ALBERT

Description: Ground deformations are among the main volcanic phenomena occurring within the caldera system and pres- ently recorded at different volcanoes worldwide including the Campi Flegrei active caldera (southern Italy). A new stratigraphic, sedimentological and paleontological survey carried out in the central sector of the Campi Flegrei caldera both along the already known La Starza succession and through a new excavated tunnel provided new insights into the ground movement episodes occurred in the last 15 kyr. This study, which has also benefited of unpublished boreholes stratigraphic data, shows that the most uplifted sector of the Campi Flegrei caldera, presently marked by the morphological structure of the La Starza cliff close to the Pozzuoli coastline, was charac- terized by a complex sedimentary evolution. It results from different phases of alternating marine transgressions and regressions, the latter marked by both continental volcanic and/or palustrine/lacustrine sediments. These al- ternations result from the interplay between (i) subsidence and uplift episodes of the caldera floor and (ii) sea level variations during the Holocene. A rest period of volcanism accompanied by a sea level rise determined a sig- nificant submersion phase in about 3000 years between 8.59 and 5.5 ka. This phase was defined by a sea level with a maximum water depth value of 60–80 m and a late stage recording significant episodes of ground move- ments. Subsequently, between 5.5 and 3.5 ka, a ground uplift of about 100 m occurred, with short subsidence around 4.5 ka following the Plinian Agnano-Monte Spina eruption. The net vertical displacement represents the recorded deformation linked with a volcanism period in which ~2.5 km3 of magma were erupted by different vents within the caldera. It is worth to note as the general trend of ground movement through the time indicates a similarity in the pattern, beyond its scale.

Description: Published

Description: 143-158

Description: 1V. Storia eruttiva

Description: JCR Journal

Description: Extreme and inaccessible environments are a new frontier that unmanned and remotely operated ve-hicles can today safely access and monitor. The Lusi mud eruption (NE Java Island, Indonesia) representsone of these harsh environments that are totally unreachable with traditional techniques. Here boilingmud is constantly spewed tens of meters in height and tall gas clouds surround the 100 m wide activecrater. The crater is surrounded by a ~600 m diameter circular zone of hot mud that prevents anyapproach to investigate and sample the eruption site. In order to access this active crater we designedand assembled a multipurpose drone.The Lusi drone is equipped with numerous airborne devices suitable for use on board of other mul-ticopters. During the missions, three cameras can complete 1) video survey, 2) high resolution photo-grammetry of desired and preselected polygons, and 3) thermal photogrammetry surveys with infra-redcamera to locate hotfluids seepage areas or faulted zones. Crater sampling and monitoring operationscan be pre-planned with aflight software, and the pilot is required only for take-off and landing. A winchallows the deployment of gas, mud and water samplers and contact thermometers to be operated withno risk for the aircraft. During the winch operations (that can be performed automatically), the aircrafthovers at a safety height until the tasks controlled by the winch-embedded processor are completed. Thedrone is also equipped with GPS-connected CO2and CH4sensors. Gridded surveys using these devicesallowed obtaining 2D maps of the concentration and distribution of various gasses over the area coveredby theflight path.The device is solid, stable even with significant wind, affordable, and easy to transport. The Lusi dronesuccessfully operated during several expeditions at the ongoing active Lusi eruption site and proved to bean excellent tool to study other harsh or unreachable sites, where operations with more conventionalmethods are too expensive, dangerous or simply impossible

Description: LUSI LAB project, PI A. Mazzini; esearch Council of Norway through itsCenters of Excellence funding scheme, Project Number 223272; BPLS (Badan Penanggulangan Lumpur Sidoarjo, Sidoarjo Mudflow Management Agency)

Description: Published

Description: 26-37

Description: 2IT. Laboratori sperimentali e analitici

Description: JCR Journal

Description: An Mw 6.1, devastating earthquake, on April 6, 2009, struck the Middle Aterno Valley (Abruzzi Apennines, Italy) due to the activation of a poorly known normal fault system. Structural analysis of the fault population and investigation of the relationships with the Quaternary continental deposits through integrated field and laboratory techniques were conducted in order to reconstruct the long-term, tectono-sedimentary evolution of the basin and hypothesize the size of the fault segment. A polyphasic evolution of the Middle Aterno Valley is characterized by a conjugate, ∼E-W and ∼NS-striking fault system, during the early stage of basin development, and by a dip-slip, NW-striking fault system in a later phase. The old conjugate fault system controlled the generation of the largest sedimentary traps in the area and is responsible for the horst and graben structures within the basin. During the Early Pleistocene the E-W and NS system reactivated with dip-slip kinematics. This gave rise to intra-basin bedrock highs and a significant syn-tectonic deposition, causing variable thickness and hiatuses of the continental infill. Subsequently, since the end of the Early Pleistocene, with the inception of the NW-striking fault system, several NW-strands linked into longer splays and their activity migrated toward a leading segment affecting the Paganica-San Demetrio basin: the Paganica-San Demetrio fault alignment. The findings from this work constrain and are consistent with the subsurface basin geometry inferred from previous geophysical investigations. Notably, two major elements of the ∼E-W and ∼NS-striking faults likely act as transfer to the nearby stepping active fault systems or form the boundaries, as geometric complexities, that limit the Paganica-San Demetrio fault segment overall length to 19 ± 3 km. The resulting size of the leading fault segment is coherent with the extent of the 6 April 2009 L'Aquila earthquake causative fault. The positive match between the geologic long-term and coseismic images of the 2009 seismogenic fault highlights that the comprehensive reconstruction of the deformation history offers a unique contribution to the understanding faults seismic potential.

Description: MIUR (Italian Ministry of Education, University and Research) project “FIRB Abruzzo - High-resolution analyses for assessing the seismic hazard and risk of the areas affected by the 6 April 2009 earthquake”, ref. RBAP10ZC8K_005 and RBAP10ZC8K_007, and by Agreement INGV-DPC 2012–2021

Description: Published

Description: 30-66

Description: 2T. Deformazione crostale attiva

Description: JCR Journal

Description: Soil CO2 flux and 222Rn activity measurements may positively contribute to the geochemicalmonitoring of active volcanoes. The influence of several environmental parameters on the gas signals has been substantially demonstrated. Therefore, the implementation of tools capable of removing (or minimising) the contribution of the atmospheric effects from the acquired time series is a challenge in volcano surveillance. Here, we present 4 years-long continuousmonitoring (fromApril 2007 to September 2011) of radon activity and soil CO2 flux collected on the NE flank of Stromboli volcano. Both gases record higher emissions during fall–winter (up to 2700 Bq * m−3 for radon and 750 g m−2 day−1 for CO2) than during spring–summer seasons. Short-time variations on 222Rn activity aremodulated by changes in soil humidity (rainfall), and changes in soil CO2 flux that may be ascribed to variations in wind speed and direction. The spectral analyses reveal diurnal and semi-diurnal cycles on both gases, outlining that atmospheric variations are capable to modify the gas release rate fromthe soil. The long-termsoil CO2 flux shows a slow decreasing trend, not visible in 222Rn activity, suggesting a possible difference in the source depth of the of the gases, CO2 being deeper and likely related to degassing at depth of the magma batch involved in the February–April 2007 effusive eruption. To minimise the effect of the environmental parameters on the 222Rn concentrations and soil CO2 fluxes, two different statistical treatments were applied: the Multiple Linear Regression (MLR) and the Principal Component Regression (PCR). These approaches allow to quantify theweight of each environmental factor on the two gas species and showa strong influence of some parameters on the gas transfer processes through soils. The residual values of radon and CO2 flux, i.e. the values obtained after correction for the environmental influence, were then compared with the eruptive episodes that occurred at Stromboli during the analysed time span (2007–2011) but no clear correlations emerge between soil gas release and volcanic activity. This is probably due to i) the distal location of the monitoring stations with respect to the active craters and to ii) the fact that during the investigated period no major eruptive phenomena (paroxysmal explosion, flank eruption) occurred. Comparison of MLR and PCR methods in time-series analysis indicates thatMLR can bemore easily applied to real time data processing in monitoring of open conduit active volcanoes (like Stromboli) where the transition to an eruptive phase may occur in relatively short times.

Description: This researchwas partly funded by ItalianMinistry of University and Research (MIUR) and by University of Torino-Fondazione Compagnia di San Paolo. Additional fundswere provided by the Italian “Presidenza del Consiglio dei Ministri–Dipartimento della Protezione Civile (DPC)” through the DEVnet Project (a cooperative program between the Departments of Earth Sciences of the University of Torino and the University of Florence) and through the “Potenziamento Monitoraggio Stromboli” project. Additional funds for improving our computing hardware were provided by Fondazione Cassa di Risparmio di Torino.

Description: Published

Description: 65-78

Description: 4V. Processi pre-eruttivi

Description: JCR Journal

Description: Among the most derived calanoid copepod superfamily Clausocalanoidea about half of the genera belong to the so-called “Bradfordian” families that are defined by the presence of sensory setae at the maxilla and maxilliped. Many of these “Bradfordian” taxa are insufficiently well described, because their taxonomy is complicated and phylogenetic relationships are not completely resolved. We therefore aimed to unravel their phylogenetic relationships using molecular multi-gene analyses. We conducted molecular multi-gene analysis on 26 species from 15 genera representing all seven “Bradfordian” families using five gene fragments, the nuclear ribosomal 18S, 28S and internal transcribed spacer 2 DNA, and mitochondrial cytochrome c oxidase subunit I and cytochrome b. The monophyly of “Bradfordians” as one lineage in the superfamily Clausocalanoidea was supported by Maximum Likelihood and Bayesian Inference multi-gene analyses. Except for the support of species belonging to the same genus and specimens belonging to the same species, no phylogenetic relationships among genera and families were supported. The impossibility of resolving phylogenetic relationships among “Bradfordian” genera and families may be due to the young age or fast radiation of “Bradfordians” within the mostly derived calanoid superfamily Clausocalanoidea. Therefore, mutation rates might be not sufficient to track phylogenetic relationships. Evidence on phylogenetic relationships between genera and families remain unresolved after implementing integrated morphological and molecular taxonomic approaches.

Description: Life cycle and reproduction of Calanus hyperboreus were studied during a year of record low ice cover in the southeastern Beaufort Sea. Stages CIV, adult females and CV dominated the overwintering population, suggesting a 2- to 3-year life cycle. Within two spring-summer months in the upper water column females filled their energy reserves before initiating their downward seasonal migration. From February to March, vigorous reproduction (20–65 eggs f−1 d−1) delivered numerous eggs (29 000 eggs m−2) at depth and nauplii N1-N3 (17 000 ind. m−2) in the water column. However, CI copepodite recruitment in May, coincident with the phytoplankton bloom, was modest in Amundsen Gulf compared to sites outside the gulf. Consequently, C. hyperboreus abundance and biomass stagnated throughout summer in Amundsen Gulf. As a mismatch between the first-feeding stages and food was unlikely under the favourable feeding conditions of April-May 2008, predation on the egg and larval stages in late winter presumably limited subsequent recruitment and population growth. Particularly abundant in Amundsen Gulf, the copepods Metridia longa and C. glacialis were likely important consumers of C. hyperboreus eggs and nauplii. With the ongoing climate-driven lengthening of the ice-free season, intensification of top-down control of C. hyperboreus recruitment by thriving populations of mesopelagic omnivores and carnivores like M. longa may counteract the potential benefits of increased primary production over the Arctic shelves margins for this key prey of pelagic fish, seabirds and the bowhead whale.

Description: Time series derived from paleoclimate archives are often irregularly sampled in time and thus not analysable using standard statistical methods such as correlation analyses. Although measures for the similarity between time series have been proposed for irregular time series, they do not account for the time scale dependency of the relationship. Stochastically distributed temporal sampling irregularities act qualitatively as a low-pass filter reducing the influence of fast variations from frequencies higher than about 0.5 (Δtmax) − 1, where Δtmax is the maximum time interval between observations. This may lead to overestimated correlations if the true correlation increases with time scale. Typically, correlations are underestimated due to a non-simultaneous sampling of time series. Here, we investigated different techniques to estimate time scale dependent correlations of weakly irregularly sampled time series, with a particular focus on different resampling methods and filters of varying complexity. The methods were tested on ensembles of synthetic time series that mimic the characteristics of Holocene marine sediment temperature proxy records. We found that a linear interpolation of the irregular time series onto a regular grid, followed by a simple Gaussian filter was the best approach to deal with the irregularity and account for the time scale dependence. This approach had both, minimal filter artefacts, particularly on short time scales, and a minimal loss of information due to filter length.

Description: Rapid declines in Arctic sea ice have captured attention and pose significant challenges to a variety of stakeholders. There is a rising demand for Arctic sea ice prediction at daily to seasonal time scales, which is partly a sea ice initial condition problem. Thus, a multivariate data assimilation that integrates sea ice observations to generate realistic and skillful model initialization is needed to improve predictive skill of Arctic sea ice. Sea ice data assimilation is a relatively new research area. In this review paper, we focus on two challenges for implementing multivariate data assimilation systems for sea ice forecast. First, to address the challenge of limited spatiotemporal coverage and large uncertainties of observations, we discuss sea ice parameters derived from satellite remote sensing that (1) have been utilized for improved model initialization, including concentration, thickness and drift, and (2) are currently under development with the potential for enhancing the predictability of Arctic sea ice, including melt ponds and sea ice leads. Second, to strive to generate the “best” estimate of sea ice initial conditions by combining model simulations/forecasts and observations, we review capabilities and limitations of different data assimilation techniques that have been developed and used to assimilate observed sea ice parameters in dynamical models.

Description: Hyperiid amphipods are predatory pelagic crustaceans that are particularly prevalent in high-latitude oceans. Many species are likely to have co-evolved with soft-bodied zooplankton groups such as salps and medusae, using them as substrate, for food, shelter or reproduction. Compared to other pelagic groups, such as fish, euphausiids and soft-bodied zooplankton, hyperiid amphipods are poorly studied especially in terms of their distribution and ecology. Hyperiids of the genus Themisto, comprising seven distinct species, are key players in temperate and cold-water pelagic ecosystems where they reach enormous levels of biomass. In these areas, they are important components of marine food webs, and they are major prey for many commercially important fish and squid stocks. In northern parts of the Southern Ocean, Themisto are so prevalent that they are considered to take on the role that Antarctic krill play further south. Nevertheless, although they are around the same size as krill, and may also occur in swarms, their feeding behaviour and mode of reproduction are completely different, hence their respective impacts on ecosystem structure differ. Themisto are major predators of meso- and macrozooplankton in several major oceanic regions covering shelves to open ocean from the polar regions to the subtropics. Based on a combination of published and unpublished occurrence data, we plot out the distributions of the seven species of Themisto. Further, we consider the different predators that rely on Themisto for a large fraction of their diet, demonstrating their major importance for higher trophic levels such as fish, seabirds and mammals. For instance, T. gaudichaudii in the Southern Ocean comprises a major part of the diets of around 80 different species of squid, fish, seabirds and marine mammals, while T. libellula in the Bering Sea and Greenland waters is a main prey item for commercially exploited fish species. We also consider the ongoing and predicted range expansions of Themisto species in light of environmental changes. In northern high latitudes, sub-Arctic Themisto species are replacing truly Arctic, ice-bound, species. In the Southern Ocean, a range expansion of T. gaudichaudii is expected as water masses warm, impacting higher trophic levels and biogeochemical cycles. We identify the many knowlegde gaps that must be filled in order to evaluate, monitor and predict the ecological shifts that will result from the changing patterns of distribution and abundance of this important pelagic group.

