phylotypes (〉 97% similarity) falling into the bacterial phyla of Actinobacteria, Bacteroidetes, Firmicutes and Proteobacteria. The most abundant phylotypes were affiliated to the Alphaproteobacteria. In comparison of PCR-DGGE and clone libraries, phylotypes of the Gammaproteobacteria dominated the clone libraries, whereas Alphaproteobacteria were most abundant in the PCR-DGGE analyses
    Repository Name: EPIC Alfred Wegener Institut
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  • 11
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    In:  EPIC3Biodiversität und Klimawandel: Auswirkungen und Handlungsoptionen für den Naturschutz in Mitteleuropa, Springer, pp. 217-222, ISSN: ISBN 978-3-642-29691-8
    Publication Date: 2018-02-16
    Repository Name: EPIC Alfred Wegener Institut
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  • 12
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    In:  EPIC3Geo-Marine Letters, Springer, 33(5), pp. 381-390, ISSN: 1432-1157
    Publication Date: 2019-07-16
    Description: Sediment thickness was evaluated on the western flank of the East Pacific Rise (EPR) at 45°S, based on high-resolution seismic data gathered during cruise 213/2 of R/V Sonne in 2011. Two zones with distinctly different sediment thickness were identified, separated by a transitional zone bordering a pseudo-fault. Sediment in the more distal zone 2 is almost twice as thick (~120 m) as in zone 1 close to the EPR. This is in contrast to the expected sedimentary column thickening with seafloor age and distance from the spreading axis. The younger of two seismic units detected within the sedimentary column (EPR-2) occurs mainly in the distal zone on crust older than 9 Ma, whereas on younger crust it is present only in small isolated bodies. Both sedimentary units drape the basement. The drape is interpreted to represent particle settling from suspension and a generally low regional primary productivity. The spatial variation in sediment thickness cannot be explained by existing models, and other processes considered in the present case are (1) higher productivity in the western sector of the survey area, where thicker sediments were observed (zone 2), (2) the formation of sediment drifts near basement highs (‘seamount effect’), due to flow of Lower Circumpolar Deep Water affecting sediment deposition, and (3) erosion and/or non-deposition of the younger EPR-2 unit, due to elevated bed shear stresses associated with eddies transferring kinetic energy to the seafloor
    Repository Name: EPIC Alfred Wegener Institut
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  • 13
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    In:  EPIC3Earth System Science: Bridging the Gaps between Disciplines Perspectives from a Multi-disciplinary Helmholtz Research School, Heidelbert, Springer, 138 p., pp. 57-64, ISBN: ISBN 978-3-642-32234
    Publication Date: 2019-08-16
    Repository Name: EPIC Alfred Wegener Institut
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  • 14
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    In:  EPIC3Earth System Science: Bridging the Gaps between Disciplines Perspectives from a Multi-disciplinary Helmholtz Research School, Heidelberg, Springer, 138 p., pp. 64-69, ISBN: ISBN 978-3-642-32234
    Publication Date: 2014-04-15
    Repository Name: EPIC Alfred Wegener Institut
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  • 15
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    In:  EPIC3Earth System Science: Bridging the Gaps between Disciplines Perspectives from a Multi-disciplinary Helmholtz Research School, Heidelberg, Springer, 138 p., pp. 74-79, ISBN: ISBN 978-3-642-32234
    Publication Date: 2014-04-15
    Repository Name: EPIC Alfred Wegener Institut
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  • 16
    Publication Date: 2021-07-19
    Description: The summer water balance of a typical Siberian polygonal tundra catchment is investigated in order to identify the spatial and temporal dynamics of its main hydrological processes. The results show that, besides precipitation and evapotranspiration, lateral flow considerably influences the site-specific hydrological conditions. The prominent microtopography of the polygonal tundra strongly controls lateral flow and storage behaviour of the investigated catchment. Intact rims of low-centred polygons build hydrological barriers, which release storage water later in summer than polygons with degraded rims and troughs above degraded ice wedges. The barrier function of rims is strongly controlled by soil thaw, which opens new subsurface flow paths and increases subsurface hydrological connectivity. Therefore, soil thaw dynamics determine the magnitude and timing of subsurface outflow and the redistribution of storage within the catchment. Hydraulic conductivities in the elevated polygonal rims sharply decrease with the transition from organic to mineral layers. This interface causes a rapid shallow subsurface drainage of rainwater towards the depressed polygon centres and troughs. The re-release of storage water from the centres through deeper and less conductive layers helps maintain a high water table in the surface drainage network of troughs throughout the summer.
    Repository Name: EPIC Alfred Wegener Institut
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  • 17
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    In:  EPIC3The Mediterranean Sea: Its history and present challenges, The Mediterranean Sea: Its hisory and present challenges, Springer, pp. 499-504
    Publication Date: 2016-02-13
    Repository Name: EPIC Alfred Wegener Institut
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  • 18
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    In:  EPIC3Earth System Science: Bridging the Gaps between Disciplines Perspectives from a Multi-disciplinary Helmholtz Research School, Heidelberg, Springer, 138 p., pp. 70-74, ISBN: ISBN 978-3-642-32234
    Publication Date: 2014-04-15
    Repository Name: EPIC Alfred Wegener Institut
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  • 19
    Publication Date: 2019-07-16
    Description: In contemporary ocean science, modeling systems that integrate understanding of complex multiscale phenomena and utilize efficient numerics are paramount. Many of today's fundamental ocean science questions involve multiple scales and multiple dynamics. A new generation of modeling systems would allow to study such questions quantitatively by being less restrictive dynamically and more efficient numerically than more traditional systems.
    Repository Name: EPIC Alfred Wegener Institut
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  • 20
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    In:  EPIC3Naturwissenschaften, Springer, 71(12), pp. 599-608, ISSN: 0028-1042
    Publication Date: 2014-06-04
    Repository Name: EPIC Alfred Wegener Institut
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  • 21
    Publication Date: 2019-07-16
    Description: In this experimental study, we compared the embryonic respiration rate in air and water of six East African sesarmid species with intertidal, supratidal and arboreal habits, to highlight possible adaptations in embryonic metabolism to their different lifestyles. The embryos of all analysed crabs showed bimodal respiration, but we did not find a trend towards an enhanced embryonic oxygen uptake in air from the intertidal to the arboreal and supratidal species. However, the late-stage embryos of the most land-adapted species, Chiromantes spp., showed an enhanced metabolism when immersed in sea water that we interpreted as an adaptive recovery mechanism to cope with the storage of by-products due to marine-based metabolic pathways during long emersion periods. Thus, we showed that the embryos of land-adapted species, although still strongly water dependent, are well adapted to semi-terrestrial habitats and represent a minor limiting factor for females, which are not restricted in their emersion period by the oxygen requirements of their embryos.
    Repository Name: EPIC Alfred Wegener Institut
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  • 22
    Publication Date: 2017-06-05
    Description: The endemic Antarctic brown macroalga Desmarestia anceps colonizes the subtidal between 5 and 30 m in Potter Cove on King George Island (South Shetland Islands, Antarctica). Experiments were conducted to study photosynthetic activities, antioxidative enzymes and UV tolerance of field-grown individuals with respect to the light histories along different subtidal positions. Individuals collected from the upper (5.5 m) and mid-subtidal (9.0 m) are characterized by high maximum electron transport rates (ETRmax) measured by PAM-fluorometry and high activities of superoxide dismutase (SOD) supported by considerable activities of glutathione reductase. Individuals of this species from the upper subtidal are able to tolerate high irradiances of UV-B radiation because its photosynthetic apparatus is putatively well protected by phlorotannins. In contrast, individuals from lower subtidal positions (13.5 and 15.5 m) showed an opposite trend: lower ETRmax and SOD activities as well as a lower UV tolerance of photosynthesis. Moreover, a non-denaturing polyacrylamide gel electrophoresis (native PAGE) of a partially purified crude extract reveals that D. anceps has probably six isoforms of SOD. These intra-specific patterns imply a high phenotypical plasticity of D. anceps with respect to its photosynthesis and photoprotective mechanisms. Overall, photosynthesis, UV tolerance and antioxidative potential are highly regulated in D. anceps corresponding to the respective light regimes along its natural growth sites.