Description: Ostracods are small-sized crustaceans, which inhabit all aquatic ecosystems and, because they have a comprehensive fossil record, are important environmental and paleoenvironmental indicators. However several aspects of the ecology of modern species (the basis for the paleontological investigations) are still controversial. Previous authors have raised the hypothesis that benthic ostracods, because of their calcified carapaces, are unable to survive below the Carbonate Compensation Depth (CCD). Herein we test this hypothesis based on (1) ostracods newly collected from the Kuril-Kamchatka Trench at depths far below the CCD during the KuramBio II expedition; and (2) a compilation of all previously published records of (geologically) Recent deep-sea Ostracoda in regions deeper than 3500 m. The KuramBio II expedition provided hundreds of living, hadal ostracods from at least 30 species and 21 genera from thousands of meters deeper than the CCD in the Kuril-Kamchatka Trench region. Additionally, the KuramBio II expedition provided the deepest record (9307 m) of a living ostracod with calcified carapaces: specimens of the genus Krithe. Finally, the compilation of all published information on living ostracods show that a highly diverse assemblage both at high and low taxonomic levels (2 subclasses, 4 suborders, 25 families, 89 genera and at least 206 species) occur below 3500 m. Therefore, we conclude that contrary to previous beliefs, the new data from the Kuril-Kamchatka Trench and the compilation of the literature show that ostracods do live and are even sometimes abundant below the CCD.

Description: Enrichment of the oceans with CO2 may be beneficial for some marine phytoplankton, including harmful algae. Numerous laboratory experiments provided valuable insights into the effects of elevated pCO2 on the growth and physiology of harmful algal species, including the production of phycotoxins. Experiments close to natural conditions are the next step to improve predictions, as they consider the complex interplay between biotic and abiotic factors that can confound the direct effects of ocean acidification. We therefore investigated the effect of ocean acidification on the occurrence and abundance of phycotoxins in bulk plankton samples during a long-term mesocosm experiment in the Gullmar Fjord, Sweden, an area frequently experiencing harmful algal blooms. During the experimental period, a total of seven phycotoxin-producing harmful algal genera were identified in the fjord, and in accordance, six toxin classes were detected. However, within the mesocosms, only domoic acid and the corresponding producer Pseudo-nitzschia spp. was observed. Despite high variation within treatments, significantly higher particulate domoic acid contents were measured in the mesocosms with elevated pCO2. Higher particulate domoic acid contents were additionally associated with macronutrient limitation. The risks associated with potentially higher phycotoxin levels in the future ocean warrants attention and should be considered in prospective monitoring strategies for coastal marine waters.

Description: Essential Biodiversity Variables (EBV) are fundamental variables that can be used for assessing biodiversity change over time, for determining adherence to biodiversity policy, for monitoring progress towards sustainable development goals, and for tracking biodiversity responses to disturbances and management interventions. Data from observations or models that provide measured or estimated EBV values, which we refer to as EBV data products, can help to capture the above processes and trends and can serve as a coherent framework for documenting trends in biodiversity. Using primary biodiversity records and other raw data as sources to produce EBV data products depends on cooperation and interoperability among multiple stakeholders, including those collecting and mobilising data for EBVs and those producing, publishing and preserving EBV data products. Here, we encapsulate ten principles for the current best practice in EBV-focused biodiversity informatics as ‘The Bari Manifesto’, serving as implementation guidelines for data and research infrastructure providers to support the emerging EBV operational framework based on trans-national and cross-infrastructure scientific workflows. The principles provide guidance on how to contribute towards the production of EBV data products that are globally oriented, while remaining appropriate to the producer's own mission, vision and goals. These ten principles cover: data management planning; data structure; metadata; services; data quality; workflows; provenance; ontologies/vocabularies; data preservation; and accessibility. For each principle, desired outcomes and goals have been formulated. Some specific actions related to fulfilling the Bari Manifesto principles are highlighted in the context of each of four groups of organizations contributing to enabling data interoperability - data standards bodies, research data infrastructures, the pertinent research communities, and funders. The Bari Manifesto provides a roadmap enabling support for routine generation of EBV data products, and increases the likelihood of success for a global EBV framework.

Description: Multiple toxic and bioactive compounds produced by Alexandrium spp. cause adverse effects on bivalves, but these effects are frequently difficult to attribute to a single compound class. To disentangle the effect of neurotoxic vs lytic secondary metabolites, we exposed blue mussels to either a paralytic shellfish toxin (PST) producing Alexandrium spp. strain, or to an exclusively lytic compound (LC) producing strain, or a strain containing both compound classes, to evaluate the time dependent effects after 3 and 7 days of feeding. Tested parameters comprised signs of paralysis, feeding activity, and immune cell integrity (hemocyte numbers and viability; lysosomal membrane destabilization) and function (ROS production). Both compound classes caused paralysis and immune impairment. The only effect attributable exclusively to PST was increased phagocytic activity after 3 days and impaired feeding activity after 7 days, which curtailed toxin accumulation in digestive glands. Paralysis signals and lysosomal membrane destabilization were more closely, but not exclusively, matched with LC exposure. Effects on circulating hemocyte integrity and immune related functions were mostly transient or remain stable within 7 days; except for increased lysosomal labialization and decreased extracellular ROS production when mussels were exposed to the toxin combination. M. edulis displays adaptive fitness traits to survive and maintain immune capacity upon prolonged exposure to environmentally relevant concentrations of PST and/or LC producing Alexandrium strains.

Description: The term “Dimension Stone” refers to natural stone that has been quarried, selected and processed into specific sizes or shapes, with or without one or more mechanically dressed or finished surfaces, for use as building facing, curbing, paving stone, monuments and memorials, and various industrial products. The dimension stone industry is currently increasing the volume of its activities: based on a prudent medium-term development forecast, the net product could reach one hundred million tons in 2020. For this reason, geoscientists and stakeholders need to reason about methods and technologies in the dimension stone sector and how to operate responsibly and sustainably in accordance with the following geoethical values. After a definition of geoethics and an overview of the dimension stone industry, the paper focuses on fundamental values of geoethics as stated in the Cape Town Statement on Geoethics. More precisely, geoethical values have been referred to real and practical cases of dimension stone subsectors, by presenting some examples recorded in Sardinia (Italy). This region has a long history of production of ornamental stones. Finally, tips and suggestions on how geoscientists (in particular geologists and mining engineers) can help the dimension stone sector in a geoethical way, i.e., responsibly and sustainably are herein offered.

Description: Published

Description: 101468

Description: 1TR. Georisorse

Description: 7SR AMBIENTE – Servizi e ricerca per la società

Description: 1TM. Formazione

Description: 3TM. Comunicazione

Description: JCR Journal

Description: We investigated the geochemical behaviour of major and Rare Earth Elements (REE), together with oxygen and deuterium isotopic composition in the aquifer of Vulcano, the southernmost island of the Aeolian archipelago (Italy). Studied wells, located at different distances from the crater, are characterised by different contributions of the rising volcanic fluids. In particular, those located in the proximity of La Fossa crater are affected by a strong interaction with volcanic-hydrothermal fluids and show REE behaviour similar to that of fresh rocks, suggesting a congruent dissolution of the solid matrix. Samples from the other wells, located in an area where the volcanic deposits are hydrothermally altered as an “advanced argillic facies”, are enriched in HREE and mirror the corresponding depletion observed in the altered rocks. Moreover, the different grade of interaction with hydrothermal fluids determines the main ligand that complexes the REE. The main ligand is CO3 2– in the wells that are more directly affected by hydrothermal circulation, whereas SO4 2− dominates in those located at greater distances from La Fossa crater. This information provides further clues to the complex groundwater circulation model of Vulcano Island, which is regulated by the variable mixing and interacting of rising volcano-hydrothermal fluids, meteoric infiltration and seawater, differently interacting with fresh and altered rocks.

Description: Published

Description: 121-129

Description: 3V. Proprietà chimico-fisiche dei magmi e dei prodotti vulcanici

Description: JCR Journal

Description: At present, the urban population has to cope with the effects caused from Urban Heat Island (UHI), poor air quality and increased frequency and/or intensity of extreme weather and climate events. The expected increase of these extremes in areas of the planet and the way to adapt to them has emphasized the need to investigate in detail the climate of the cities. Local vulnerability and risk assessments, supported by using regional climate models at very high resolution, are key to support development and implementation of effective local adaptation measures to make well-adapted and climate-resilient cities, i.e. more sustainable ones. This study aims to provide some quantitative information on the effectiveness of main local adaptation measures to reduce the magnitude of UHI, in terms of temperature and energy fluxes. The investigation was conducted by adopting the TEB 1D model for the Toulouse city case-study. Different urban configurations and adaptation measures have been considered in the model set up. The results confirm that different adaptation measures may reduce the temperature on the town elements during the daylight hours; among the different measures, the green roof prevent the radiative cooling, increasing the roof night temperature and contributing to the night UHI.

Description: Published

Description: 662-673

Description: 4A. Oceanografia e clima

Description: JCR Journal

Description: The Great Burma earthquake (MsGR 8.0; Ms 7.6–7.7) occurred on May 23rd, 1912, and was one of the most remarkable early 1900's seismic events in Asia as described by Gutenberg and Richter (1954). The earthquake, focused near Maymyo, struck the Northern Shan State in eastern Myanmar. Contemporary evaluation of damage distribution and oral accounts led to a correlation between the earthquake and the topographically prominent Kyaukkyan Fault near the western margin of the Shan Plateau, although direct evidence has never been reported. This study aims to find evidence of paleoseismic activity, and to better understand the relationship between the 1912 earthquake and the Kyaukkyan Fault. Paleoseismic trenching along the Kyaukkyan Fault revealed evidence of several surface rupturing events. The northernmost trench exposes at least two visible rupture events since 4660 ± 30 BP: an older rupture stratigraphically constrained by AMS 14C dating to between 4660 ± 30 BP and 1270 ± 30 BP, and a younger rupture formed after 1270 ± 30 BP. The presence of pottery, bricks and cookingrelated charcoal in the younger faulted stratigraphy demonstrates Kyaukkyan Fault activity within human times, and a possible correlation between the younger rupture and the 1912 Maymyo earthquake is not excluded. The southern paleoseismic trench, within a broad transtensional basin far from bounding faults, exposes two (undated) surface ruptures. Further study is required to correlate those ruptures to the events dated in the north. These preliminary paleoseismological results constitute the first quantitative evidence of paleoseismic activity along the northern ~160 km of the Kyaukkyan Fault, and support existing evidence that the Kyaukkyan Fault is an active but slow-slipping structure with a long interseismic period.

Description: Published

Description: 75-86

Description: 2T. Deformazione crostale attiva

Description: JCR Journal

Description: This study reports the complex textural and chemical features of K-feldspar megacrysts (up to 5 cm long) hosted in trachydacitic lava flows, lava domes, and coulées from Mt. Amiata volcano (Tuscan Magmatic Province, Central Italy). Backscattering and cathodoluminescence imaging, coupled with core to rim major and trace elements patterns, reveal a complex zoning, and resorption surfaces associated with sharp chemical variations (e.g., Sr and Ba). These zoning patterns originated by disequilibrium and re-equilibration events, related to the repetitive influx of mafic magmas or convective motions in the trachydacitic magma reservoir. Multiple mafic magma refilling events are also supported by the field occurrence of abundant microgranular magmatic enclaves in the studied products. Our results highlight that the abnormal dimension of the studied K-feldspars originates by the interplay between petrological and kinetic processes involving: (i) extensive dissolution; (ii) heterogeneous nucleation; (iii) alternation of spasmodic growth events in disequilibrium and near-equilibrium crystallization. Repetitive influx of hotter magmas and reheating can determine the thermal condition to the growth of few, large K-felspar megacrysts. Also, the strong textural and chemical similarities observed in the K-feldspar megacrysts from Mt. Amiata volcanic rocks and Mt. Capanne monzogranite (Elba Island, Central Italy) support the hypothesis of a phenocrystic origin of intrusive K-feldspar megacrysts.

Description: Tuscan regional authority (Regione Toscana) in the framework of the LAMMA-CNR Project “Monografia vulcanologica del Monte Amiata”

Description: Published

Description: 569-583

Description: 4V. Processi pre-eruttivi

Description: JCR Journal

Description: The thermal state of polar continental crust plays a crucial role for understanding the stability and thickness of large ice sheets, the visco-elastic response of the solid Earth due to unloading when large ice caps melt and, in turn, the accuracy of future sea-level rise prediction. Various studies demonstrate the need for precise measurements and estimation of geothermal heat flow (GHF) in Antarctica for better constrained boundary conditions to enhance the ice sheet model performance. This study provides ground-truth for regional indirect GHF estimates in the Amundsen Sea Embayment, which is part of the West Antarctic Rift System, by presenting in situ temperature measurements in continental shelf sediments. Our results show regionally elevated and heterogeneous GHF (mean of 65 mWm−2) in the Amundsen Sea Embayment. Considering thermal blanketing effects, induced by inflow of warmer water and sedimentary processes, the estimated GHF ranges between 65 mWm−2and 95 mWm−2.

Description: The interaction between ocean warming, hypoxia and hypercapnia, suggested by climate projections, may push an organism earlier to the limits of its thermal tolerance window. In a previous study on juveniles of green abalone (Haliotis fulgens), combined exposure to hypoxia and hypercapnia during heat stress induced a lowered critical thermal maximum (CTmax), indicated by constrained oxygen consumption, muscular spams and loss of attachment. Thus, the present study investigated the cell physiology in foot muscle of H. fulgens juveniles exposed to acute warming (18 °C to 32 °C at +3 °C day−1) under hypoxia (50% air saturation) and hypercapnia (~1000 μatm PCO2), alone and in combination, to decipher the mechanisms leading to functional loss in this tissue. Under exposure to either hypoxia or hypercapnia, citrate synthase (CS) activity decreased with initial warming, in line with thermal compensation, but returned to control levels at 32 °C. The anaerobic enzymes lactate and tauropine dehydrogenase increased only under hypoxia at 32 °C. Under the combined treatment, CS overcame thermal compensation and remained stable overall, indicating active mitochondrial regulation under these conditions. Limited accumulation of anaerobic metabolites indicates unchanged mode of energy production. In all treatments, upregulation of Hsp70 mRNA was observed already at 30 °C. However, lack of evidence for Hsp70 protein accumulation provides only limited support to thermal denaturation of proteins. We conclude that under combined hypoxia and hypercapnia, metabolic depression allowed the H. fulgens musculature to retain an aerobic mode of metabolism in response to warming but may have contributed to functional loss. Keywords: 1H NMR spectroscopy; Citrate synthase; CTmax; Hsp70; Lactate dehydrogenase; Tauropine; Tauropine dehydrogenase

Description: The region of the Filchner Outflow System (FOS) in the southeastern Weddell Sea is characterized by intensive and complex interactions of different water masses. Dense Ice Shelf Water (ISW) emerging from beneath the ice shelf cavities on the continental shelf, meets Modified Warm Deep Water (MWDW) originating from the Antarctic Circumpolar Current at the sill of the Filchner Trough. These hydrographic features convert the FOS into an oceanographic key region, which may also show enhanced biological productivity and corresponding aggregations of marine top predators. In this context, six adult Weddell seals (Leptonychotes weddellii) were instrumented with CTD-combined satellite relay data loggers in austral summer 2014. By means of these long-term data loggers we aimed at investigating the influence of environmental conditions on the seals’ foraging behaviour throughout seasons, focussing on the local oceanographic features. Weddell seals performed pelagic and demersal dives, mainly on the continental shelf, where they presumably exploited the abundant bentho-pelagic fish fauna. Diurnal and seasonal variations in light availability affected foraging activities. MWDW was associated with increased foraging effort. However, we observed differences in movements and habitat use between two different groups of Weddell seals. Seals tagged in the pack ice of the FOS focussed their foraging activities to the western and, partly, eastern flank of the Filchner Trough, which coincides with inflow pathways of MWDW. In contrast, Weddell seals tagged on the coastal fast ice exhibited typical central-place foraging and utilized resources close to their colony. High foraging effort in MWDW and high utilization of areas associated with an inflow of MWDW raise questions on the underlying biological features. This emphasizes the importance of further interdisciplinary ecological investigations in the near future, as the FOS may soon be impacted by predicted climatic changes.

Description: The chapter presents a review of sea ice properties in relation to sub-seasonal to seasonal (S2S) predictions in the Arctic and the Antarctic. After a concise presentation of the main processes governing sea ice physics, the spatial distribution, seasonal cycle, and variability of sea ice in both poles are described. Using a variety of observations and model reconstructions of the four recent decades, the memory of the main descriptors of the sea ice state is quantified. In both the Arctic and the Antarctic, persistence of the sea ice areal properties emerges as the primarily source of sea ice sub-seasonal predictability, with strong dependence on season. Further memory can be obtained from reemergence mechanisms, implying processes internal to sea ice and coupling with the atmosphere and the ocean. In addition, lessons from modeling studies are addressed in terms of potential sea ice predictability and actual predictive skill. Finally, the chapter provides an overview of our understanding of the possible role of sea ice as a source of S2S atmospheric predictability, both in the polar regions and beyond.

Description: The present study is based on a series of two-dimensional simple shear numerical simulations of two-phase non-linear viscous materials used to investigate the mechanical behaviour of two-phase aggregates representing partially molten rocks. These simulations couple viscoplastic deformation with dynamic recrystallisation (DRX). The aim of these simulations is to investigate the competition between deformation and recrystallisation, and how they affect the mechanical behaviour and resulting microstructures of the deforming material. We systematically vary the melt to solid rock ratio, the dihedral angle of melt and the ratio of DRX vs. deformation. The results show that the amount of DRX and the dihedral angle have a first-order impact on the bulk rheology and the melt distribution in the aggregate. The numerical results allow defining two regimes, depending on the relative contribution of deformation and DRX: (1) a deformation-dominated regime at high strain rates (i.e., with a low ratio of recrystallisation vs. viscoplastic deformation) and (2) a recrystallisation-dominated regime at low strain rates (i.e., with a high ratio of recrystallisation vs. viscoplastic deformation). The first case results in systems bearing large connected melt pockets whose viscous flow controls the deformation of the aggregate, while disconnected smaller melt pockets develop in models where dynamic recrystallisation dominates. The results of this study allow us to better understand the development of connected melt pockets, which may focus melt flow. The distribution of the melt phase plays a key role in the formation of larger-scale melt-enriched shear bands, which in turn has a direct influence on large-scale convective mantle flow.

Description: Numerical models are important tools for understanding the processes and feedbacks in the Earth system, including those involving changes in atmospheric CO2 (CO2,atm) concentrations. Here, we compile 55 published model studies (consisting of 778 individual simulations) that assess the impact of six forcing mechanisms on millennial-scale CO2,atm variations: changes in freshwater supply to the North Atlantic and Southern Ocean, the strength and position of the southern-hemisphere westerlies, Antarctic sea ice extent, and aeolian dust fluxes. We generally find agreement on the direction of simulated CO2,atm change across simulations, but the amplitude of change is inconsistent, primarily due to the different complexities of the model representation of Earth system processes. When freshwater is added to the North Atlantic, a reduced Atlantic Meridional Overturning Circulation (AMOC) is generally accompanied by an increase in Southern Ocean- and Pacific overturning, reduced Antarctic sea ice extent, spatially varying export production, and changes in carbon storage in the Atlantic (rising), in other ocean basins (generally decreasing) and on land (more varied). Positive or negative CO2,atm changes are simulated during AMOC minima due to a spatially and temporally varying dominance of individual terrestrial and oceanic drivers (and compensating effects between them) across the different models. In contrast, AMOC recoveries are often accompanied by rising CO2,atm levels, which are mostly driven by ocean carbon release (albeit from different regions). The magnitude of simulated CO2,atm rise broadly scales with the duration of the AMOC perturbation (i.e., the stadial length). When freshwater is added to the Southern Ocean, reduced deep-ocean ventilation drives a CO2,atm drop via reduced carbon release from the Southern Ocean. Although the impacts of shifted southern-hemisphere westerlies are inconsistent across model simulations, their intensification raises CO2,atm via enhanced Southern Ocean Ekman pumping. Increased supply of aeolian dust to the ocean, and thus iron fertilisation of marine productivity, consistently lowers modelled CO2,atm concentrations via more efficient nutrient utilisation. The magni- tude of CO2,atm change in response to dust flux variations, however, largely depends on the complexity of models' marine ecosystem and iron cycle. This especially applies to simulations forced by Antarctic sea ice changes, in which the direction of simulated CO2,atm change varies greatly across model hierarchies. Our compilation highlights that no single (forcing) mechanism can explain observed past millennial-scale CO2,atm variability, and identifies important future needs in coupled carbon cycle-climate modelling to better understand the mechanisms governing CO2,atm changes in the past.

Description: © The Authors, 2019. This is the author's version of the work and is distributed under the terms of the Creative Commons Attribution-Noncommercial-Share Alike 4.0 International License. The definitive version was published in Marine Pollution Bulletin, 140, (2019):364-373, doi:10.1016/j.marpolbul.2018.12.047.

Description: Estuaries provide significant cultural ecosystem services, including recreation and tourism. Disruptions of estuarine biogeochemical processes resulting from environmental degradation could interrupt the flow of these services, reducing benefits and diminishing the welfare of local communities. This study focused on recreational shellfishing in Buzzards Bay, Massachusetts (41.55°N, 70.80°W). Relationships among measures of recreational shellfishing, estuarine water quality, and local socioeconomic conditions were tested to understand how the benefits of cultural ecosystem services to local communities might be affected by declining water quality. Transferring estimated economic benefits from an analysis of nearby municipalities, the study finds that increases in Chl a during the 24-year period were associated with losses in recreational shellfishing benefits of $0.08–0.67 million per decade. The approach presented here suggests a more broadly applicable framework for assessing the impacts of changes in coastal ecosystem water quality on the welfare of local communities.

Description: We would like to thank the Buzzards Bay Coalition, the Buzzards Bay National Estuary Program, and the Massachusetts Department of Marine Fisheries for providing data for this analysis. We thank the 1074 citizen volunteers of the Buzzards Bay Coalition who collected the water quality samples and Mark Rasmussen for his leadership in sustaining the Baywatchers Program. Support for this analysis was provided by the John D. and Catherine T. MacArthur Foundation (Grant no. 14-106159-000-CFP), MIT Sea Grant (subaward number 5710004045), the Johnson Endowment of the WHOI Marine Policy Center, and SCD acknowledges support from the University of Virginia.

Description: Author Posting. © The Author(s), 2018. This is the author's version of the work. It is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences of the United States of America 115(52), (2018): E12275-E12284. doi: 10.1073/pnas.1805243115.

Description: Diatoms are prominent eukaryotic phytoplankton despite being limited by the micronutrient iron in vast expanses of the ocean. As iron inputs are often sporadic, diatoms have evolved mechanisms such as the ability to store iron that enable them to bloom when iron is resupplied and then persist when low iron levels are reinstated. Two iron storage mechanisms have been previously described: the protein ferritin and vacuolar storage. To investigate the ecological role of these mechanisms among diatoms, iron addition and removal incubations were conducted using natural phytoplankton communities from varying iron environments. We show that among the predominant diatoms, Pseudo-nitzschia were favored by iron removal and displayed unique ferritin expression consistent with a long-term storage function. Meanwhile, Chaetoceros and Thalassiosira gene expression aligned with vacuolar storage mechanisms. Pseudo-nitzschia also showed exceptionally high iron storage under steady-state high and low iron conditions, as well as following iron resupply to iron-limited cells. We propose that bloom-forming diatoms use different iron storage mechanisms and that ferritin utilization may provide an advantage in areas of prolonged iron limitation with pulsed iron inputs. As iron distributions and availability change, this speculated ferritin-linked advantage may result in shifts in diatom community composition that can alter marine ecosystems and biogeochemical cycles.

Description: We thank the captain and crew of the R/V Melville and the CCGS J. P. Tully as well as the participants of the IRNBRU (MV1405) cruise for the California-based data, particularly K. Ellis [University of North Carolina (UNC)], T. Coale (University of California, San Diego), F. Kuzminov (Rutgers), H. McNair [University of California, Santa Barbara (UCSB)], and J. Jones (UCSB). W. Burns (UNC), S. Haines (UNC), and S. Bargu (Louisiana State University) assisted with sample processing and analysis. This work was funded by the National Science Foundation Grants OCE-1334935 (to A.M.), OCE-1334632 (to B.S.T.), OCE-1333929 (to K.T.), OCE-1334387 (to M.A.B.), OCE-1259776 (to K.W.B), and DGE-1650116 (Graduate Research Fellowship to R.H.L).

Description: 2019-06-11

Description: Author Posting. © The Author(s), 2019. This is the author's version of the work. It is posted here by permission of Elsevier Ltd. for personal use, not for redistribution. The definitive version was published in Geochimica et Cosmochimica Acta 244 (2019): 216-228, doi:10.1016/j.gca.2018.10.012.

Description: Mountain glaciers store dissolved organic carbon (DOC) that can be exported to river networks and subsequently respired to CO2. Despite this potential importance within the global carbon cycle, the seasonal variability and downstream transport of glacier-derived DOC in mountainous river basins remains largely unknown. To provide novel insight, here we present DOC concentrations and molecular-level dissolved organic matter (DOM) compositions from 22 nested, glaciated catchments (1.4 – 81.8 % glacier cover by area) in the Upper Ganges Basin, Western Himalaya over the course of the Indian summer monsoon (ISM) in 2014. Aliphatic and peptide-like compounds were abundant in glaciated headwaters but were overprinted by soil-derived phenolic, polyphenolic and condensed aromatic material as DOC concentrations increase moving downstream. Across the basin, DOC concentrations and soil-derived compound class contributions decreased sharply from pre- to post-ISM, implying increased relative contribution of glaciated headwater signals as the monsoon progresses. Incubation experiments further revealed a strong compositional control on the fraction of bioavailable DOC (BDOC), with glacier-derived DOC exhibiting the highest bioavailability. We hypothesize that short-term (i.e. in the coming decades) increases in glacier melt flux driven by climate change will further bias exported DOM toward an aliphatic-rich, bioavailable signal, especially during the ISM and post-ISM seasons. In contrast, eventual decreases in glacier melt flux due to mass loss will likely lead to more a soil-like DOM composition and lower bioavailability of exported DOC in the long term.

Description: We thank Britta Voss (WHOI) for assisting with sample collection; Travis Drake (FSU), and Ekaterina Bulygina (Woods Hole Research Center) for laboratory assistance; and the NHMFL ICR user program (NSF-DMR-1157490) for aiding in data acquisition and analysis. This study was partly supported by NSF-DEB-1145932 to R.G.M.S. J.D.H. was partially supported by the NSF Graduate Research Fellowship Program under grant number 2012126152, with additional support in the form of travel grants awarded by the MIT Houghten Fund and NHMFL. All data used in this study are available in the Supporting Information Tables S1 and S2.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Fringer, O. B., Dawson, C. N., He, R., Ralston, D. K., & Zhang, Y. J. The future of coastal and estuarine modeling: findings from a workshop. Ocean Modelling, 143, (2019): 101458, doi:10.1016/j.ocemod.2019.101458.

Description: This paper summarizes the findings of a workshop convened in the United States in 2018 to discuss methods in coastal and estuarine modeling and to propose key areas of research and development needed to improve their accuracy and reliability. The focus of this paper is on physical processes, and we provide an overview of the current state-of-the-art based on presentations and discussions at the meeting, which revolved around the four primary themes of parameterizations, numerical methods, in-situ and remote-sensing measurements, and high-performance computing. A primary outcome of the workshop was agreement on the need to reduce subjectivity and improve reproducibility in modeling of physical processes in the coastal ocean. Reduction of subjectivity can be accomplished through development of standards for benchmarks, grid generation, and validation, and reproducibility can be improved through development of standards for input/output, coupling and model nesting, and reporting. Subjectivity can also be reduced through more engagement with the applied mathematics and computer science communities to develop methods for robust parameter estimation and uncertainty quantification. Such engagement could be encouraged through more collaboration between the forward and inverse modeling communities and integration of more applied math and computer science into oceanography curricula. Another outcome of the workshop was agreement on the need to develop high-resolution models that scale on advanced HPC systems to resolve, rather than parameterize, processes with horizontal scales that range between the depth and the internal Rossby deformation scale. Unsurprisingly, more research is needed on parameterizations of processes at scales smaller than the depth, including parameterizations for drag (including bottom roughness, bedforms, vegetation and corals), wave breaking, and air–sea interactions under strong wind conditions. Other topics that require significantly more work to better parameterize include nearshore wave modeling, sediment transport modeling, and morphodynamics. Finally, it was agreed that coastal models should be considered as key infrastructure needed to support research, just like laboratory facilities, field instrumentation, and research vessels. This will require a shift in the way proposals related to coastal ocean modeling are reviewed and funded.

Description: We thank Carmen Torres at Stanford University and Jennifer Warrillow at North Carolina State University for their assistance with workshop logistics. Helpful comments and suggestions were provided by two anonymous reviewers and Hans Burchard and John Warner. The workshop and preparation of this paper were funded by U.S. National Science Foundation Grant OCE-1749613.

Description: Localisation of ductile deformation in rocks is commonly found at all scales from crustal shear zones down to grain scale shear bands. Of the various mechanisms for localisation, mechanical anisotropy has received relatively little attention, especially in numerical modelling. Mechanical anisotropy can be due to dislocation creep of minerals (e.g. ice or mica) and/or layering in rocks (e.g. bedding, cleavage). We simulated simple-shear deformation of a locally anisotropic, single-phase power-law rheology material up to shear strain of five. Localisation of shear rate in narrow shear bands occurs, depending on the magnitude of anisotropy and the stress exponent. At high anisotropy values, strain-rate frequency distributions become approximately log-normal with heavy, exponential tails. Localisation due to anisotropy is scale-independent and thus provides a single mechanism for a self-organised hierarchy of shear bands and zones from mm-to km-scales. The numerical simulations are compared with the natural example of the Northern Shear Belt at Cap de Creus, NE Spain.