    Repository Name: EPIC Alfred Wegener Institut
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  • 23
    Publication Date: 2022-05-25
    Description: © The Author(s), 2013. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Ecosystems 16 (2013): 1550-1564, doi:10.1007/s10021-013-9701-0.
    Description: We examined controls of benthic dinitrogen (N2) fixation and primary production in oligotrophic lakes in Arctic Alaska, Toolik Field Station (Arctic Long-Term Ecological Research Site). Primary production in many oligotrophic lakes is limited by nitrogen (N), and benthic processes are important for whole-lake function. Oligotrophic lakes are increasingly susceptible to low-level, non-point source nutrient inputs, yet the effects on benthic processes are not well understood. This study examines the results from a whole-lake fertilization experiment in which N and P were added at a relatively low level (4 times natural loading) in Redfield ratio to a shallow (3 m) and a deep (20 m) oligotrophic lake. The two lakes showed similar responses to fertilization: benthic primary production and respiration (each 50–150 mg C m−2 day−1) remained the same, and benthic N2 fixation declined by a factor of three- to fourfold by the second year of treatment (from ~0.35 to 0.1 mg N m−2 day−1). This showed that the response of benthic N2 fixation was de-coupled from the nutrient limitation status of benthic primary producers and raised questions about the mechanisms, which were examined in separate laboratory experiments. Bioassay experiments in intact cores also showed no response of benthic primary production to added N and P, but contrasted with the whole-lake experiment in that N2 fixation did not respond to added N, either alone or in conjunction with P. This inconsistency was likely a result of nitrogenase activity of existing N2 fixers during the relative short duration (9 days) of the bioassay experiment. N2 fixation showed a positive saturating response when light was increased in the laboratory, but was not statistically related to ambient light level in the field, leading us to conclude that light limitation of the benthos from increasing water-column production was not important. Thus, increased N availability in the sediments through direct uptake likely caused a reduction in N2 fixation. These results show the capacity of the benthos in oligotrophic systems to buffer the whole-system response to nutrient addition by the apparent ability for significant nutrient uptake and the rapid decline in N2 fixation in response to added nutrients. Reduced benthic N2 fixation may be an early indicator of a eutrophication response of lakes which precedes the transition from benthic to water-column-dominated systems.
    Description: This project was supported by NSF-OPP 9732281, NSF-DEB 9810222, NSF-DEB 0423385, and by a Doctoral Dissertation Improvement Grant NSF-DEB 0206173. Additional funding was provided by the Small Grants Program through the NSF-IGERT Program in Biogeochemistry and Environmental Change at Cornell University.
    Keywords: Benthic ; Nitrogen fixation ; Primary production ; Oligotrophic ; Arctic ; Toolik
    Repository Name: Woods Hole Open Access Server
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  • 24
    Publication Date: 2022-05-25
    Description: © The Author(s), 2012. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Biogeochemistry 114 (2013): 11-23, doi:10.1007/s10533-012-9801-5.
    Description: Human actions have both intentionally and unintentionally altered the global economy of nitrogen (N), with both positive and negative consequences for human health and welfare, the environment and climate change. Here we examine long-term trends in reactive N (Nr) creation and efficiencies of Nr use within the continental US. We estimate that human actions in the US have increased Nr inputs by at least ~5 times compared to pre-industrial conditions. Whereas N2 fixation as a by-product of fossil fuel combustion accounted for ~1/4 of Nr inputs from the 1970s to 2000 (or ~7 Tg N year−1), this value has dropped substantially since then (to 〈5 Tg N year−1), owing to Clean Air Act amendments. As of 2007, national N use efficiency (NUE) of all combined N inputs was equal to ~40 %. This value increases to 55 % when considering intentional N inputs alone, with food, industrial goods, fuel and fiber production accounting for the largest Nr sinks, respectively. We estimate that 66 % of the N lost during the production of goods and services enters the air (as NO x , NH3, N2O and N2), with the remaining 34 % lost to various waterways. These Nr losses contribute to smog formation, acid rain, eutrophication, biodiversity declines and climate change. Hence we argue that an improved national NUE would: (i) benefit the US economy on the production side; (ii) reduce social damage costs; and (iii) help avoid some major climate change risks in the future.
    Description: This work resulted from a workshop supported by NSF Research Coordination Network Awards DEB-0443439 and DEB-1049744 and by the David and Lucille Packard Foundation.
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  • 25
    Publication Date: 2022-05-25
    Description: © The Author(s), 2013. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Conservation Genetics Resources 5 (2013): 561-563, doi:10.1007/s12686-012-9852-x.
    Description: A total of one hundred microsatellites loci were selected from the draft genome of Stylophora pistillata and evaluated in previously characterized samples of Stylophora cf pistillata from the Red Sea. 17 loci were amplified successfully and tested in 24 individuals from samples belonging to a single population from the central region of the Red Sea. The number of alleles ranged from 3 to 15 alleles per locus, while observed heterozygosity ranged from 0.292 to 0.95. Six of these loci showed significant deviations from Hardy–Weinberg equilibrium (HWE) expectations, and 4/136 paired loci comparisons suggested linkage disequilibrium after Bonferroni corrections. After excluding loci with significant HWE deviation and evidence of null alleles, average genetic diversity over loci in the population studied (N = 24, Nloci = 11) was 0.701 ± 0.380. This indicates that these loci can be used effectively to evaluate genetic diversity and undertake population genetics studies in Stylophora sp. populations.
    Description: This research was funded by King Abdullah University of Science and Technology (KAUST), Saudi Arabia.
    Keywords: Stylophora ; Tetra and dinucleotide microsatellites ; Red Sea ; Coral
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  • 26
    Publication Date: 2022-05-25
    Description: © The Author(s), 2013. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Biogeochemistry 115 (2013): 299-315, doi:10.1007/s10533-013-9836-2.
    Description: A series of eight watersheds on the Pacific coast of Panama where conversion of mature lowland wet forest to pastures by artisanal burning provided watershed-scale experimental units with a wide range of forest cover (23, 29, 47, 56, 66, 73, 73, 91, and 92%). We used these watersheds as a landscape-scale experiment to assess effects of degree of deforestation on within-watershed retention and hydrological export of atmospheric inputs of nutrients. Retention was estimated by comparing rainfall nutrient concentrations (volume-weighted to allow for evapotranspiration) to concentrations in freshwater reaches of receiving streams. Retention of rain-derived nutrients in these Panama watersheds averaged 77, 85, 80, and 62% for nitrate, ammonium, dissolved organic N, and phosphate, respectively. Retention of rain-derived inorganic nitrogen, however, depended on watershed cover: retention of nitrate and ammonium in pasture-dominated watersheds was 95 and 98%, while fully forested watersheds retained 65 and 80% of atmospheric nitrate and ammonium inputs. Watershed forest cover did not affect retention of dissolved organic nitrogen and phosphate. Exports from more forested watersheds yielded DIN/P near 16, while pasture-dominated watersheds exported N/P near 2. The differences in magnitude of exports and ratios suggest that deforestation in these Panamanian forests results in exports that affect growth of plants and algae in the receiving stream and estuarine ecosystems. Watershed retention of dissolved inorganic nitrogen calculated from wet plus dry atmospheric deposition varied from 90% in pasture- to 65% in forest-dominated watersheds, respectively. Discharges of DIN to receiving waters from the watersheds therefore rose from 10% of atmospheric inputs for pasture-dominated watersheds, to about 35% of atmospheric inputs for fully forested watersheds. These results from watersheds with no agriculture or urbanization, but different conversion of forest to pasture by burning, show significant, deforestation-dependent retention within tropical watersheds, but also ecologically significant, and deforestation-dependent, exports that are biologically significant because of the paucity of nutrients in receiving tropical stream and coastal waters.