Description: © The Authors, 2019. This article is distributed under the terms of the Creative Commons Attribution-Noncommercial-Share Alike 4.0 International License. The definitive version was published in Molecular Phylogenetics and Evolution (2019), doi:10.1016/j.ympev.2019.02.003.

Description: The advent of massive parallel sequencing technologies has resulted in an increase of studies based upon complete mitochondrial genome DNA sequences that revisit the taxonomic status within and among species. Spatially distinct monophyly in such mitogenomic genealogies, i.e., the sharing of a recent common ancestor among con-specific samples collected in the same region has been viewed as evidence for subspecies. Several recent studies in cetaceans have employed this criterion to suggest subsequent intraspecific taxonomic revisions. We reason that employing intra-specific, spatially distinct monophyly at non-recombining, clonally inherited genomes is an unsatisfactory criterion for defining subspecies based upon theoretical (genetic drift) and practical (sampling effort) arguments. This point was illustrated by a re-analysis of a global mitogenomic assessment of fin whales, Balaenoptera physalus spp., published by Archer et al. (2013), which proposed to further subdivide the Northern Hemisphere fin whale subspecies, B. p. physalus. The proposed revision was based upon the detection of spatially distinct monophyly among North Atlantic and North Pacific fin whales in a genealogy based upon complete mitochondrial genome DNA sequences. The extended analysis conducted in this study (1,676 mitochondrial control region, 162 complete mitochondrial genome DNA sequences and 20 microsatellite loci genotyped in 358 samples) revealed that the apparent monophyly among North Atlantic fin whales reported by Archer et al. (2013) to be due to low sample sizes. In conclusion, defining sub-species from monophyly (i.e., the absence of para- or polyphyly) can lead to erroneous conclusions due to relatively “trivial” aspects, such as sampling. Basic population genetic processes (i.e., genetic drift and migration) also affect the time to the most recent common ancestor and hence the probability that individuals in a sample are monophyletic.

Description: We are grateful to Hanne Jørgensen, Anna Sellas, Mary Beth Rew and Christina Færch-Jensen for technical assistance. We thank Drs. P. E. Rosel and K. D. Mullin (U.S. National Marine Fisheries Service Southeast Fisheries Science Center) and members of the U.S. Northeast and Southeast Region Marine Mammal Stranding Network and its response teams, including the International Fund for Animal Welfare, the Marine Mammal Stranding Center, Mystic Aquarium, the Riverhead Foundation for Marine Research and Preservation (K. Durham) and the Marine Mammal Stranding Program of the University of North Carolina Wilmington for access to fin whale samples from the western North Atlantic. We thank Gisli Vikingsson for providing samples. We are indebted to Dr. Eduardo Secchi for facilitating data sharing. Data collection in the Southern Ocean was conducted under research projects Baleias (CNPq grants 557064/2009-0 and 408096/2013-6), INTERBIOTA (CNPq 407889/2013-2) and INCT-APA (CNPq 574018/2008-5), of the Brazilian Antarctic Program and a contribution by the research consortium ‘Ecology and Conservation of Marine Megafauna – EcoMega-CNPq’. MAS was supported through a FCT Investigator contract funded by POPH, QREN European Social Fund, and Portuguese Ministry for Science and Education. Data collection in the Azores was funded by TRACE-PTDC/MAR/74071/2006 and MAPCET-M2.1.2/F/012/2011 [FEDER, COMPETE, QREN European Social Fund, and Proconvergencia Açores/EU Program]. Fin whale illustration herein is used with the permission of Frédérique Lucas. We acknowledge the Center for Information Technology of the University of Groningen for IT support and access to the Peregrine high performance-computing cluster.

Description: The reconstruction of past environments by means of macrofossil and pollen analysis is commonly based on the modern ecological preferences of the taxa that may have produced these fossils. Here we present a modelling approach, in which we use modern vegetation–surface height relationships to quantify past surface heights in an Arctic ice-wedge polygon mire. Vegetation composition and ground surface height (GSH) were assessed in a polygon mire near Kytalyk (Northeastern Siberia). Cluster analysis revealed five plant communities, which are clearly separated with respect to ground surface height, frost surface height and coverages of open water and vegetation. Based on the composition of modern vegetation we constructed two sets of potential fossil types (plant macrofossils and pollen), an extensive one and a more restricted one to reflect different conditions of preservation and recognisability. We applied Canonical Correspondence Analysis to model the relationships between potential fossil types and measured GSH. Both models show a strong relationship between modelled and measured GSH values and a high accuracy in prediction. Finally, we used the models to predict GSH values for Holocene peat samples and found a fair correspondence with expert-based multi-proxy reconstruction of wetness conditions, even though only a minor part of the encountered fossils were represented in the GSH models, illustrating the robustness of the approach. Our approach can be used to reconstruct palaeoenvironmental conditions in a more objective way and can serve as a template for further palaeoecological studies.

Description: The Punta delle Pietre Nere (Gargano, Southern Italy) igneous body is constituted by gabbroic and syenitic rocks with lamprophyric affinity of different age (58 and 62 Ma, respectively). The chemical composition of the minerals clearly indicates that there is no genetic relationship between the two lithotypes, in agreement with their significant age difference. The chemical (trace elements) and Sr-Nd-Pb-isotopic composition of these rocks highlights an “anorogenic” geochemical affinity derived from mixed DMM-HIMU-EM mantle reservoirs, similarly to other Paleogene-Oligocenemagmatic provinces in the Circum-Mediterranean Area. In past literature, these features were interpreted as evidences for enriched asthenospheric mantle plume upwelling from deep regions beneath the Western Europe. Here we suggest that the HIMU-like composition of Punta delle Pietre Nere rocks is related to a lithosphericmantle source bearing amphibole-rich veins, resulting from crystallization of melts within the amphibole stability field in presence of H2O, as shown by several experimental works. Our results suggests partial melting at 70–90 km depth, which corresponds to the spinel-garnet transition (2.5–3.5 GPa) close to the amphibole stability limit (~90–110 km and 2.5–3.5 GPa).

Description: Published

Description: 316-328

Description: 3V. Proprietà chimico-fisiche dei magmi e dei prodotti vulcanici

Description: JCR Journal

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Proceedings of the National Academy of Sciences.of the United States of America 116(36), (2019): 17666-17672. doi:10.1073/pnas.1907871116.

Description: The conditions of methane (CH4) formation in olivine-hosted secondary fluid inclusions and their prevalence in peridotite and gabbroic rocks from a wide range of geological settings were assessed using confocal Raman spectroscopy, optical and scanning electron microscopy, electron microprobe analysis, and thermodynamic modeling. Detailed examination of 160 samples from ultraslow- to fast-spreading midocean ridges, subduction zones, and ophiolites revealed that hydrogen (H2) and CH4 formation linked to serpentinization within olivine-hosted secondary fluid inclusions is a widespread process. Fluid inclusion contents are dominated by serpentine, brucite, and magnetite, as well as CH4(g) and H2(g) in varying proportions, consistent with serpentinization under strongly reducing, closed-system conditions. Thermodynamic constraints indicate that aqueous fluids entering the upper mantle or lower oceanic crust are trapped in olivine as secondary fluid inclusions at temperatures higher than ∼400 °C. When temperatures decrease below ∼340 °C, serpentinization of olivine lining the walls of the fluid inclusions leads to a near-quantitative consumption of trapped liquid H2O. The generation of molecular H2 through precipitation of Fe(III)-rich daughter minerals results in conditions that are conducive to the reduction of inorganic carbon and the formation of CH4. Once formed, CH4(g) and H2(g) can be stored over geological timescales until extracted by dissolution or fracturing of the olivine host. Fluid inclusions represent a widespread and significant source of abiotic CH4 and H2 in submarine and subaerial vent systems on Earth, and possibly elsewhere in the solar system.

Description: We are indebted to J. Eckert for his support with FE-EMPA; to K. Aquinho and E. Codillo for providing samples from Zambales; to K. Aquinho for Raman analysis of some of the samples from Zambales and Mt. Dent; to H. Dick for providing access to his thin section collection; to the curators of the IODP core repositories for providing access to Ocean Drilling Program (ODP) and Integrated Ocean Drilling Program (IODP) samples; and to the captains and crews of the many cruises without whom the collection of these samples would not have been possible. Reviews by Peter Kelemen and an anonymous referee greatly improved this manuscript. This study is supported with funds provided by the National Science Foundation (NSF-OCE Award 1634032 to F.K. and J.S.S.).

Description: 2020-02-19

Description: Author Posting. © The Author(s), 2019. This is the author's version of the work. It is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences of the United States of America 116(20), (2019):9925-9930, doi:10.1073/pnas.1818349116.

Description: Microbial capacity to metabolize arsenic is ancient, arising in response to its pervasive presence in the environment, which was largely in the form of As(III) in the early anoxic ocean. Many biological arsenic transformations are aimed at mitigating toxicity; however, some microorganisms can respire compounds of this redox-sensitive element to reap energetic gains. In several modern anoxic marine systems concentrations of As(V) are higher relative to As(III) than what would be expected from the thermodynamic equilibrium, but the mechanism for this discrepancy has remained unknown. Here we present evidence of a complete respiratory arsenic cycle, consisting of dissimilatory As(V) reduction and chemoautotrophic As(III) oxidation, in the pelagic ocean. We identified the presence of genes encoding both subunits of the respiratory arsenite oxidase AioA and the dissimilatory arsenate reductase ArrA in the Eastern Tropical North Pacific (ETNP) oxygen-deficient zone (ODZ). The presence of the dissimilatory arsenate reductase gene arrA was enriched on large particles (〉30 um), similar to the forward bacterial dsrA gene of sulfate-reducing bacteria, which is involved in the cryptic cycling of sulfur in ODZs. Arsenic respiratory genes were expressed in metatranscriptomic libraries from the ETNP and the Eastern Tropical South Pacific (ETSP) ODZ, indicating arsenotrophy is a metabolic pathway actively utilized in anoxic marine water columns. Together these results suggest arsenic-based metabolisms support organic matter production and impact nitrogen biogeochemical cycling in modern oceans. In early anoxic oceans, especially during periods of high marine arsenic concentrations, they may have played a much larger role.

Description: We thank John Baross and Rika Anderson for helpful discussions and feedback on this project. We also thank the chief scientists of the research cruise, Al Devol and Bess Ward, as well as the captain and crew of the R/V Thomas G. Thompson. This work was supported through a NASA Earth and Space Sciences Graduate Research Fellowship to J.K.S. and National Science Foundation Grant OCE-1138368 (to G.R.).

Description: 2019-10-29

Description: Author Posting. © National Academy of Sciences, 2019. This article is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences 116 (24), (2019):11646-11651, doi:10.1073/pnas.1900371116.

Description: Measurements show large decadal variability in the rate of CO2 accumulation in the atmosphere that is not driven by CO2 emissions. The decade of the 1990s experienced enhanced carbon accumulation in the atmosphere relative to emissions, while in the 2000s, the atmospheric growth rate slowed, even though emissions grew rapidly. These variations are driven by natural sources and sinks of CO2 due to the ocean and the terrestrial biosphere. In this study, we compare three independent methods for estimating oceanic CO2 uptake and find that the ocean carbon sink could be responsible for up to 40% of the observed decadal variability in atmospheric CO2 accumulation. Data-based estimates of the ocean carbon sink from pCO2 mapping methods and decadal ocean inverse models generally agree on the magnitude and sign of decadal variability in the ocean CO2 sink at both global and regional scales. Simulations with ocean biogeochemical models confirm that climate variability drove the observed decadal trends in ocean CO2 uptake, but also demonstrate that the sensitivity of ocean CO2 uptake to climate variability may be too weak in models. Furthermore, all estimates point toward coherent decadal variability in the oceanic and terrestrial CO2 sinks, and this variability is not well-matched by current global vegetation models. Reconciling these differences will help to constrain the sensitivity of oceanic and terrestrial CO2 uptake to climate variability and lead to improved climate projections and decadal climate predictions.

Description: We thank Rebecca Wright and Erik Buitenhuis at University of East Anglia, Norwich, for providing updated runs from the NEMO-PlankTOM5 model. T.D. was supported by NSF Grant OCE-1658392. C.L.Q. thanks the UK Natural Environment Research Council for supporting the SONATA Project (Grant NE/P021417/1). P.L. was supported by the Max Planck Society for the Advancement of Science. J.H. was supported under Helmholtz Young Investigator Group Marine Carbon and Ecosystem Feedbacks in the Earth System (MarESys) Grant VH-NG-1301. S.B. and R.S. were supported by the H2020 project CRESCENDO “Coordinated Research in Earth Systems and Climate: Experiments, Knowledge, Dissemination and Outreach,” which received funding from the European Union’s Horizon 2020 research and innovation program under Grant No 641816. SOCAT is an international effort, endorsed by the International Ocean Carbon Coordination Project, the Surface Ocean-Lower Atmosphere Study, and the Integrated Marine Biosphere Research program, to deliver a uniformly quality-controlled surface ocean CO2 database. The many researchers and funding agencies responsible for the collection of data and quality control are thanked for their contributions to SOCAT.

Description: 2019-11-28

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Baltar, F., Bayer, B., Bednarsek, N., Deppeler, S., Escribano, R., Gonzalez, C. E., Hansman, R. L., Mishra, R. K., Moran, M. A., Repeta, D. J., Robinson, C., Sintes, E., Tamburini, C., Valentin, L. E., & Herndl, G. J. Towards integrating evolution, metabolism, and climate change studies of marine ecosystems. Trends in Ecology and Evolution. 34(11), (2019): 1022-1033, doi: 10.1016/j.tree.2019.07.003.

Description: Global environmental changes are challenging the structure and functioning of ecosystems. However, a mechanistic understanding of how global environmental changes will affect ecosystems is still lacking. The complex and interacting biological and physical processes spanning vast temporal and spatial scales that constitute an ecosystem make this a formidable problem. A unifying framework based on ecological theory, that considers fundamental and realized niches, combined with metabolic, evolutionary, and climate change studies, is needed to provide the mechanistic understanding required to evaluate and forecast the future of marine communities, ecosystems, and their services.

Description: This work arose from the international workshop IMBIZO 5: Marine biosphere research for a sustainable ocean: Linking ecosystems, future states and resource management, organized by the IMBeR (Integrated Marine Biosphere Research) Program, and held at the Woods Hole Oceanographic Institution in October 2017. In particular, this work was generated from the working group from Workshop 2: Metabolic diversity and evolution in marine biogeochemical cycling and ocean ecosystem processes. The constructive criticism of three reviewers on a previous version of the manuscript is gratefully acknowledged. F.B. was supported by a Rutherford Discovery Fellowship by the Royal Society of New Zealand. G.J.H. was supported by the Austrian Science Fund (FWF) project ARTEMIS (P28781-B21).

Description: Differentiating thermokarst basin sediments with respect to the involved processes and environmental conditions is an important tool to understand permafrost landscape dynamics and scenarios and future trajectories in a warming Arctic and Subarctic. Thermokarst basin deposits have complex sedimentary structures due to the variability of Yedoma source sediments, reworking during the Late Glacial to Holocene climate changes, and different stages of thermokarst history. Here we reconstruct the dynamic growth of thermokarst lakes and basins and related changes of depositional conditions preserved in sediment sequences using a combination of biogeochemical data and robust grain-size endmember analysis (rEMMA). This multi-proxy approach is used on 10 sediment cores (each 300–400 cm deep) from two key thermokarst sites to distinguish four time slices that describe the Holocene thermokarst (lake) basin evolution in Central Yakutia (CY). Biogeochemical proxies and rEMMA reveal fine-grained sedimentation with rather high lake levels and/or reducing conditions, and coarse-grained sedimentation with rather shallow lake levels and/or oxidizing (i.e. terrestrial) conditions in relation to distal and proximal depositional and post-sedimentary conditions. Statistical analysis suggests that the biogeochemical parameters are almost independent of thermokarst deposit sedimentology. Thus, the biogeochemical parameters are considered as signals of secondary (post-sedimentary) reworking. The rEMMA results are clearly reflecting grain-size variations and depositional conditions. This indicates small-scale varying depositional environments, frequently changing lake levels, and predominantly lateral expansion at the edges of rapidly growing small thermokarst lakes and basins. These small bodies finally coalesced, forming the large thermokarst basins we see today in CY. Considering previous paleoenvironmental reconstructions in Siberia, we show the initiation of thaw and subsidence during the Late Glacial to Holocene transition between about 11 and 9 cal kyrs BP, intensive and extensive thermokarst activity for the Holocene Thermal Maximum (HTM) at about 7 to 5 cal kyrs BP, severely fluctuating water levels and further lateral basin growth between 3.5 cal kyrs BP and 1.5 cal kyrs BP, and the cessation of thermokarst activity and extensive frost-induced processes (i.e. permafrost aggradation) after about 1.5 cal kyrs BP. However, gradual permafrost warming over recent decades, in addition to human impacts, has led to renewed high rates of subsidence and abrupt, rapid CY thermokarst processes.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Proceedings of the National Academy of Sciences.of the United States of America 116(36), (2019): 17934-17942, doi:10.1073/pnas.1910121116.

Description: Plastid endosymbiosis has been a major force in the evolution of eukaryotic cellular complexity, but how endosymbionts are integrated is still poorly understood at a mechanistic level. Dinoflagellates, an ecologically important protist lineage, represent a unique model to study this process because dinoflagellate plastids have repeatedly been reduced, lost, and replaced by new plastids, leading to a spectrum of ages and integration levels. Here we describe deep-transcriptomic analyses of the Antarctic Ross Sea dinoflagellate (RSD), which harbors long-term but temporary kleptoplasts stolen from haptophyte prey, and is closely related to dinoflagellates with fully integrated plastids derived from different haptophytes. In some members of this lineage, called the Kareniaceae, their tertiary haptophyte plastids have crossed a tipping point to stable integration, but RSD has not, and may therefore reveal the order of events leading up to endosymbiotic integration. We show that RSD has retained its ancestral secondary plastid and has partitioned functions between this plastid and the kleptoplast. It has also obtained genes for kleptoplast-targeted proteins via horizontal gene transfer (HGT) that are not derived from the kleptoplast lineage. Importantly, many of these HGTs are also found in the related species with fully integrated plastids, which provides direct evidence that genetic integration preceded organelle fixation. Finally, we find that expression of kleptoplast-targeted genes is unaffected by environmental parameters, unlike prey-encoded homologs, suggesting that kleptoplast-targeted HGTs have adapted to posttranscriptional regulation mechanisms of the host.

Description: We are grateful to Martin Kolisko and Fabien Burki for helpful discussion about and comments on the phylogenetic analysis; and Filip Husnik and Vittorio Boscaro for valuable comments on the manuscript. This work was supported by a grant from the National Science Foundation to R.J.G. and P.J.K. (PLR-1341362) and from the Natural Sciences and Engineering Research Council of Canada to P.J.K. (RGPIN-2014-03994).

Description: 2020-02-19

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Diaz, J. M., Plummer, S., Hansel, C. M., Andeer, P. F., Saito, M. A., & McIlvin, M. R. NADPH-dependent extracellular superoxide production is vital to photophysiology in the marine diatom Thalassiosira oceanica. Proceedings of the National Academy of Sciences of the United States of America, 116 (33), (2019): 16448-16453, doi: 10.1073/pnas.1821233116.

Description: Reactive oxygen species (ROS) like superoxide drive rapid transformations of carbon and metals in aquatic systems and play dynamic roles in biological health, signaling, and defense across a diversity of cell types. In phytoplankton, however, the ecophysiological role(s) of extracellular superoxide production has remained elusive. Here, the mechanism and function of extracellular superoxide production by the marine diatom Thalassiosira oceanica are described. Extracellular superoxide production in T. oceanica exudates was coupled to the oxidation of NADPH. A putative NADPH-oxidizing flavoenzyme with predicted transmembrane domains and high sequence similarity to glutathione reductase (GR) was implicated in this process. GR was also linked to extracellular superoxide production by whole cells via quenching by the flavoenzyme inhibitor diphenylene iodonium (DPI) and oxidized glutathione, the preferred electron acceptor of GR. Extracellular superoxide production followed a typical photosynthesis-irradiance curve and increased by 30% above the saturation irradiance of photosynthesis, while DPI significantly impaired the efficiency of photosystem II under a wide range of light levels. Together, these results suggest that extracellular superoxide production is a byproduct of a transplasma membrane electron transport system that serves to balance the cellular redox state through the recycling of photosynthetic NADPH. This photoprotective function may be widespread, consistent with the presence of putative homologs to T. oceanica GR in other representative marine phytoplankton and ocean metagenomes. Given predicted climate-driven shifts in global surface ocean light regimes and phytoplankton community-level photoacclimation, these results provide implications for future ocean redox balance, ecological functioning, and coupled biogeochemical transformations of carbon and metals.

Description: This work was supported by a postdoctoral fellowship from the Ford Foundation (to J.M.D.), the National Science Foundation (NSF) under grants OCE 1225801 (to J.M.D.) and OCE 1246174 (to C.M.H.), a Junior Faculty Seed Grant from the University of Georgia Research Foundation (to J.M.D.), and a National Science Foundation Graduate Research Fellowship (to S.P.). The FIRe was purchased through a NSF equipment improvement grant (1624593).The authors thank Melissa Soule for assistance with LC/MS/MS analysis of peptide samples.

Description: Author Posting. © The Author(s), 2018. This is the author's version of the work. It is posted here under a nonexclusive, irrevocable, paid-up, worldwide license granted to WHOI. It is made available for personal use, not for redistribution. The definitive version was published in Rudolph, M. L., Sohn, R. A., & Lev, E.. Fluid oscillations in a laboratory geyser with a bubble trap. Journal of Volcanology and Geothermal Research, 368, (2018):100-110. doi:10.1016/j.jvolgeores.2018.11.003.

Description: Geysers are rare geologic features that episodically erupt water and steam. While it is understood that the eruptions are triggered by the conversion of thermal to kinetic energy during decompression of hot uids, geysers commonly exhibit a range of dynamic behaviors in-between and during eruptions that have yet to be adequately explained. In-situ measurements of temperature and pressure as well as remote geophysical techniques have revealed oscillatory behavior across a range of timescales, ranging from eruption cycles to impulsive bubble collapse events. Many geysers, including Old faithful in Yellowstone National Park, USA, are believed to have o set subsurface reservoirs (referred to as a `bubble trap') that can trap and accumulate noncondensable gas or steam entering the system. The impact of a bubble trap on the dynamic behaviors of the system, however, has not been fully established. We constructed a laboratory bubble trap and performed a series of experiments to study how uids oscillate back and forth between the eruption conduit and laterally-offseet reservoir in-between eruptions. We present a new theoretical model based on Hamiltonian mechanics that successfully predicts the oscillation frequencies observed in our experiments based on the conduit system geometry, the amount of gas that has accumulated in the bubble trap, and the amount of liquid water in the system. We demonstrate that when scaled to Old Faithful Geyser, this mechanism is capable of producing oscillations at the observed frequencies.

Description: The authors thank Paul Fucile and Glenn Macdonald for engineering support in designing and constructing the laboratory analog geyser rig. Funding for the laboratory geyser was provided by the US National Science Foundation grant EAR-1516361. EL was funded through a RISE award from Columbia University.

Description: 2019-11-10

Description: Author Posting. © National Academy of Sciences, 2019. This article is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences 116(27), (2019): 13233-13238, doi: 10.1073/pnas.1904087116.

Description: The overturning circulation of the global ocean is critically shaped by deep-ocean mixing, which transforms cold waters sinking at high latitudes into warmer, shallower waters. The effectiveness of mixing in driving this transformation is jointly set by two factors: the intensity of turbulence near topography and the rate at which well-mixed boundary waters are exchanged with the stratified ocean interior. Here, we use innovative observations of a major branch of the overturning circulation—an abyssal boundary current in the Southern Ocean—to identify a previously undocumented mixing mechanism, by which deep-ocean waters are efficiently laundered through intensified near-boundary turbulence and boundary–interior exchange. The linchpin of the mechanism is the generation of submesoscale dynamical instabilities by the flow of deep-ocean waters along a steep topographic boundary. As the conditions conducive to this mode of mixing are common to many abyssal boundary currents, our findings highlight an imperative for its representation in models of oceanic overturning.

Description: The DynOPO project is supported by the UK Natural Environment Research Council (grants NE/K013181/1 and NE/K012843/1) and the US National Science Foundation (grants OCE-1536453 and OCE-1536779). A.C.N.G. acknowledges the support of the Royal Society and the Wolfson Foundation. S.L. acknowledges the support of award NA14OAR4320106 from the National Oceanic and Atmospheric Administration, US Department of Commerce. The statements, findings, conclusions, and recommendations are those of the authors, and do not necessarily reflect the views of the National Oceanic and Atmospheric Administration, or the US Department of Commerce. We are grateful to the scientific party, crew, and technicians on the RRS James Clark Ross for their hard work during data collection.

Description: 2019-12-18

Description: Author Posting. © The Authors, 2018. This is the author's version of the work. It is posted here under a nonexclusive, irrevocable, paid-up, worldwide license granted to WHOI. It is made available for personal use, not for redistribution. The definitive version was published in Putland, R. L., Mackiewicz, A. G., & Mensinger, A. F. Localizing individual soniferous fish using passive acoustic monitoring. Ecological Informatics, 48, (2018):60-68. doi: 10.1016/j.ecoinf.2018.08.004.

Description: Identifying where fish inhabit is a fundamentally important topic in ecology and management allowing acoustically sensitive times and areas to be prioritized. Passive acoustic localization has the benefit of being a non-invasive and non-destructive observational tool, and provides unbiased data on the position and movement of aquatic animals. This study used the time difference of arrivals (TDOA) of sound recordings on a four-hydrophone array to pinpoint the location of male oyster toadfish, Opsanus tau, a cryptic fish that produces boatwhistles to attract females. Coupling the TDOA method with cross correlation of the different boatwhistles, individual toadfish were mapped during dawn (0523–0823), midday (1123–1423), dusk (1723–2023) and night (2323−0223) to examine the relationship between temporal and spatial trends. Seven individual males were identified within 0.5–24.2 m of the hydrophone array and 0.0–18.2 m of the other individuals. Uncertainty in passive acoustics localization was investigated using computer simulations as 〈2.0 m within a bearing of 033 to 148° of the linear hydrophone array. Passive acoustic monitoring is presented as a viable tool for monitoring the positions of soniferous species, like the oyster toadfish. The method used in this study could be applied to a variety of soniferous fishes, without disturbing them or their environment. Understanding the location of fishes can be linked to temporal and environmental parameters to investigate ecological trends, as well as to vessel activity to discuss how individuals' respond to anthropogenic noise.

Description: We would firstly like to thank the anonymous reviewers for providing helpful comments. We thank John Atkins, Mark Johnson and Ben Schlaer for their guidance in the acoustic localization method used and Emily Fleissner for helping to identify toadfish boatwhistles. We also thank Jenni Stanley for help with initial hydrophone set-up and the Marine Resources Center at MBL for dock space and resources. Funding was provided by National Science Foundation grants IOS 1354745, DOB 1359230 and 1659604 awarded to AFM.

Description: 2019-08-13

Description: Author Posting. © The Authors, 2018. This is the author's version of the work. It is posted here under a nonexclusive, irrevocable, paid-up, worldwide license granted to WHOI. It is made available for personal use, not for redistribution. The definitive version was published in Roca-Marti, M., Puigcorbe, V., Friedrich, J., van der Loeff, M. R., Rabe, B., Korhonen, M., Camara-Mor, P., Garcia-Orellana, J., & Masque, P. (2018). Distribution of pb-210 and po-210 in the arctic water column during the 2007 sea-ice minimum: Particle export in the ice-covered basins. Deep-Sea Research Part I-Oceanographic Research Papers, 142, 94-106, doi:10.1016/j.dsr.2018.09.011.

Description: 210Pb and 210Po are naturally occurring radionuclides that are commonly used as a proxy for particle and carbon export. In this study, the distribution of the 210Po/210Pb pair was investigated in the water column of the Barents, Kara and Laptev Seas and the Nansen, Amundsen and Makarov Basins in order to understand the particle dynamics in the Arctic Ocean during the 2007 sea-ice minimum (August-September). Minimum activities of total 210Pb and 210Po were found in the upper and lower haloclines (approx. 60-130 m), which are partly attributed to particle scavenging over the shelves, boundary current transport and subsequent advection of the water with low 210Pb and 210Po activities into the central Arctic. Widespread and substantial (〉50%) deficits of 210Po with respect to 210Pb were detected from surface waters to 200 m on the shelves, but also in the basins. This was particularly important in the Makarov Basin where, despite very low chlorophyll-a levels, estimates of annual new primary production were three times higher than in the Eurasian Basin. In the Nansen, Amundsen and Makarov 32 Basins, estimates of annual new primary production correlated with the deficits of 210Po in the upper 200 m of the water column, suggesting that in situ production and subsequent export of biogenic material were the mechanisms that controlled the removal of 210Po in the central Arctic. Unlike 210Po, 234Th deficits measured during the same expedition were found to be very small and not significant below 25 m in the basins (Cai et al., 2010), which indicates, given the shorter half-life of 234Th, that particle export fluxes in the central Arctic would have been higher before July-August in 2007 than later in the season.

Description: We would like to thank the crew of the R/V Polarstern and the scientists on board for their cooperation during the ARK-XXII/2 expedition. We greatly appreciate the hard work of Oliver Lechtenfeld who collected and processed the samples on board. Thanks to Dorothea Bauch for sharing her results on freshwater origin and Adam Ulfsbo for providing insightful comments on the estimates of primary production. This project was partly supported by the Ministerio de Ciencia e Innovación (CTM2011-28452, Spain). We wish to acknowledge the support of the Generalitat de Catalunya to the research group MERS (2017 SGR-1588). This work is contributing to the ICTA ‘Unit of Excellence’ (MinECo, MDM2015-0552). M.R.-M. was supported by a Spanish PhD fellowship (AP2010-2510) and an Australian postdoctoral fellowship (2017 Endeavour Research Fellowship).