    Description: This work was funded by NSF Grant BIO- 0842413
    Keywords: Tropical watersheds ; Forests ; Pastures ; Nitrogen ; Phosphorus ; Evapotranspiration ; Groundwater
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  • 27
    Publication Date: 2022-05-25
    Description: © The Author(s), 2013. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Reviews in Fish Biology and Fisheries 23 (2013): 317-364, doi:10.1007/s11160-012-9297-z.
    Description: A recent survey lists more than 100 papers utilizing the auditory evoked potential (AEP) recording technique for studying hearing in fishes. More than 95 % of these AEP-studies were published after Kenyon et al. introduced a non-invasive electrophysiological approach in 1998 allowing rapid evaluation of hearing and repeated testing of animals. First, our review compares AEP hearing thresholds to behaviorally gained thresholds. Second, baseline hearing abilities are described and compared in 111 fish species out of 51 families. Following this, studies investigating the functional significance of various accessory hearing structures (Weberian ossicles, swim bladder, otic bladders) by eliminating these morphological structures in various ways are dealt with. Furthermore, studies on the ontogenetic development of hearing are summarized. The AEP-technique was frequently used to study the effects of high sound/noise levels on hearing in particular by measuring the temporary threshold shifts after exposure to various noise types (white noise, pure tones and anthropogenic noises). In addition, the hearing thresholds were determined in the presence of noise (white, ambient, ship noise) in several studies, a phenomenon termed masking. Various ecological (e.g., temperature, cave dwelling), genetic (e.g., albinism), methodical (e.g., ototoxic drugs, threshold criteria, speaker choice) and behavioral (e.g., dominance, reproductive status) factors potentially influencing hearing were investigated. Finally, the technique was successfully utilized to study acoustic communication by comparing hearing curves with sound spectra either under quiet conditions or in the presence of noise, by analyzing the temporal resolution ability of the auditory system and the detection of temporal, spectral and amplitude characteristics of conspecific vocalizations.
    Description: Support from the Austrian Science Fund (FWF grant 22319 to F.L.).
    Keywords: AEP ; Hearing ; Sound pressure level ; Particle acceleration levels ; Thresholds ; Noise ; Ontogeny ; Communication
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    Publication Date: 2022-05-25
    Description: © The Author(s), 2013. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Marine Biodiversity 43 (2013): 237-241, doi:10.1007/s12526-013-0151-x.
    Description: Despite the ubiquitous role sponges play in reef ecosystem dynamics, little is known about population-level connectivity in these organisms. The general field of population genetics in sponges remains in its infancy. To date, microsatellite markers have only been developed for few sponge species and no sponge population genetics studies using microsatellites have been conducted in the Red Sea. Here, with the use of next-generation sequencing, we characterize 12 novel polymorphic loci for the common reef sponge, Stylissa carteri. The number of alleles per loci ranged between three and eight. Observed heterozygosity frequencies (Ho) ranged from 0.125 to 0.870, whereas expected (He) heterozygosity frequencies ranged from 0.119 to 0.812. Only one locus showed consistent deviations from Hardy-Weinberg equilibrium (HWE) in both populations and two loci consistently showed the possible presence of null alleles. No significant linkage disequilibrium was detected for any pairs of loci. These microsatellites will be of use for numerous ecological studies focused on this common and abundant sponge.
    Description: This work was funded by the King Abdullah University of Science and Technology.
    Keywords: Microsatellites ; Sponges ; Population genetics ; Connectivity ; Stylissa carteri
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    Publication Date: 2022-03-25
    Description: Polygon tundra characterizes large areas of arctic lowlands. The micro-relief pattern within polygons offers differentiated habitats for testate amoeba (testacean)communities. The objective of this study was to relate testacean species distribution within a polygon to the environmental setting. Therefore, testaceans from four cryosol pits dug at different locations within a low-centered polygon were studied in the context of pedological and pedochemical data, while ground temperature and ground moisture were measured over one summer season. The study site is located on the Berelekh River floodplain (Indigirka lowland, East Siberia). The environmental data sets reflect variations along the rim-to-center transect of the polygon and in different horizons of each pit. The testacean species distribution is mainly controlled by the soil moisture regime and pH. Most of the identified testaceans are cosmopolitans; eight species are described from an arctic environment for the first time. Differences in environmental conditions are controlled by the micro-relief of polygon tundra and must be considered in arctic lowland testacean research because they bias species composition and any further (paleo-)ecological interpretation.
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    Publication Date: 2022-05-26
    Description: © The Author(s), 2012. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Marine Biology 160 (2013): 1773-1787, doi:10.1007/s00227-012-2031-5.
    Description: Ocean acidification is increasingly recognized as a component of global change that could have a wide range of impacts on marine organisms, the ecosystems they live in, and the goods and services they provide humankind. Assessment of these potential socio-economic impacts requires integrated efforts between biologists, chemists, oceanographers, economists and social scientists. But because ocean acidification is a new research area, significant knowledge gaps are preventing economists from estimating its welfare impacts. For instance, economic data on the impact of ocean acidification on significant markets such as fisheries, aquaculture and tourism are very limited (if not non-existent), and non-market valuation studies on this topic are not yet available. Our paper summarizes the current understanding of future OA impacts and sets out what further information is required for economists to assess socio-economic impacts of ocean acidification. Our aim is to provide clear directions for multidisciplinary collaborative research.
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    In:  EPIC3Earth System Science: Bridging the gaps between disciplines—A multi-disciplinary Helmholtz Graduate Research School, Berlin Heidelberg, Springer, 7 p., pp. 83-89, ISBN: 978-3-642-32235-8
    Publication Date: 2023-06-21
    Description: Geophysical data acquired along the Antarctic passive margins constrain the structure and geometry of the deformed continental crust. Crustal thickness estimates range between 7 and 50 km and the Antarctic continent–ocean transition zone (COTZ) extends up to 100–670 km towards the ocean. Continental deformation prior to rifting over a c. 100 million years long time span resulted in crustal stretching factors varying between 1.8 and 5.9. The time span of deformation was sufficiently large and the rifting velocity low enough to extend the margin by up to 300–400 km. Crustal thinning generates a significant subsidence and shallow water passages might already have developed during the rifting phase along the margin. Accounting for accurate continental margin deformation has also consequences for plate-tectonic reconstructions.
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    In:  EPIC3Earth system science: bridging the gap between disciplines, Earth system science: bridging the gap between disciplines, Heidelberg, Springer, 7 p., pp. 97-103, ISBN: 978-3-642-32234-1
    Publication Date: 2023-06-21
    Description: Information about past environmental conditions is preserved in the elemental signature of biogenic marine carbonates. Thus, trace element to calcium ratios (Me/Ca) of biogenic calcium carbonates, such as bivalve shells, are often used to reconstruct past environmental conditions at the time of carbonate formation (Foster et al., 2008). In this study, we examine the suitability of the long-lived (〉 400 years) bivalve Arctica islandica as a high-resolution bioarchive by measuring Me/Ca ratios in the shell carbonate. Pb/Ca concentrations in A. islandica shells reflect anthropogenic gasoline lead consumption and further provide a centennial record of lead pollution for the collection site off the coast of Virginia, USA. With A. islandica shells from the North Sea we test the hypothesis that Ba/Ca and Mn/Ca ratios are indicators of the diatom abundance. Our results indicate that statistically both ratios correlate well with the diatom abundance, and yet, on a year-to-year base, there is no consistent reflection of diatom abundance patterns in the Ba/Ca and Mn/Ca annual profiles. These findings indicate that primary production affects Ba/Ca and Mn/Ca shell ratios, though we suggest that both elements are coupled to primary production through different processes and are affected by further, yet unknown processes.
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    In:  EPIC3Earth System Science: Bridging the Gaps between Disciplines Perspectives from a Multi-disciplinary Helmholtz Research School, Heidelbert, Springer, 138 p., pp. 1-8, ISBN: 978-3-642-32234-1
    Publication Date: 2023-06-21
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    In:  EPIC3Earth System Science: Bridging the Gaps between Disciplines Perspectives from a Multi-disciplinary Helmholtz Research School, Heidelberg, Springer, 138 p., pp. 1-3, ISBN: 978-3-642-32234-1
    Publication Date: 2023-06-21
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    In:  EPIC3Earth System Modelling - Volume 6: ESM Data Archives in the Times of the Grid, Springer Briefs in Earth System Sciences, Berlin, Heidelberg, Springer, pp. 49-60, ISBN: 978-3-642-37243-8
    Publication Date: 2023-06-21
    Description: Grid technology can help scientists to overcome problems with the Data Deluge in climate research, as it facilitates large scale data sharing and reuse of data. Worldwide there are different initiatives to facilitate data handling for scientific work and to built up collaborational working environments with interinstitutional data access.
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    In:  EPIC3Earth System Science: Bridging the Gaps between Disciplines. Perspectives from a Multi-disciplinary Helmholtz Graduate Research School, Earth System Science: Bridging the Gaps between Disciplines. Perspectives from a Multi-disciplinary Helmholtz Graduate Research School, Heidleberg, Springer, 4 p., pp. 38-41, ISBN: 978-3-642-32234-1
    Publication Date: 2023-06-21
    Description: Growth of phytoplankton in the Southern Ocean (SO) is largely limited by insufficient concentrations of the micronutrient iron, so that despite the large macronutrient reservoir, the SO is considered a High Nutrient Low Chlorophyll region. Therefore, phytoplankton growth is enhanced where exogenous iron is introduced to the system, for example downstream from islands. These confined regions sustain very rich ecosystems and are hot spots for atmospheric carbon dioxide drawdown. In this study, a combination of satellite derived measurements and model simulations are used to investigate the biological and physical environmental disturbances of the island of South Georgia (37°W, 54°S), which is located in the southwestern part of the Atlantic sector of the SO. We show not only that the island shelf is an important source of dissolved iron to the system, but also that the characteristic surface circulation patterns found downstream of the island play an important role in maintaining the shape and distribution of the developing phytoplankton bloom.
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    Bulletin of mathematical biology 46 (1984), S. 967-969 
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    Notes: Abstract It is observed that a dynamical continuity equation for biomass distribution yields the asymptotic steady-state exponential dependencen=A exp( $$ - m/\bar m$$ ) exhibited by certain fishery data, wherem is the biomass of an individual,n is the number of individuals per unit biomass interval, andA, $$\bar m$$ are positive constants. This dynamical approach to biomass distribution is an alternative to the global maximization principle proposed recently by Lurié and Wagensberg.
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    Bulletin of mathematical biology 46 (1984), S. 971-972 
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    Bulletin of mathematical biology 46 (1984), S. 973-974 
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    Bulletin of mathematical biology 46 (1984), S. 11-17 
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    Notes: Abstract Linear birth and death processes are used to derive simple expressions for sequential extinction times and gene fixation probabilities in asexual populations.
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    Bulletin of mathematical biology 46 (1984), S. 1-10 
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    Notes: Abstract We are here concerned with the functionf which assigns to each pointP of an object the numberf(P) which is the shortest distance fromP to the border. This function appears in various guises in diverse biological studies. The functionf(P) is itself a measure of shape—or more precisely, an infinite set of measures, one for each point (and hence, in view of its geometric definition, usually in a form inconvenient for use). Thus in this paper we sought a reasonable representative of this infinite set of measures, namely themean of the numbersf(P) asP ranges over all points of the entity. Computability studies are developed for various classes of shapes. For example, (1) the mean for a lamina bounded by a polygon circumscribable about a circle of radiusr isr/3; (2) the mean for a domain bounded by a polyhedron circumscribable about a sphere of radiusr isr/4. The transition from pointwise to piecewisef(P), especially in the non-convex case, requires working with inequalities.
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    Bulletin of mathematical biology 46 (1984), S. 19-40 
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    Notes: Abstract A mathematical model for traveling bands of motile and chemotactic bacteria in the presence of cell growth and death is examined. It is found that asymptotic traveling wave solutions exist in the absence of chemotaxis, due to the balance of growth, death and random motility. Thus random motility confers the ecological advantage of population propagation through migration into nutrient-rich regions. The presence of chemotaxis amplifies this advantage by moving more cells into higher nutrient concentration regions, resulting in larger and faster bands. Therefore there seem to be two types of traveling bands that can be attained by chemotactic bacteria in the presence of growth and death: (1) these growth/death/motility bands; and (2) pure chemotactic ‘Keller-Segel'-type bands. Comparison to experimental observations by Chapman in 1973 indicate that the latter seem to be formed. The relationship between these two types of solution is at present uncertain. The growth/death/motility bands may have relevance on longer time or distance scales characteristic of microbial ecological systems.
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    Bulletin of mathematical biology 46 (1984), S. 115-125 
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    Notes: Abstract Based on the principle of minimum power, a mathematical model of the pathological functional state of the oxygen transport system is presented. The model is used to determine the optimal functional parameters of the oxygen transport system in hyperthyroidism, anemia and hypertension. Theoretical results are compared with clinical data.
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    Bulletin of mathematical biology 46 (1984), S. 139-153 
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    Notes: Abstract A modified SIRS model is developed as a framework for the study of epizootiological dynamics in an insect-pathogen system. Linearized stability analysis reveals that the system with one immune and one susceptible host class can exhibit stable, periodic or unstable behavior depending on model parameters. In general, high pathogenicity, short pathogen propagule lifespan and high host reproductive rate are stabilizing influences. Pathogen transmissibility and propagule production/host do not influence local stability. The effect of seasonal host reproduction is studied because most insect hosts are seasonal in temperate climates. The basic stability dependence on model parameters holds except as modified by the length of the reproduction interval. The results of this study are compared with the recent work of Anderson and May.
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    Bulletin of mathematical biology 46 (1984), S. 175-184 
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    Notes: Abstract The random predator-prey type interactions of the population species in a random varying environment have been investigated. The Fokker-Planck equation for the transition probability, corresponding to the stochastic differential equations established from Lotka-Volterra equations by the introduction of randomness and variability, has been integrated in the form of a path integral. The transition probabilities for extinction or survival of one or several species have been approximately evaluated and investigated.
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    Bulletin of mathematical biology 46 (1984), S. 155-174 
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    Notes: Abstract If two microbial populations compete for a single resource in a homogeneous environment with time invariant inputs they cannot coexist indefinitely if the resource competed for is not renewed by biological activity within the system. Mathematical studies have shown that in a predator-prey system, where the resource (prey) is self-renewing, the two competitors (predators) can coexist in a limit cycle. This suggests that if the resource competed for is renewed by biological activity within the system coexistence can occur in any microbial system provided that it exhibits the same features as, but without being, a predator-prey one. A food chain involving commensalism, competition and amensalism is presented here. Two subcases are considered. It is only when maintenance effects are taken into account that coexistence, in limit cycles, can occur for this system. Limit cycle solutions for the system are demonstrated with the help of computer simulations. Some necessary conditions for coexistence are presented, as are some speculations regarding the possible physical explanations of the results.
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    Bulletin of mathematical biology 46 (1984), S. 127-137 
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    Notes: Abstract The branching structure of the mammalian arterial tree has been known to be close to that of an optimal conduit system of the minimum work model characterized as the branch system of constant wall shear rate. The physiological mechanism producing such construction was considered to be based on the local response of arterial caliber induced by the wall shear stress (shear rate × blood viscosity) and thereby maintaining this stress constant, which was previously observed at the canine common carotid artery shunted to the external jugular vein. The stress levels at various parts of the arterial system estimated from available data fell within ±50% of the mean (15 dyn/cm2), which was consistent with the value predicted from the model. Theoretical analyses on the cost function of the model indicated that the suspected variation of shear rate levels in the arterial tree due to the anomalous changes in blood viscosity which might bring about 3- to 4-fold differences between the minimum and maximum shear rates would cause less than 10% increase in the total energy cost. It was concluded that a local adaptive response to wall shear stress is the mechanism which effectively optimizes the design of the arterial tree.