Description: 2019-10-22

Description: The Aurelian Mammal Age for peninsular Italy was introduced on the basis of faunal assemblages mainly recovered at sites along the Via Aurelia west of Rome. These sites exposed a set of sedimentary deposits currently attributed to the Aurelia and to the Vitinia Formations correlated with MIS 9 and MIS 7, respectively. In the present paper we reconstruct the geologic-stratigraphic setting in the western sector of Rome within the wider context of glacio-eustatically controlled, geochronologically constrained aggradational successions defined for this region. We present a chronostratigraphic study based on dedicated field surveys, that, combined with five new 40Ar/39Ar ages and eighteen trace-element and EMP glass analyses of volcanic products, allow us to revise age and correlation with the Marine Isotopic Stages for 10 sites out of 12 previously attributed to the Aurelia Formation and the Torre in Pietra Faunal Unit. In particular, we demonstrate a MIS 13/MIS 11 age for several sections along the Via Aurelia between Malagrotta and Castel di Guido. Based on this new geochronological framework, the first occurrences of Canis lupus and Vulpes vulpes in Italy are antedated to MIS 11, within the Fontana Ranuccio Faunal Unit of the Galerian Mammal Age, consistent with the wider European context. This contribution is intended as the groundwork for a revision of the Middle Pleistocene Mammal Ages of the Italian peninsula, according to the improved chronostratigraphy of the geologic sections hosting the faunal assemblages.

Description: Published

Description: 173-199

Description: 5A. Paleoclima e ricerche polari

Description: JCR Journal

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Luis, K. M. A., Rheuban, J. E., Kavanaugh, M. T., Glover, D. M., Wei, J., Lee, Z., & Doney, S. C. Capturing coastal water clarity variability with Landsat 8. Marine Pollution Bulletin, 145, (2019): 96-104, doi: 10.1016/j.marpolbul.2019.04.078.

Description: Coastal water clarity varies at high temporal and spatial scales due to weather, climate, and human activity along coastlines. Systematic observations are crucial to assessing the impact of water clarity change on aquatic habitats. In this study, Secchi disk depths (ZSD) from Boston Harbor, Buzzards Bay, Cape Cod Bay, and Narragansett Bay water quality monitoring organizations were compiled to validate ZSD derived from Landsat 8 (L8) imagery, and to generate high spatial resolution ZSD maps. From 58 L8 images, acceptable agreement was found between in situ and L8 ZSD in Buzzards Bay (N = 42, RMSE = 0.96 m, MAPD = 28%), Cape Cod Bay (N = 11, RMSE = 0.62 m, MAPD = 10%), and Narragansett Bay (N = 8, RMSE = 0.59 m, MAPD = 26%). This work demonstrates the value of merging in situ ZSD with high spatial resolution remote sensing estimates for improved coastal water quality monitoring.

Description: This work was supported by the John D. and Catherine T. MacArthur Foundation (grant 14-106159-000-CFP) and by the National Science Foundation grant DGE 1249946, Integrative Graduate Education and Research Traineeship (IGERT): Coasts and Communities – Natural and Human Systems in Urbanizing Environments. Lastly, we are indebted to the Massachusetts Water Resources Authority, Buzzards Bay Coalition, Provincetown Center for Coastal Studies, Narragansett Bay Commission, and the numerous citizen scientists responsible for collecting the in situ measurements used in this study. Comments and suggestions from our anonymous reviewer were greatly appreciated.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Chelton, D. B., Schlax, M. G., Samelson, R. M., Farrar, J. T., Molemaker, M. J., McWilliams, J. C., & Gula, J. Prospects for future satellite estimation of small-scale variability of ocean surface velocity and vorticity. Progress in Oceanography, 173, (2019):256-350, doi:0.1016/j.pocean.2018.10.012.

Description: Recent technological developments have resulted in two techniques for estimating surface velocity with higher resolution than can be achieved from presently available nadir altimeter data: (1) Geostrophically computed estimates from high-resolution sea surface height (SSH) measured interferometrically by the wide-swath altimeter on the Surface Water and Ocean Topography (SWOT) Mission with a planned launch in 2021; and (2) Measurements of ocean surface velocity from a Doppler scatterometer mission that is in the early planning stages, referred to here as a Winds and Currents Mission (WaCM). In this study, we conduct an analysis of the effects of uncorrelated measurement errors and sampling errors on the errors of the measured and derived variables of interest (SSH and geostrophically computed velocity and vorticity for SWOT, and surface velocity and vorticity for WaCM). Our analysis includes derivations of analytical expressions for the variances and wavenumber spectra of the errors of the derived variables, which will be useful to other studies based on simulated SWOT and WaCM estimates of velocity and vorticity. We also discuss limitations of the geostrophic approximation that must be used for SWOT estimates of velocity. The errors of SWOT and WaCM estimates of velocity and vorticity at the full resolutions of the measured variables are too large for the unsmoothed estimates to be scientifically useful. It will be necessary to smooth the data to reduce the noise variance. We assess the resolution capabilities of smoothed estimates of velocity and vorticity from simulated noisy SWOT and WaCM data based on a high-resolution model of the California Current System (CCS). By our suggested minimum threshold signal-to-noise (S/N) variance ratio of 10 (a standard deviation ratio of 3.16), we conclude that the wavelength resolution capabilities of maps of velocity and vorticity constructed from WaCM data with a swath width of 1200 km are, respectively, about 60 km and 90 km in 4-day averages. For context, the radii of resolvable features are about four times smaller than these mesoscale wavelength resolutions. If the swath width can be increased to 1800 km, the wavelength resolution capabilities of 4-day average maps of surface velocity and vorticity would improve to about 45 km and 70 km, respectively. Reducing the standard deviation of the uncorrelated measurement errors from the baseline value of m s−1 to a value of 0.25 m s−1 would further improve these resolution capabilities to about 20 km and 45 km. SWOT data will allow mapping of the SSH field with far greater accuracy and space–time resolution than are presently achieved by merging the data from multiple nadir altimeter missions. However, because of its much narrower 120-km measurement swath compared with WaCM and the nature of the space–time evolution of the sampling pattern during each 21-day repeat of the SWOT orbit, maps of geostrophically computed velocity and vorticity averaged over the 14-day period that is required for SWOT to observe the full CCS model domain are contaminated by sampling errors that are too large for the estimates to be useful for any amount of smoothing considered here. Reducing the SSH measurement errors would do little to improve SWOT maps of velocity and vorticity. SWOT estimates of these variables are likely to be useful only within individual measurement swaths or with the help of dynamic interpolation from a data assimilation model. By our criterion, in-swath SWOT estimates of velocity and vorticity have wavelength resolution capabilities of about 30 km and 55 km, respectively. In comparison, in-swath estimates of velocity and vorticity from WaCM data with m s−1 have a wavelength resolution capability of about 130 km for both variables. Reducing the WaCM measurement errors to m s−1 would improve the resolution capabilities to about 50 km and 75 km for velocity and vorticity, respectively. These resolutions are somewhat coarser than the in-swath estimates from SWOT data, but the swath width is more than an order of magnitude wider for WaCM. Instantaneous maps of velocity and vorticity constructed in-swath from WaCM data will therefore be much less prone to edge effect problems in the spatially smoothed fields. Depending on the precise value of the threshold adopted for the minimum S/N ratio and on the details of the filter used to smooth the SWOT and WaCM data, the resolution capabilities summarized above may be somewhat pessimistic. On the other hand, aspects of measurement errors and sampling errors that have not been accounted for in this study will worsen the resolution capabilities presented here. Another caveat to keep in mind is that the resolution capabilities deduced here from simulations of the CCS region during summertime may differ somewhat at other times of year and in other geographical regions where the signal variances and wavenumber spectra of the variables of interest differ from the CCS model used in this study. Our analysis nonetheless provides useful guidelines for the resolutions that can be expected from SWOT and WaCM.

Description: We thank Ralph Milliff, Bo Qiu, Ernesto Rodríguez and Lee-Lueng Fu for many helpful editorial comments and suggestions that improved the manuscript. This research was funded by NASA Grants NNX13AD78G, NNX14AM72G, NNX13AE32G, NNX14AM66G, NNX16AH76G,NNX14AM71G and NNX17AH54G. The two North Atlantic Ocean simulations in this study were performed using HPC resources from GENCI-TGCC with support from Grant 2017-A0010107638 for Jonathan Gula.

Description: The 2017 North Atlantic right whale (NARW) unusual mortality event and an increase in humpback whale entanglements off the U.S. West Coast have driven significant interest in ropeless trap/pot fishing. Removing the vertical buoy lines used to mark traps on the sea floor and haul them up would dramatically reduce or eliminate entanglements, the leading cause of NARW mortality, while potentially allowing fishermen to harvest in areas that would otherwise need to be closed to protect whales. At the first annual Ropeless Consortium meeting, researchers, fishing industry representatives, manufacturers, conservationists, and regulators discussed existing and developing technological replacements for the marking and retrieval functions of buoy lines. Fishermen and NGO partners shared their experience demonstrating ropeless systems and provided feedback to improve the designs. U.S. and Canadian federal regulators discussed prospects to use ropeless fishing gear in areas closed to fishing with vertical lines, as well as other options to reduce entanglements, and a Massachusetts official shared additional regulatory considerations involved in ropeless fishing in state waters. Sustainable seafood experts discussed consumer market advantages and endangered, threatened, and protected species impacts in sustainability standards and certifications. Moving forward, there is an immediate need to (1) work with industry partners to iteratively test and improve ropeless retrieval and marking systems to adapt them to the specific conditions of the relevant trap/pot fisheries, (2) create data sharing and communications protocols for ropeless gear location marking, and (3) develop regulatory procedures and enforcement capacity to allow legal ropeless gear use.

Description: This research did not receive any specific grant from funding agencies in the public, commercial, or not-for-profit sectors.

Description: 2020-06-22

Description: Author Posting. © The Author(s), 2019. This is the author's version of the work. It is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences of the United States of America 116(25), (2019):12343-12352, doi:10.1073/pnas.1901080116.

Description: Genes encoding cytochrome P450 (CYP; P450) enzymes occur widely in the Archaea, Bacteria, and Eukarya, where they play important roles in metabolism of endogenous regulatory molecules and exogenous chemicals. We now report that genes for multiple and unique P450s occur commonly in giant viruses in the Mimiviridae, Pandoraviridae, and other families in the proposed order Megavirales. P450 genes were also identified in a herpesvirus (Ranid herpesvirus 3) and a phage (Mycobacterium phage Adler). The Adler phage P450 was classified as CYP102L1, and the crystal structure of the open form was solved at 2.5 Å. Genes encoding known redox partners for P450s (cytochrome P450 reductase, ferredoxin and ferredoxin reductase, and flavodoxin and flavodoxin reductase) were not found in any viral genome so far described, implying that host redox partners may drive viral P450 activities. Giant virus P450 proteins share no more than 25% identity with the P450 gene products we identified in Acanthamoeba castellanii, an amoeba host for many giant viruses. Thus, the origin of the unique P450 genes in giant viruses remains unknown. If giant virus P450 genes were acquired from a host, we suggest it could have been from an as yet unknown and possibly ancient host. These studies expand the horizon in the evolution and diversity of the enormously important P450 superfamily. Determining the origin and function of P450s in giant viruses may help to discern the origin of the giant viruses themselves.

Description: We thank Dr. David Nes (Texas Tech University) for providing sterols and Dr. Matthieu Legendre and Dr. Chantal Abergel (CNRS, Marseille) for access to the P. celtis sequences. Drs. Irina Arkhipova, Mark Hahn, Judith Luborsky, and Ann Bucklin commented on the manuscript. The research was supported by a USA-UK Fulbright Scholarship and a Royal Society grant (to D.C.L.), the Boston University Superfund Research Program [NIH Grant 5P42ES007381 (to J.J.S. and J.V.G.) and NIH Grant 5U41HG003345 (to J.V.G.)], the European Regional Development Fund and Welsh Government Project BEACON (S.L.K.), the Woods Hole Center for Oceans and Human Health [NIH Grant P01ES021923 and National Science Foundation Grant OCE-1314642 (to J.J.S.)], and NIH Grant R01GM53753 (to T.L.P.).

Description: 2019-12-05

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Donatelli, C., Ganju, N. K., Kalra, T. S., Fagherazzi, S., & Leonardi, N. (2019). Dataset of numerical modelling results of wave thrust on salt marsh boundaries with different seagrass coverages in a shallow back-barrier estuary. Data in Brief, 25, 104197, doi:10.1016/j.dib.2019.104197.

Description: This article contains data on the effects of seagrass decline on wave energy along the shoreline of Barnegat Bay (USA) previously evaluated in Donatelli et al., 2019. This study was carried out applying the Coupled-Ocean-Atmosphere-Wave-Sediment Transport (COAWST) numerical modelling framework to six historical maps of seagrass distribution. A new routine recently implemented in COAWST was used, which explicitly computes the wave thrust acting on salt marsh boundaries. The numerical modelling results are reported in terms of wind-wave heights for different seagrass coverages, wind speeds and directions. From a comparison with a numerical experiment without submerged aquatic vegetation, we show how the computed wave thrust on marsh boundaries can be reduced by seagrass beds.

Description: This study was supported by the Department of the Interior Hurricane Sandy Recovery program (ID G16AC00455, sub-award to University of Liverpool). S.F. was partly supported by NSF awards 1637630 (PIE LTER) and 1832221 (VCR LTER). We further acknowledge partial support from the Environmental Change Research group at University of Liverpool, and University of Liverpool library for publication fees.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Hult, M., Charette, M., Lutter, G., Marissens, G., Henderson, P., Sobiech-Matura, K., & Simgen, H. Underground gamma-ray measurements of radium isotopes from hydrothermal plumes in the deep Pacific Ocean. Applied Radiation and Isotopes, 153, (2019): 108831, doi:10.1016/j.apradiso.2019.108831.

Description: The radium isotopes 226Ra and 228Ra can provide important data on the dynamics of deep-sea hydrothermal plumes that travel the oceans for decades and have great impact on the ocean chemistry. This study focuses on parameters important for obtaining low detection limits for 228Ra using gamma-ray spectrometry. It is present at mBq-levels in samples collected during the US GEOTRACES 2013 cruise to the Southeast Pacific Ocean.

Description: The work of the HADES-staff of Euridice at SCK•CEN is gratefully acknowledged. We are most grateful to Dr. Faidra Tzika for her work in the precursor to this project. Many thanks to Heiko Stroh for quality control and measurements in HADES. This research was supported in part by grants from the U.S. National Science Foundation, Ocean Sciences division (OCE-1232669 and OCE-1736277).

Description: Author Posting. © National Academy of Sciences, 2019. This article is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences 116 (35), (2019): 17187-17192, doi:10.1073/pnas.1903067116.