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    Bulletin of mathematical biology 46 (1984), S. 185-185 
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    Bulletin of mathematical biology 46 (1984), S. 187-203 
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    Notes: Abstract The structure of the genetic code is related to a Gray code, which is a plausible theoretical model for an amino acid code. The proposed model implies that the most important factor in shaping the code was the effects of mistakes in translation, not effects of mutations. Another possible implication is that the preservation of stiffness and flexibility at appropriate places in a protein chain is as important in protein structure as the appropriate placement of hydrophilic (external) and hydrophobic (internal) residues. Other results are a simple conceptualization of the relationships among the 20 amino acids and their relations to their codons. The detailed relationships are summarized in the following ‘similarity alphabet’: ala, thr, gly, pro, ser; asp, asn, glu, gln, lys; his, arg, trp, tyr, phe; leu, met, ile, val, cys; (ATGPS DNEQK HRWYF LMIVC in the one-letter code). This alphabet falls into four groups of amino acids: small, external, large, internal. The approximate relation of the groups to their codons is expressed as: the first base of a codon controls size—a purine means a small amino acid, a pyrimidine means large; the middle base controls cloisterednes—purine means external, pyrimidine means internal. These relationships express the minimum change principle upon which the code appears to be founded.
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    Bulletin of mathematical biology 46 (1984), S. 269-282 
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    Notes: Abstract A theoretical study of the Brusselator model with non-uniform distribution of component A and a concentration-dependent diffusion coefficient has been performed. Numerical simulation reveals that a variable diffusion coefficient alters the bifurcation pattern and the stability properties of the steady-state as well as periodic solutions. A simple approximate method, based on one-point collocation, has been proposed to analyze the bifurcation phenomena for the case of fixed boundary conditions and low system size.
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    Bulletin of mathematical biology 46 (1984), S. 283-294 
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    Notes: Abstract In this paper the effects of the occurrence of cut trees in the topological analysis of branching patterns have been studied. It is assumed that branches are removed at random from the trees. We prove that, for both the segmental and terminal growth models, the probability distributions of the cut trees are identical to those of complete trees.
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    Bulletin of mathematical biology 46 (1984), S. 247-268 
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    Notes: Abstract The goal of this work is an examination of capillary exchange models as mathematical operators. The concentration function relations for the Krogh cylinder of a single capillary, basic to many organ models, are studied via the theory of operators on the Lebesgue normed spacesL p[0,∞], (1〈-p〈-∞). A discussion is included of theL p -normsvis-à-vis the coefficient of variation currently used in finding capillary parameters and evaluating parameter searches. The capillary model determines two operators on the space of locally integrable functions: O K (relating extravascular concentration to intravascular) and K a, k (relating intravascular concentration to input), wherek is the ratio of permeabilitysurface area (PS) to extravascular volume, and α is the ratio of PS to flow. These operators are shown to induce contractive (‖O K ‖ p 〈-1, ‖K a, k ‖ p 〈-1), isotone, linear operators onL p . The uniform convergence relation $$K_{a,k} = \mathop {\lim _{(p)} }\limits_{N \to \infty } \left( {\sum\limits_{n = 0}^N {P_n (a)O_k^n } } \right)$$ (as operators onL p) is derived, whereP n (a) is the Poisson probabilitye −a a n /n!. For the important special cases ofp=∞, 1, 2 the norms are found (‖Ok‖=‖Ka,k‖p=1). Consideration is also given to the norms and operators when the functions involved are limited to a finite interval of time.
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    Bulletin of mathematical biology 46 (1984), S. 295-326 
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    Notes: Abstract One particular kind of structure offers possible explanations, for long-term memory, efficient consolidation of stored information from the environment, clustering of data strings and multimodal functioning. It is a possible model for pieces of neural structure and its use offers a uniform method for both studying and constructing an extensive class of mechanisms.
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    Bulletin of mathematical biology 46 (1984), S. 327-332 
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    Notes: Abstract Levenshtein dissimilarity measures are used to compare sequences in application areas including coding theory, computer science and macromolecular biology. In general, they measure sequence dissimilarity by the length of a shortest weighted sequence of insertions, deletions and substitutions required, to transform one sequence into another. Those Levenshtein dissimilarity measures based on insertions and deletions are analyzed by a model involving valuations on a partially ordered set. The model reveals structural relationships among poset, valuation and dissimilarity measure. As a consequence, certain Levenshtein dissimilarity measures are shown to be metrics characterized by betweenness properties and computable in terms of well-known measures of sequence similarity.
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    Bulletin of mathematical biology 46 (1984), S. 337-337 
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    Bulletin of mathematical biology 46 (1984), S. 333-336 
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    Notes: Abstract It is pointed out that the methane flux measured experimentally for certain ponds and swamps is quantitatively consistent with a commensal dependence of Methanobacteria on O2-chemotactic motile aerobic bacteria. The Methano species is thereby shielded from oxygen and provided with carbon dioxide for the anaerobic production of methane.
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    Bulletin of mathematical biology 46 (1984), S. 357-370 
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    Notes: Abstract A sufficient condition is given for stochastic boundedness persistence of a top predator in generalized Lotka-Volterra-type stochastic food web models in arbitrary bounded regions of state space. The main result indicates that persistence in the corresponding deterministic system is preserved in the stochastic system if the intensities of the random fluctuations are not too large.
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    Bulletin of mathematical biology 46 (1984), S. 371-377 
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    Notes: Abstract One of Bobisud's models for the evolution of cannibalism is reanalyzed by applying the method of finding evolutionarily stable strategies (or ESS's). It is demonstrated that ‘no cannibalism’ never will be an ESS if the initial rate of cannibalism is too large. It is further demonstrated that individual selection may even result in the evolution of cannibalism during food abundance. Some empirical case studies are briefly discussed in relation to this model.
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    Bulletin of mathematical biology 46 (1984), S. 379-387 
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    Notes: Abstract A computer algorithm is presented which equiprobably generates any member of the set of all directed trees withk labeled terminal nodes and unlabeled interior nodes. The algorithm requires roughlyk 2 /2 storage locations. The one-time initialization requiresO(k 2 ) time, while generating each tree requiresO(k) time.
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    Bulletin of mathematical biology 46 (1984), S. 515-527 
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    Notes: Abstract The comparison of several sequences is central to many problems of molecular biology. Finding consensus patterns that define genetic control regions or that determine structural or functional themes are examples of these problems. Previously proposed methods, such as dynamic programming, are not adequate for solving problems of realistic size. This paper gives a new and practical solution for finding unknown patterns that occur imperfectly above a preset frequency. Algorithms for finding the patterns are given as well as estimates of statistical significance.
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    Bulletin of mathematical biology 46 (1984), S. 501-514 
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    Notes: Abstract A new development is introduced here in the use of dynamic programming in finding pattern similarities in genetic sequences, as was first done by Needleman and Wunsch (1969). A condition of pattern similarity is defined and an algorithm is given which scans any set of similarities and screens out those which fail to meet the condition. When the set to be scanned contains every pair of segments, one from each of two given sequences of lengthsm andn (i.e. every possible location for a pattern similarity), then it completes the scan in a number of computational steps proportional tom·n, leaving those pairs of segments which satisfy the similarity condition. The algorithm is based on the concept of match density, as suggested by Goad and Kanehisa (1982).
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    Bulletin of mathematical biology 46 (1984), S. 529-543 
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    Notes: Abstract This paper concerns sequences of letters in which certain “distinguished” words are of interest. Such sequences arise as data in numerous fields including genetics and neuroscience. A probability distribution is given for the number of occurrences of a chosen word in a randomized sequence of letters. Such words are considered “favored” if they occur more than expected at random. Favored words have been discovered in nerve impulse trains and may reflect a neural coding scheme.
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    Bulletin of mathematical biology 46 (1984), S. 545-552 
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    Notes: Abstract As the volume of protein sequence data grows, rapid methods for searching the protein sequence database become of primary importance. Rigorous comparison of sequences is obtained with the well-known dynamic programming algorithms. However, these algorithms are not rapid enough to use for routinely searching the entire database. In this paper we discuss some methods that can be used for rapid searches.
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    Bulletin of mathematical biology 46 (1984), S. 553-566 
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    Notes: Abstract We give algorithms for computing the extent of similarity between two or three sequences of letters. The similarity measures we consider include a penalty for inserting gaps within the sequence in order to enhance similarity. The magnitude of the penalty for gaps is assumed to be independent of their size in order to accommodate certain biological applications. Our algorithm for three sequence comparisons, which is based on solving a system of recursive equations, improves upon the efficiency of existing methods. Although the system of recursive equations utilized by the algorithm is quite complicated as it stands, it has none the less been simplified by appeal to combinatorial considerations.
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    Bulletin of mathematical biology 46 (1984), S. 567-577 
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    Notes: Abstract Well-known dynamic programming algorithms exist for comparing two finite sequences inO(N 2) time and storage, whereN is the common sequence length. Extensions to the comparison ofM finite sequences requireO((2N) M) time and storage, making such algorithms difficult even forM=3. A simple generalization of the sequences makes it possible to obtain some results about the geometry of sequence alignments. These ideas suggest heuristic approaches to problems of comparing several sequences. IfM sequences are known to be related by a binary tree, they can be aligned inO(MN 2) time andO(N 2+NM) storage.
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    Bulletin of mathematical biology 46 (1984), S. 661-672 
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    Notes: Abstract Protein sequences of the Dayhoff databank of 1984 have been analyzed to evaluate the occurrences of the 400 dipeptides and 8000 tripeptides. Expected values and standard deviations for the di- and tripeptides were determined by Monte Carlo and binomial approximation. A condensed format containing this information, labeled a uniqueness diagram, is presented and made available in the form of a microfiche.
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    Bulletin of mathematical biology 46 (1984), S. 827-844 
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    Notes: Abstract In two-state sliding filament models of muscle contraction a partial differential equation must be solved to find the cross-bridge distribution functionn(x, t). In this paper the analytical form of this function is obtained by integration along the characteristic line and special cases are presented in which the explicit expression forn(x, t) can be completely determined. These analytical solutions provide a direct mathematical connection between the microscopic contraction parameters contained in the kinetic theories and macroscopic muscle dynamics and are thus used to investigate what parameters influence the transient contractile tension in typical experimental conditions. The results of this investigation are consistent with relevant aspects of muscle physiology.
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    Bulletin of mathematical biology 46 (1984), S. 845-857 
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    Notes: Abstract Experiments on random binary, ternary, etc. (P=2, 3,…, 10) switching nets are reported. Behavioral cycle lengths are examined as functions of output variety,P, input connectance,K, and net size,N. Overall, output variety appears an influential, well-behaved net property. Strong, but well-behaved interactions appear among net variables. In high connectance nets, median cycle length grows approx. asP N/2. Other factors constant, one-connected nets show the shortest cycles, and connectance effects appear to converge asymptotically aroundN. Data for cycle length as a function of net size suggest a concavity not compatible with the Kauffman “square root law” (Kauffman, 1969). Evidence of a positive relationship between cycle length and run-in length is found in two-input nets; weaker evidence is obtained that in higher connectance nets this relationship becomes negative in sign. The “modular complexity” ofP〉2 nets is examined briefly.
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    Bulletin of mathematical biology 46 (1984), S. 869-877 
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    Notes: Abstract The influence of topographical situation on the spread of infection is studied. The investigation is based on a multigroup model. The population under consideration is thought to be divided into subpopulations living in regions that are separated from each other by natural barriers (mountains). Infection is carried from one region to another by migrating infectives. Migration is possible only along the river system so that the structure of the epidemiological network is that of a symmetric tree. The results allow comparison of the velocity of propagation of the epidemic for different geographical situations and allow quantification of the “channel-effect”, according to which mountainous regions are channels rather than barriers to the spread of an epidemic.
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    Circuits, systems and signal processing 3 (1984), S. 267-294 
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    Notes: Abstract Pipeline techniques have been successfully applied to speeding up processing in both general- and special-purpose digital computers. Application of these techniques to nonrecursive (FIR) filters has been suggested and is quite straightforward. Application to recursive (IIR) filters has not previously been shown. In this paper, the technique for applying pipeline techniques to recursive filters is shown and the advantages and disadvantages of the technique are discussed. Using these techniques, recursive digital filters operating at hitherto impossibly high rates can be designed.
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    Circuits, systems and signal processing 3 (1984), S. 295-314 
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    Notes: Abstract The long-standing problem of reconstructing a function from its samples is considered again. Assuming a sequence of oversampled values, a set of appropriate idealized reconstruction filters can be defined, which do not suffer from instability or slow convergence. The realization — a cascade of a nonrecursive digital filter, D/A-converter, and a fixed/analog smoothing filter — demands the design of the digital filter for the increase of the sampling rate. The design of this nonrecursive filter is the purpose of this paper. Approximations in the frequency as well as in the time domain are presented.
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    Circuits, systems and signal processing 3 (1984), S. 105-122 
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    Notes: Abstract In this paper we formulate power systems as nonlinear nearly Hamiltonian systems. Using the invariance principle for ordinary differential equations, necessary and sufficient conditions for asymptotic stability are established and a new method of estimating the domain of attraction of the stable equilibrium point is developed. The present results constitute a novel approach to stability analysis and involve the following three steps: a. Given a system with dissipation, the stability of its equilibrium is ascertained by determining the stability of the associated conservative system. b. Attractivity of the stable equilibrium of the entire system (with dissipation) is determined from the system topology. c. An estimate of the domain of attraction of the asymptotically stable equilibrium is obtained by making use of results obtained in (a) and (b). The stability criterion developed in this paper sheds new light on the mechanism of instability in power systems and it provides analytical verification to the concept of the potential-energy boundary surface (PEBS). The PEBS is a hypersurface which makes up a part of the boundary of the domain of attraction of the stable equilibrium in a power system. The existence and properties of the PEBS have thus far been deduced primarily via simulations and heuristic methods.
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    Circuits, systems and signal processing 3 (1984), S. 161-176 
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    Notes: Abstract In conventional television systems, picture scanning in vertical and temporal directions is usually very defective with regard to the sampling theorem. In this paper some deficiencies such as aliasing, line-structure distortion, line flickering, and large-area flickering are investigated with regard to their dependence on the inter-lacedpicture-scanning process. The three-dimensional reconstruction filtering of the sampled picture is especially analyzed with respect of the viewer's perception. Furthermore, it will be shown that in connection with a new concept of picture scanning published earlier [1], [2], a flat-field reproduction without any 25/30-Hz flicker can be achieved by vertical filtering only. This is true even though the final reproduction by the monitor is performed with interlace. The vertical filtering can then be optimized in the sense of maximum picture sharpness and resolution with negligible ringing as well. Practical results are given in this paper.
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    Circuits, systems and signal processing 3 (1984), S. 177-191 
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    Notes: Abstract In this paper a new type of “velocity-selecting/rejecting filter” which passes or stops a particular event in a seismic signal is proposed. The velocity-selecting filter is based on a time-space band-pass filter with sharp passband for a particular direction, and similarly, the velocity-rejecting filter is based on a time-space band-stop filter. A technique for designing such filters, in terms of an infinite-impulse-response (IIR) filter, is presented, in which a rotated version of separable filter is used. Finally, numerical examples are included to illustrate the design theory.