Description: Mesoscale eddies are critical components of the ocean’s “internal weather” system. Mixing and stirring by eddies exerts significant control on biogeochemical fluxes in the open ocean, and eddies may trap distinctive plankton communities that remain coherent for months and can be transported hundreds to thousands of kilometers. Debate regarding how and why predators use fronts and eddies, for example as a migratory cue, enhanced forage opportunities, or preferred thermal habitat, has been ongoing since the 1950s. The influence of eddies on the behavior of large pelagic fishes, however, remains largely unexplored. Here, we reconstruct movements of a pelagic predator, the blue shark (Prionace glauca), in the Gulf Stream region using electronic tags, earth-observing satellites, and data-assimilating ocean forecasting models. Based on 〉2,000 tracking days and nearly 500,000 high-resolution time series measurements collected by 15 instrumented individuals, we show that blue sharks seek out the interiors of anticyclonic eddies where they dive deep while foraging. Our observations counter the existing paradigm that anticyclonic eddies are unproductive ocean “deserts” and suggest anomalously warm temperatures in these features connect surface-oriented predators to the most abundant fish community on the planet in the mesopelagic. These results also shed light on the ecosystem services provided by mesopelagic prey. Careful consideration will be needed before biomass extraction from the ocean twilight zone to avoid interrupting a key link between planktonic production and top predators. Moreover, robust associations between targeted fish species and oceanographic features increase the prospects for effective dynamic ocean management.

Description: We thank D. McGillicuddy, G. Lawson, and G. Flierl for helpful discussions while developing this work and 2 anonymous reviewers whose feedback significantly improved the manuscript. We also thank C. Fischer and the OCEARCH team for their support of this research. This work was funded by awards to C.D.B. from the Martin Family Society of Fellows for Sustainability Fellowship at the Massachusetts Institute of Technology; the Grassle Fellowship and Ocean Venture Fund at the Woods Hole Oceanographic Institution; and the National Aeronatics and Space Administration (NASA) Earth and Space Science Fellowship. C.D.B. and P.G. acknowledge support from the NASA New Investigator Program Award 80NSSC18K0757, and P.G. acknowledges support from NSF Award OCE-1558809. This research is partially supported by funding to S.R.T. as part of the Audacious Project, a collaborative endeavor, housed at TED. We thank donors to the Woods Hole Oceanographic Institution (WHOI) ProjectWHOI crowdfunding campaign: The Secret Lives of Sharks. Computational support was provided by the Amazon Web Services Cloud Credits for Research program. Funding for the development of HYCOM has been provided by the National Ocean Partnership Program and the Office of Naval Research.

Description: 2020-02-06

Description: Author Posting. © National Academy of Sciences, 2019. This article is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences 116 (35), (2019): 17207-17212, doi:10.1073/pnas.1900325116.

Description: It has been hypothesized that the overall size of—or efficiency of carbon export from—the biosphere decreased at the end of the Great Oxidation Event (GOE) (ca. 2,400 to 2,050 Ma). However, the timing, tempo, and trigger for this decrease remain poorly constrained. Here we test this hypothesis by studying the isotope geochemistry of sulfate minerals from the Belcher Group, in subarctic Canada. Using insights from sulfur and barium isotope measurements, combined with radiometric ages from bracketing strata, we infer that the sulfate minerals studied here record ambient sulfate in the immediate aftermath of the GOE (ca. 2,018 Ma). These sulfate minerals captured negative triple-oxygen isotope anomalies as low as ∼ −0.8‰. Such negative values occurring shortly after the GOE require a rapid reduction in primary productivity of 〉80%, although even larger reductions are plausible. Given that these data imply a collapse in primary productivity rather than export efficiency, the trigger for this shift in the Earth system must reflect a change in the availability of nutrients, such as phosphorus. Cumulatively, these data highlight that Earth’s GOE is a tale of feast and famine: A geologically unprecedented reduction in the size of the biosphere occurred across the end-GOE transition.

Description: Olivia M. J. Dagnaud assisted during fieldwork. S. V. Lalonde and E. A. Sperling provided helpful comments on an early version of the manuscript. We thank N. J. Planavsky and an anonymous reviewer for their constructive feedback. M.S.W.H. was supported by an NSERC PGS-D and student research grants from National Geographic, the APS Lewis and Clark Fund, Northern Science Training Program, McGill University Graduate Research Enhancement and Travel Awards, Geological Society of America, Mineralogical Association of Canada, and Stanford University. P.W.C. acknowledges support from the University of Colorado Boulder, the Agouron Institute Geobiology postdoctoral Fellowship program, a Natural Sciences and Engineering Council of Canada Postgraduate Scholarship–Doctoral Program scholarship, and the NSTP. Y.P. was supported by the Strategic Priority Research Program of CAS (XDB26000000). T.J.H. thanks Maureen E. Auro for laboratory assistance and the NSF for supporting isotope research in the NIRVANA Labs.

Description: 2020-02-12

Description: © The Author(s), 2019. This is the author's version of the work and is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Gómez Fernando, Felipe Artigas Luis, J. Gast Rebecca. Molecular phylogeny of the parasitic dinoflagellate Syltodinium listii (Gymnodiniales, Dinophyceae) and generic transfer of Syltodinium undulans comb. nov. (=Gyrodinium undulans). European Journal of Protistology, (2019): 125636, doi:10.1016/j.ejop.2019.125636.

Description: The parasitic dinoflagellate Syltodinium listii was investigated from the open waters of the English Channel and the NW Mediterranean Sea. Syltodinium listii has been unreported since its original description in the North Sea. Cells of S. listii were able to immediately infect copepod eggs of different species, and even nauplii, and after each infection to form up to 32 cells embedded in a mucous envelope. Infection of the same host by more than one dinoflagellate was frequent; although overall, the progeny were reduced in number. Molecular phylogeny based on the small subunit ribosomal RNA (SSU rRNA) gene revealed that S. listii clusters with a group of environmental sequences from the cold North Atlantic region as a sister group of Gymnodinium aureolum. The large subunit ribosomal RNA (LSU rRNA) gene sequences of S. listii from the English Channel and cf. Gyrodinium undulans from the Mediterranean Sea were identical. Thus, we propose Syltodinium undulans comb. nov. for Gyrodinium undulans. The first internal transcribed spacer (ITS) and complete SSU rRNA gene sequences of Dissodinium pseudolunula are provided. The parasitic species of Chytriodinium, Dissodinium and Syltodinium cluster together within the family Chytriodiniaceae, including the free-living species Gymnodinium aureolum, G. corollarium and G. plasticum.

Description: F.G. was supported by the Ministerio Español de Ciencia y Tecnología [contract JCI-2010-08492], and by the convention #2101893310 between CNRS-INSU and the French Ministry for the Ecological and Solidary Transition (MTES) for the implementation of the Monitoring Program of the European Marine Strategy Framework Directive (MSFD), which also supported the ECOPEL-Manche cruises.

Description: 2020-09-17

Description: © The Author(s), 2019. This is the author's version of the work and is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Clark, S., Hubbard, K. A., Anderson, D. M., McGillicuddy, D. J.,Jr, Ralston, D. K., & Townsend, D. W. Pseudo-nitzschia bloom dynamics in the Gulf of Maine: 2012-2016. Harmful Algae, 88, (2019): 101656, doi:10.1016/j.hal.2019.101656.

Description: The toxic diatom genus Pseudo-nitzschia is a growing presence in the Gulf of Maine (GOM), where regionally unprecedented levels of domoic acid (DA) in 2016 led to the first Amnesic Shellfish Poisoning closures in the region. However, factors driving GOM Pseudo-nitzschia dynamics, DA concentrations, and the 2016 event are unclear. Water samples were collected at the surface and at depth in offshore transects in summer 2012, 2014, and 2015, and fall 2016, and a weekly time series of surface water samples was collected in 2013. Temperature and salinity data were obtained from NERACOOS buoys and measurements during sample collection. Samples were processed for particulate DA (pDA), dissolved nutrients (nitrate, ammonium, silicic acid, and phosphate), and cellular abundance. Species composition was estimated via Automated Ribosomal Intergenic Spacer Analysis (ARISA), a semi-quantitative DNA finger-printing tool. Pseudo-nitzschia biogeography was consistent in the years 2012, 2014, and 2015, with greater Pseudo-nitzschia cell abundance and P. plurisecta dominance in low-salinity inshore samples, and lower Pseudo-nitzschia cell abundance and P. delicatissima and P. seriata dominance in high-salinity offshore samples. During the 2016 event, pDA concentrations were an order of magnitude higher than in previous years, and inshore-offshore contrasts in biogeography were weak, with P. australis present in every sample. Patterns in temporal and spatial variability confirm that pDA increases with the abundance and the cellular DA of Pseudo-nitzschia species, but was not correlated with any one environmental factor. The greater pDA in 2016 was caused by P. australis – the observation of which is unprecedented in the region – and may have been exacerbated by low residual silicic acid. The novel presence of P. australis may be due to local growth conditions, the introduction of a population with an anomalous water mass, or both factors. A definitive cause of the 2016 bloom remains unknown, and continued DA monitoring in the GOM is warranted.

Description: This research was funded by the National Science Foundation (Grant Numbers OCE-1314642 and OCE-1840381), the National Institute of Environmental Health Sciences (Grant Numbers P01 ES021923-01 and P01 ES028938-01), the Woods Hole Center for Oceans and Human Health, the Academic Programs Office of the Woods Hole Oceanographic Institution, the National Oceanic and Atmospheric Administration's Ecology and Oceanography of HABs (ECOHAB) project (contribution number ECO947), and the National Oceanic and Atmospheric Administration’s HAB Event Response Program (Grant numbers NA06NOS4780245 and NA09NOS4780193). We thank Maura Thomas at the University of Maine for support with nutrient collection and analysis. We also thank Kohl Kanwit at the Maine Department of Marine Resources, Anna Farrell, Jane Disney, and Hannah Mogenson at the Mt. Desert Island Biological Laboratory, Steve Archer at Bigelow Laboratory for Ocean sciences, and Bruce Keafer at the Woods Hole Oceanographic Institution for their work collecting samples and data used in the study. We also thank Maya Robert, Christina Chadwick, Laura Markley, Stephanie Keller Abbe, Karen Henschen, Emily Olesin, Steven Bruzek, Sheila O'Dea, April Granholm, Leanne Flewelling, and Elizabeth Racicot at the Florida Fish and Wildlife Conservation Commission-Fish and Wildlife Research Institute for processing samples for DA, DNA-based analyses, and cellular abundance.[CG]

Description: Author Posting. © National Academy of Sciences, 2019. This article is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences 116(45), (2019): 22518-22525, doi:10.1073/pnas.1913714116.

Description: The Ganges–Brahmaputra (G-B) River system transports over a billion tons of sediment every year from the Himalayan Mountains to the Bay of Bengal and has built the world’s largest active sedimentary deposit, the Bengal Fan. High sedimentation rates drive exceptional organic matter preservation that represents a long-term sink for atmospheric CO2. While much attention has been paid to organic-rich fine sediments, coarse sediments have generally been overlooked as a locus of organic carbon (OC) burial. However, International Ocean Discovery Program Expedition 354 recently discovered abundant woody debris (millimeter- to centimeter-sized fragments) preserved within the coarse sediment layers of turbidite beds recovered from 6 marine drill sites along a transect across the Bengal Fan (∼8°N, ∼3,700-m water depth) with recovery spanning 19 My. Analysis of bulk wood and lignin finds mostly lowland origins of wood delivered episodically. In the last 5 My, export included C4 plants, implying that coarse woody, lowland export continued after C4 grassland expansion, albeit in reduced amounts. Substantial export of coarse woody debris in the last 1 My included one wood-rich deposit (∼0.05 Ma) that encompassed coniferous wood transported from the headwaters. In coarse layers, we found on average 0.16 weight % OC, which is half the typical biospheric OC content of sediments exported by the modern G-B Rivers. Wood burial estimates are hampered by poor drilling recovery of sands. However, high-magnitude, low-frequency wood export events are shown to be a key mechanism for C burial in turbidites.

Description: This work was funded by National Science Foundation Grants OCE-1401217 and COL-T354A55 to S.J.F. and OCE-1400805 to V.G. Graduate student participation in the project received support from University of Southern California Provost’s Fellowship to H.L. Samples were provided by the International Ocean Discovery Program. We are grateful for the efforts of the Expedition 354 Science Party, Carl Johnson, and Zongguang Liu. C.F.-L. and A.G. were supported by IODP-France. We thank Colin Osborne and Maria Vorontsova for helpful discussions.

Description: 2020-04-21

Description: Histone modifications such as methylation of key lysine residues play an important role in embryonic development in a variety of organisms such as of Pacific oysters, zebrafish and mice. The action of demethylase ("erasers") and methyltransferase ("writers") enzymes regulates precisely the methylation status of each lysine residue. However, despite fishes being very useful model organisms in medicine, evolution and ecotoxicology, most studies have focused on mammalian and plant model organisms, and mechanisms underlying regulation of histones are unknown in fish development outside of zebrafish. Here, putative histone lysine demethylases (Kdm) and methyltransferases (Kmt) were identified in an isogenic lineage of the self-fertilizing hermaphroditic vertebrate, the mangrove rivulus fish, Kryptolebias marmoratus. Evolutionary relationships with other animal demethylases and methyltransferases were examined, and expression patterns during embryonic development and in adult tissues were characterized. Twenty-five Kdm orthologues (Jarid2, Jmjd1c, Jmjd4, Jmjd6, Jmjd7, Jmjd8, Kdm1a, Kdm1b, Kdm2a, Kdm2b, Kdm3b, Kdm4a, Kdm4b, Kdm4c, Kdm5a, Kdm5b, Kdm5c, Kdm6a, Kdm6b, Kdm7a, Kdm8, Kdm9, UTY, Phf2 and Phf8) and forty-eight Kmt orthologues (Ezh1, Ezh2, Setd2, Nsd1, Nsd2, Nsd3, Ash1l, Kmt2e, Setd5, Prdm1, Prdm2, Prdm4, Prdm5, Prdm6, Prdm8, Prdm9, Prdm10, Prdm11, Prdm12, Prdm13, Prdm14, Prdm15, Prdm16, Setd3, Setd4, Setd6, Setd1a, Setd1b, Kmt2a, Kmt2b, Kmt2c, Kmt2d, Kmt5a, Kmt5b, Ehmt1, Ehmt2, Suv39h1, Setmar, Setdb1, Setdb2, Smyd1, Smyd2, Smyd3, Smyd4, Smyd5, Setd7, Setd9, Dot1l) were discovered. Expression patterns of both Kdm and Kmt were variable during embryonic development with a peak in gastrula stage and a reduction in later embryogenesis. Expression of both Kdm and Kmt was higher in male brains compared to hermaphrodite brains whereas specific expression patterns of Kdm and Kmt were observed in the hermaphrodite ovotestes and male testes, respectively. Putative histone demethylases (Kdm) and methyltransferases (Kmt) were for the first time characterized in a teleost besides zebrafish, the mangrove rivulus. Their domain conservation and expression profiles suggest that they might play important roles during development, gametogenesis and neurogenesis, which raises questions about epigenetic regulation of these processes by histone lysine methylation in K. marmoratus. Due to its peculiar mode of reproduction and the natural occurrence of isogenic lineages, this new model species is of great interest for understanding epigenetic contributions to the regulation of development and reproduction.