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    Circuits, systems and signal processing 3 (1984), S. 347-359 
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    Circuits, systems and signal processing 3 (1984), S. 315-325 
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    Notes: Abstract A special type of factorization for operators defined on partially ordered Hilbert resolution spaces is considered. The main result includes, as a particular case, the classical Schur-Coleski triangular factorization. Connections with stochastic optimization and image-processing problems are established.
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    Circuits, systems and signal processing 3 (1984), S. 409-417 
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    Notes: Abstract In a recent paper on nonlocal expansions necessary and sufficient conditions are given under whichf −1 has a generalized power series expansion, whenf is an invertible locally Lipschitz map between certain general subsets of a complex Banach space. Here we establish the validity of a conceptually interesting algorithm for obtaining the expansion. Basically, we show that a certain contraction mapping iteration generates iteratesℐ 1,ℐ 2,... such that eachℐ k yields all of the terms of the generalized power series expansion off −1 up to order (k + 1), assuming merely that the expansion off −1 exists. An earlier different result along related lines is mentioned.
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    Circuits, systems and signal processing 3 (1984), S. 447-475 
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    Notes: Abstract The representation of functions in a basis function expansionz(t)= ∑k=1/∞=,a k〉 x k (t) is straightforward when the basis functionsx k (t) are orthogonal. There has been very little work up to this time in determining how to use nonorthogonal bases in signal representation. On the other hand, applications in data compression and signal synthesis often require using specific tailor-made bases. Presented here is a method for constructing very general nonorthogonal bases. Orthogonality has often been used to show that a basis spans the set of functions of interest and to calculate the coefficients of the representation. In this paper, both of these fundamental aspects are addressed for nonorthogonal bases. A new basis {y k (t)} is obtained by performing a linear transformation on a known existing basis {x k (t)}. This transformation is constructed such that the coefficients of signal representation on the new basis are readily found. Then, a useful and sufficient condition is placed upon the new basis such that representations converge. The fundamental methods are applied to the standard examples of signal representation. The complex sinusoids, the Rademacher functions, the orthogonal polynomials, and the decaying exponentials are used as the original basis {x k (t)} from which a new basis {y k (t)} is generated. Two examples are given to illustrate general applications: one in signal synthesis and one in signal analysis.
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    Bulletin of mathematical biology 46 (1984), S. 81-102 
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    Notes: Abstract The temperature regulation in homothermic animals is an example of a negative feedback system. It shows sudden changes of parameter values, and therefore suggests the use of catastrophe theory for its description. This paper reports on work done on the human temperature regulation mechanism to shows that the five-dimensional dual butterfly catastrophe model is sufficient for its description. Nearly all experiments reported in the literature overlook the dynamic multiparametric nature of the process. Use of catastrophe theory, on the other hand, shows that one cannot find a model with fewer than five parameters for such a system. From work by Benzinger and Kitzinger, the exact shape of part of the corresponding bifurcation set is determined.
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    Bulletin of mathematical biology 46 (1984), S. 103-114 
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    Notes: Abstract This paper is an analytical study on the pulse wave velocities in the aorta. In conformity to a physiologic state of loading, the distensibility of the vessel wall has been accounted for. The wall material is treated by using the theory of large elastic deformations. The orthotropicity of wall tissues and the effect of the surrounding tissues have been incorporated in the analysis which is based on the use of the strain energy function suggested by Vaishnavet al. Numerical values of the wave velocities of the canine middle descending thoracic aorta are computed by using the derived analytical expressions.
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    Bulletin of mathematical biology 46 (1984), S. 41-80 
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    Notes: Abstract The theory of a symmetrical 3-barrier, 4-site, single-filing ionic channel is developed. The model goes beyond earlier models by including additional sites, as well as barriers which need not be symmetrical in the applied field, and contains the earlier models as special cases. It is itself a special case of the most general 4-site model, which has 5 barriers. By considering the barriers at the mouth and middle of the channel to be sufficiently larger than the barriers separating the sites in each channel half, these barriers can be neglected; thus this case reduces to a 3-barrier model where the sites in each channel half can then be assumed to be in equilibrium with each other. The alternative 3-barrier, 4-site case, where the barrier between the sites is considered to be larger than that at the mouth of the channel, is considered elsewhere. Pure cation permeation is considered and only single-salt properties of the system are analyzed, namely occupancy, conductance, flux ratio exponent and current-voltage relation. The concentration dependences of these properties are computed and interrelated and, where possible, also given in analytical form. The mathematical relations are obtained for a channel which is symmetrical around its middle, which is the appropriate assumption for the gramicidin channel. However, the barriers themselves are allowed to be asymmetric with respect to the potential dependence, which has been found to be essential for gramicidin. Mathematically, a straight-forward matrix formulation is used; but a general theoretical method is presented for reducing a complex model (with more than 2 sites) to a simpler cases when equilibrium exists across one or several barriers, as is often the cases. This method is a prototype which makes analytical solutions of complex barrier models possible in many cases.
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    Bulletin of mathematical biology 46 (1984), S. 219-227 
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    Notes: Abstract A chain-like arrangement of four urns (a catenary system) into which different color balls (white, corresponding to radio atoms, and black, corresponding to stable atoms) are being transferred is used to simulate the transport of atoms down the GI tract of man and animals. Into the first urn (stomach) are placedw o white balls andr black balls while in the 2nd (small intestines) and 3rd (large intestines) urn, onlyr blacks are put in, with no whites. A sample of sizer is transferred from the 1st, 2nd and 3rd urns to the 2nd, 3rd and 4th (infinite universe) urns. From the random variable difference equations the first and second moments for the distribution of the number of radio atoms present in each urn are obtained. The variance of the contents of radioatoms in the excretion urn is
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    Bulletin of mathematical biology 46 (1984), S. 229-234 
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    Notes: Abstract A power series solution is presented which describes the steady-state concentration profiles for substrate and product molecules in immobilized enzyme systems. Diffusional effects and product inhibition are incorporated into this model. The kinetic consequences of diffusion limitation and product inhibition for immobilized enzymes are discussed and are compared to kinetic behavior characteristic of other types of effects, such as substrate inhibition and substrate activation.
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    Bulletin of mathematical biology 46 (1984), S. 205-217 
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    Notes: Abstract The use of spheroids as a tumor model has become commonplace since it was discovered that many cell lines can form spheroids when grown on a surface to which the cells cannot attach. This culture system complicates experiments which depend on oxygen supply because the oxygen concentration in the vicinity of a stationary spheroid has not been well defined. We present in this paper solutions to the oxygen diffusion equation for simple geometries: a spheroid in an infinite stationary medium and in a finite spherical stationary medium. Comparison of these solutions provides an estimate of the oxygen supply to a spheroid in a Petri dish. We show that typical spheroids can be expected to cause a substantial depletion of the oxygen in the nearby medium. Any disturbance of the medium or the spheroids will temporarily increase the oxygen supply. We provide a method for estimating the rate of return to equilibrium in the finite cases. These results indicate that the oxygen supply to stationary spheroids can be altered temporarily by small movements or changes in temperature which cause convection currents, or permanently by changes in the depth of the medium.
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    Bulletin of mathematical biology 46 (1984), S. 235-246 
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    Notes: Abstract Alternative sufficient conditions are derived that guarantee the stability of spatially heterogenous steady-state distributions of motile aerobic bacterial populations attracted chemotactically by oxygen, motile anaerobic populations repelled by oxygen, and the oxygen concentration itself through a stationary aqueous medium. In particular, it follows from the latter criteria that the heterogeneous steady-state distributions for cylindrical regions with arbitrary cross-sections, uniform depth and mixed Dirichlet-Neumann boundary conditions on the oxygen concentration (appropriate to certain still-water bodies in nature) are stable with respect to arbitrary perturbations in the bacteria cell and the oxygen distributions.
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    Bulletin of mathematical biology 46 (1984), S. 339-355 
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    Notes: Abstract Closed positive feedback loops of catalytic reactions between macromolecules, or hypercycles, provide a kinetic mechanism whereby each Species serves to catalyze selfreproduction of its successor in the loop. Hypercycles of five members or more evolve into limit cycles characteristic of a biochemical clock. Computer study of the coupled non-linear differential equations which describe these systems shows that the periodT n of then-species limit cycle is given byT n=nτn, where τn is an elemental repeat period reflecting translational time invariance. Analytic solutions of the equations are developed so that the time evolution of elementaryn-hypercycles can be traced in dynamical detail. It is shown that the magnitude of τn is, to good approximation, a linear function ofn. For a givenn, τn is a very sensitive function of the relative concentration a given member of the loop has at the time its predecessor dominates the state of the hypercycle. These concentrations decrease with increasingn. Aroundn=15 they become so small that elementary hypercycles become unstable against disruptive concentration fluctuations. Species concentrations for more realistic hypercycles tend not to be as small, so that the present estimate of a maximum number of components is a lower bound.
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    Bulletin of mathematical biology 46 (1984), S. 399-406 
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    Notes: Abstract The technique of the probability generating function is used to derive the stochastic differential equations for a nonlinear model based on Eigen and Schuster's theory of biomolecular selection and evolution. The stabilities of various steady states are analyzed by using the linear stability approximation. The instability of a small starting population is investigated numerically. The minimum starting populations required for steady-state survival are then estimated for a wide range of parameters.
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    Bulletin of mathematical biology 46 (1984), S. 389-398 
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    Notes: Abstract Some morphological features of the human bronchial tree were simulated by computergenerated trees. The trees were ordered by the methods of Horsfield and Strahler. Delta, the difference between the Horsfield orders of the two branches at a bifurcation, was determined by pseudorandom numbers generated according to a distribution of probabilities defined on input. By trial and error a distribution was found which resulted in trees being generated with average Strahler order branching ratios of 2.82, similar to a real bronchial tree. Branching angles and length ratio could also be defined on input. By varying these input parameters it was found that the form of the tree was quite sensitive to them, and that by a suitable choice the intrasegmental part of the bronchial tree could be simulated. It is concluded that branching ratio, length ratio, mean branching angles and distribution of delta are controlled within tight limits in the bronchial tree, and this may support the concept of optimal design.
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    Bulletin of mathematical biology 46 (1984), S. 407-422 
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    Notes: Abstract In this paper perturbation methods are used for the mathematical analysis of coupled relaxation oscillators. This study covers entrainment by an external periodic stimulus as well as mutual entrainment of coupled oscillators with different limit cycles. The oscillators are of a type one meets in the modeling of biological oscillators by chemical reactions and electronic circuits. Special attention is given to entrainment different from 1∶1. The results relate to phenomena occurring in physiological experiments, such as the periodic stimulation of neural and cardiac cells, and in the non-regular functioning of organs and organisms, such as the AV-block in the heart.
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    Bulletin of mathematical biology 46 (1984), S. 423-446 
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    Notes: Abstract A new, more realistic model of the action of ionizing radiation on mammalian cells growingin vitro is presented. Although this model requires a large number of parameters, these are linked to biologically observable quantities rather than being abstract sensitivities, as had previously been the case. Three different stochastic processes are required: {X(t);t ∈ [0, τ]}, representing damage alterations during irradiation; {(X(t), S(t));t ∈ [τ, τ+T D]}, representing changes in both damageX(t) and cell cycle positionS(t) during the post-irradiation cell cycle; and {N x(t);t ∈ [0,T G]}, representing the subsequent colony growth process conditioned on the value ofX(τ+T D). The assumptions used to define these processes extend a previous model of short term DNA damage formation and repair (Nelson S. J. 1982,Radiat. Res. 92, 120–145) to include the influence of cell cycle progression on damage in the irradiated cell and the effect of permanent inherited damage on the daughter cells' colony growth pattern. Expressions corresponding to commonly measured radiation effects are derived from the model and compared with predictions from previous models. It is found that these previous models oversimplified the mechanism of radiation action because they did not adequately represent repair during irradiation, the influence of radiation-induced cycle delays and damage inheritance by any daughter cells. Suggestions are then made for ways in which the new model can be used to test the importance of these effects.
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    Bulletin of mathematical biology 46 (1984), S. 461-465 
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    Bulletin of mathematical biology 46 (1984), S. 467-472 
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    Bulletin of mathematical biology 46 (1984), S. 447-460 
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    Notes: Abstract A stochastic approach is utilized to develop a model equation capable of describing the time course of germination in a sample of bacterial spores. The time required by a spore to complete the change characteristic of germination consists of an initial interval of no change followed immediately by the duration of the change itself. The experimental basis of the proposed model is the observation that each of these time intervals is distributed over a range of values in a spore sample. Mixed continuous and discrete probabilities are employed in arriving at an average single-spore germination curve which, to a different scale, describes the sample in time.
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    Bulletin of mathematical biology 46 (1984), S. 473-500 
    ISSN: 1522-9602
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Mathematics
    Notes: Abstract Mathematical methods for comparison of nucleic acid sequences are reviewed. There are two major methods of sequence comparison: dynamic programming and a method referred to here as the regions method. The problem types discussed are comparison of two sequences, location of long matching segments, efficient database searches and comparison of several sequences.
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    Bulletin of mathematical biology 46 (1984), S. 579-590 
    ISSN: 1522-9602
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Mathematics
    Notes: Abstract An algorithm for nucleic acid and protein sequence alignment is presented. It is a non-metric local similarity minimal-difference algorithm and in the current implementation, assembles the matching regions found into a pseudo-global format. Its strengths are its speed of execution and the especially convenient presentation of its output. The algorithm is intended for use in sequence melding and local (small-region) similarity searching. It is not designed to replace a metric Needleman-Wunsch-Sellers-type similarity algorithm. The program is written in FORTRAN and is designed to be easily transportable to a variety of computer systems.
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    Bulletin of mathematical biology 46 (1984), S. 591-621 
    ISSN: 1522-9602
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Mathematics
    Notes: Abstract This is a review of past and present attempts to predict the secondary structure of ribonucleic acids (RNAs) through mathematical and computer methods. Related areas covering classification, enumeration and graphical representations of structures are also covered. Various general prediction techniques are discussed, especially the use of thermodynamic criteria to construct an optimal structure. The emphasis in this approach is on the use of dynamic programming algorithms to minimize free energy. One such algorithm is introduced which comprises existing ones as special cases.
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  • 97
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    Bulletin of mathematical biology 46 (1984), S. 641-659 
    ISSN: 1522-9602
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Mathematics
    Notes: Abstract It is shown that the concepts of grammar complexity and syntactic structure provide a useful mathematical framework for the investigation of some current problems in protein structure. Grammar complexity gives a measure of the degree of aperiodicity of a sequence and also an optimization criterion for evaluating amino acid categorizations. Three systems of amino acid categorization are compared in relation to their value for describing molecular architecture.
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    Bulletin of mathematical biology 46 (1984), S. 623-639 
    ISSN: 1522-9602
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Mathematics
    Notes: Abstract A scheme for representing amino acids as vectors in the plane is presented and justified. The two dimensions of the plane are size and hydrophobicity. The vector representation is then applied to generate a consensus sequence for some sets of homologous proteins. A figure of merit for the degree of homology of a set of sequences results from the analysis. Some other applications of the scheme are considered also. This work grew from ideaseeds planted by Margaret Dayhoff's work in theAtlas of Protein Structure and Sequence. It is with gratitude that I dedicate this paper to her memory.
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    Bulletin of mathematical biology 46 (1984), S. I 
    ISSN: 1522-9602
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Mathematics
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    Bulletin of mathematical biology 46 (1984), S. 699-744 
    ISSN: 1522-9602
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Mathematics
    Notes: Abstract An annotated bibliography of mathematical and computer analyses of protein and nucleic acid sequences is presented. The major subject areas represented are the determination of sequences, restriction mapping, similarity searching, sequence alignment, codon utilization, statistical analysis, information theoretic analysis, the construction of secondary and tertiary structure and DNA topology.
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