Description: During gametogenesis and embryonic development, precise regulation of gene expression, across cell/tissue types and over time, is crucial. In vertebrates, transcription is partly regulated by histone lysine acetylation/ deacetylation, an epigenetic mechanism mediated by lysine acetyltransferases (KAT) and histone deacetylases (HDAC). Well characterized in mammals, these enzymes are unknown in fish embryology outside of zebrafish development. Here, we characterized putative KAT and HDAC enzymes in the self-fertilizing mangrove rivulus fish, Kryptolebias marmoratus, a species that naturally self-fertilizes and can produce isogenic lineages. This unique feature provides an opportunity to elucidate the role of epigenetic mechanisms as a source of phenotypic plasticity. In this study, twenty-seven KAT and seventeen HDAC genes have been identified. Their conserved domains and their phylogenetic analysis suggest conservation of the enzymes' activity in our species, relative to other vertebrates in which the enzymes have been characterized. Furthermore, the dynamics of KAT and HDAC mRNA expression during embryogenesis, in adult gonads and brains, argues for a putative biological function in early and late development as well as in male/hermaphrodite gametogenesis and adult neurogenesis. Our study aimed to provide a basis about the epigenetic actors putatively regulating histone acetylation in a self-fertilizing fish, the mangrove rivulus. Unique among vertebrates, the great number of isogenic lineages occurring naturally in this species allows exploring the contribution of the enzymes regulating histone acetylation only to reproduction and development in teleost fishes, which are very powerful models in fundamental and applied researches that include aquaculture, ecotoxicology, behaviour, evolution, sexual determinism and human diseases.

Description: The Beagle Channel is a remote subantarctic environment where mussel aquaculture initiatives have existed since the early 1990s. Here we analyze phytoplankton biomass and composition, and the occurrence of harmful microalgae species and their toxins at three sites during the period 2015–2016. The occurrence of potentially harmful algae was observed throughout the study period, including toxigenic dinoflagellates such as Alexandrium catenella (Group I of the A. tamarense complex), A. ostenfeldii, Dinophysis acuminata, Gonyaulax spinifera, Azadinium sp., and the diatoms Pseudo-nitzschia australis and P. fraudulenta. Toxic dinoflagellates were detected in low densities whereas a Pseudo-nitzschia bloom was observed in late February. Isolates of A. catenella and P. delicatissima sensu stricto were phylogenetically characterized. The toxin profile of A. catenella was dominated by GTX4, while P. delicatissima sensu stricto showed no production of the neurotoxin domoic acid in culture conditions. The results provide base-line information for the management of harmful algal blooms in this little explored subantarctic area.

Description: Bacteria are surrounded by a protective exoskeleton, peptidoglycan (PG), a cross-linked mesh-like macromolecule consisting of glycan strands interlinked by short peptides. Because PG completely encases the cytoplasmic membrane, cleavage of peptide cross-links is a prerequisite to make space for incorporation of nascent glycan strands for its successful expansion during cell growth. In most bacteria, the peptides consist of l-alanine, d-glutamate, meso-diaminopimelic acid (mDAP) and d-alanine (d-Ala) with cross-links occurring either between d-Ala and mDAP or two mDAP residues. In Escherichia coli, the d-Ala−mDAP cross-links whose cleavage by specialized endopeptidases is crucial for expansion of PG predominate. However, a small proportion of mDAP−mDAP cross-links also exist, yet their role in the context of PG expansion or the hydrolase(s) capable of catalyzing their cleavage is not known. Here, we identified an ORF of unknown function, YcbK (renamed MepK), as an mDAP−mDAP cross-link cleaving endopeptidase working in conjunction with other elongation-specific endopeptidases to make space for efficient incorporation of nascent PG strands into the sacculus. E. coli mutants lacking mepK and another d-Ala−mDAP–specific endopeptidase (mepS) were synthetic sick, and the defects were abrogated by lack of l,d-transpeptidases, enzymes catalyzing the formation of mDAP cross-links. Purified MepK was able to cleave the mDAP cross-links of soluble muropeptides and of intact PG sacculi. Overall, this study describes a PG hydrolytic enzyme with a hitherto unknown substrate specificity that contributes to expansion of the PG sacculus, emphasizing the fundamental importance of cross-link cleavage in bacterial peptidoglycan synthesis.

Description: As monofacial, single-junction solar cells approach their fundamental limits, there has been significant interest in tandem solar cells in the presence of concentrated sunlight or tandem bifacial solar cells with back-reflected albedo. The bandgap sequence and thermodynamic efficiency limits of these complex cell configurations require sophisticated numerical calculation. Therefore, the analyses of specialized cases are scattered throughout the literature. In this paper, we show that a powerful graphical approach called the normalized “Shockley–Queisser (S-Q) triangle” (i.e., imp=1−vmp) is sufficient to calculate the bandgap sequence and efficiency limits of arbitrarily complex photovoltaic (PV) topologies. The results are validated against a wide variety of specialized cases reported in the literature and are accurate within a few percent. We anticipate that the widespread use of the S-Q triangle will illuminate the deeper physical principles and design trade-offs involved in the design of bifacial tandem solar cells under arbitrary concentration and series resistance.

Description: Previous studies have shown that insulin and IGF-1 signaling in the brain, especially the hypothalamus, is important for regulation of systemic metabolism. Here, we develop mice in which we have specifically inactivated both insulin receptors (IRs) and IGF-1 receptors (IGF1Rs) in the hippocampus (Hippo-DKO) or central amygdala (CeA-DKO) by stereotaxic delivery of AAV-Cre into IRlox/lox/IGF1Rlox/loxmice. Consequently, both Hippo-DKO and CeA-DKO mice have decreased levels of the GluA1 subunit of glutamate AMPA receptor and display increased anxiety-like behavior, impaired cognition, and metabolic abnormalities, including glucose intolerance. Hippo-DKO mice also display abnormal spatial learning and memory whereas CeA-DKO mice have impaired cold-induced thermogenesis. Thus, insulin/IGF-1 signaling has common roles in the hippocampus and central amygdala, affecting synaptic function, systemic glucose homeostasis, behavior, and cognition. In addition, in the hippocampus, insulin/IGF-1 signaling is important for spatial learning and memory whereas insulin/IGF-1 signaling in the central amygdala controls thermogenesis via regulation of neural circuits innervating interscapular brown adipose tissue.

Description: The sunflower family, Asteraceae, comprises 10% of all flowering plant species and displays an incredible diversity of form. Asteraceae are clearly monophyletic, yet resolving phylogenetic relationships within the family has proven difficult, hindering our ability to understand its origin and diversification. Recent molecular clock dating has suggested a Cretaceous origin, but the lack of deep sampling of many genes and representative taxa from across the family has impeded the resolution of migration routes and diversifications that led to its global distribution and tremendous diversity. Here we use genomic data from 256 terminals to estimate evolutionary relationships, timing of diversification(s), and biogeographic patterns. Our study places the origin of Asteraceae at ∼83 MYA in the late Cretaceous and reveals that the family underwent a series of explosive radiations during the Eocene which were accompanied by accelerations in diversification rates. The lineages that gave rise to nearly 95% of extant species originated and began diversifying during the middle Eocene, coincident with the ensuing marked cooling during this period. Phylogenetic and biogeographic analyses support a South American origin of the family with subsequent dispersals into North America and then to Asia and Africa, later followed by multiple worldwide dispersals in many directions. The rapid mid-Eocene diversification is aligned with the biogeographic range shift to Africa where many of the modern-day tribes appear to have originated. Our robust phylogeny provides a framework for future studies aimed at understanding the role of the macroevolutionary patterns and processes that generated the enormous species diversity of Asteraceae.

Description: There is a gap between how many scientists communicate and how most people understand and interpret messages. This article argues that the extensive science communications literature needs to be joined by the health literacy literature and anthropological work on cultural variations in hearing and understanding messages. Rapid changes and differences in how people in the United States get information are also discussed. Better understanding of how people get and perceive messages, and how access to information and to health services affects their behavior, should be an iterative and interdisciplinary effort. Community involvement in developing communication strategies is strongly encouraged.

Description: Distantly related species entering similar biological niches often adapt by evolving similar morphological and physiological characters. How much genomic molecular convergence (particularly of highly constrained coding sequence) contributes to convergent phenotypic evolution, such as echolocation in bats and whales, is a long-standing fundamental question. Like others, we find that convergent amino acid substitutions are not more abundant in echolocating mammals compared to their outgroups. However, we also ask a more informative question about the genomic distribution of convergent substitutions by devising a test to determine which, if any, of more than 4,000 tissue-affecting gene sets is most statistically enriched with convergent substitutions. We find that the gene set most overrepresented (q-value = 2.2e-3) with convergent substitutions in echolocators, affecting 18 genes, regulates development of the cochlear ganglion, a structure with empirically supported relevance to echolocation. Conversely, when comparing to nonecholocating outgroups, no significant gene set enrichment exists. For aquatic and high-altitude mammals, our analysis highlights 15 and 16 genes from the gene sets most affected by molecular convergence which regulate skin and lung physiology, respectively. Importantly, our test requires that the most convergence-enriched set cannot also be enriched for divergent substitutions, such as in the pattern produced by inactivated vision genes in subterranean mammals. Showing a clear role for adaptive protein-coding molecular convergence, we discover nearly 2,600 convergent positions, highlight 77 of them in 3 organs, and provide code to investigate other clades across the tree of life.

Description: Cilia, the hair-like protrusions that beat at high frequencies to propel a cell or move fluid around are composed of radially bundled doublet microtubules. In this study, we present a near-atomic resolution map of the Tetrahymena doublet microtubule by cryoelectron microscopy. The map demonstrates that the network of microtubule inner proteins weaves into the tubulin lattice and forms an inner sheath. From mass spectrometry data and de novo modeling, we identified Rib43a proteins as the filamentous microtubule inner proteins in the protofilament ribbon region. The Rib43a–tubulin interaction leads to an elongated tubulin dimer distance every 2 dimers. In addition, the tubulin lattice structure with missing microtubule inner proteins (MIPs) by sarkosyl treatment shows significant longitudinal compaction and lateral angle change between protofilaments. These results are evidence that the MIPs directly affect and stabilize the tubulin lattice. It suggests that the doublet microtubule is an intrinsically stressed filament and that this stress could be manipulated in the regulation of ciliary waveforms.

Description: Aberrant MYC oncogene activation is one of the most prevalent characteristics of cancer. By overlapping datasets of Drosophila genes that are insulin-responsive and also regulate nucleolus size, we enriched for Myc target genes required for cellular biosynthesis. Among these, we identified the aminoacyl tRNA synthetases (aaRSs) as essential mediators of Myc growth control in Drosophila and found that their pharmacologic inhibition is sufficient to kill MYC-overexpressing human cells, indicating that aaRS inhibitors might be used to selectively target MYC-driven cancers. We suggest a general principle in which oncogenic increases in cellular biosynthesis sensitize cells to disruption of protein homeostasis.

Description: Organic electrosynthesis can transform the chemical industry by introducing electricity-driven processes that are more energy efficient and that can be easily integrated with renewable energy sources. However, their deployment is severely hindered by the difficulties of controlling selectivity and achieving a large energy conversion efficiency at high current density due to the low solubility of organic reactants in practical electrolytes. This control can be improved by carefully balancing the mass transport processes and electrocatalytic reaction rates at the electrode diffusion layer through pulsed electrochemical methods. In this study, we explore these methods in the context of the electrosynthesis of adiponitrile (ADN), the largest organic electrochemical process in industry. Systematically exploring voltage pulses in the timescale between 5 and 150 ms led to a 20% increase in production of ADN and a 250% increase in relative selectivity with respect to the state-of-the-art constant voltage process. Moreover, combining this systematic experimental investigation with artificial intelligence (AI) tools allowed us to rapidly discover drastically improved electrosynthetic conditions, reaching improvements of 30 and 325% in ADN production rates and selectivity, respectively. This powerful AI-enhanced experimental approach represents a paradigm shift in the design of electrified chemical transformations, which can accelerate the deployment of more sustainable electrochemical manufacturing processes.

Description: In most environments, the visual system is confronted with many relevant objects simultaneously. That is especially true during reading. However, behavioral data demonstrate that a serial bottleneck prevents recognition of more than one word at a time. We used fMRI to investigate how parallel spatial channels of visual processing converge into a serial bottleneck for word recognition. Participants viewed pairs of words presented simultaneously. We found that retinotopic cortex processed the two words in parallel spatial channels, one in each contralateral hemisphere. Responses were higher for attended than for ignored words but were not reduced when attention was divided. We then analyzed two word-selective regions along the occipitotemporal sulcus (OTS) of both hemispheres (subregions of the visual word form area, VWFA). Unlike retinotopic regions, each word-selective region responded to words on both sides of fixation. Nonetheless, a single region in the left hemisphere (posterior OTS) contained spatial channels for both hemifields that were independently modulated by selective attention. Thus, the left posterior VWFA supports parallel processing of multiple words. In contrast, activity in a more anterior word-selective region in the left hemisphere (mid OTS) was consistent with a single channel, showing (i) limited spatial selectivity, (ii) no effect of spatial attention on mean response amplitudes, and (iii) sensitivity to lexical properties of only one attended word. Therefore, the visual system can process two words in parallel up to a late stage in the ventral stream. The transition to a single channel is consistent with the observed bottleneck in behavior.

Description: Genomic analyses of patients with congenital heart disease (CHD) have identified significant contribution from mutations affecting cilia genes and chromatin remodeling genes; however, the mechanism(s) connecting chromatin remodeling to CHD is unknown. Histone H2B monoubiquitination (H2Bub1) is catalyzed by the RNF20 complex consisting of RNF20, RNF40, and UBE2B. Here, we show significant enrichment of loss-of-function mutations affecting H2Bub1 in CHD patients (enrichment 6.01,P= 1.67 × 10−03), some of whom had abnormal laterality associated with ciliary dysfunction. InXenopus, knockdown ofrnf20andrnf40results in abnormal heart looping, defective development of left–right (LR) asymmetry, and impaired cilia motility. Rnf20, Rnf40, and Ube2b affect LR patterning and cilia synergistically. Examination of global H2Bub1 level inXenopusembryos shows that H2Bub1 is developmentally regulated and requires Rnf20. To examine gene-specific H2Bub1, we performed ChIP-seq of mouse ciliated and nonciliated tissues and showed tissue-specific H2Bub1 marks significantly enriched at cilia genes including the transcription factorRfx3. Rnf20 knockdown results in decreased levels ofrfx3mRNA inXenopus, and exogenousrfx3can rescue the Rnf20 depletion phenotype. These data suggest that Rnf20 functions at theRfx3locus regulating cilia motility and cardiac situs and identify H2Bub1 as an upstream transcriptional regulator controlling tissue-specific expression of cilia genes. Our findings mechanistically link the two functional gene ontologies that have been implicated in human CHD: chromatin remodeling and cilia function.

Description: Plasticity theory aims at describing the yield loci and work hardening of a material under general deformation states. Most of its complexity arises from the nontrivial dependence of the yield loci on the complete strain history of a material and its microstructure. This motivated 3 ingenious simplifications that underpinned a century of developments in this field: 1) yield criteria describing yield loci location; 2) associative or nonassociative flow rules defining the direction of plastic flow; and 3) effective stress–strain laws consistent with the plastic work equivalence principle. However, 2 key complications arise from these simplifications. First, finding equations that describe these 3 assumptions for materials with complex microstructures is not trivial. Second, yield surface evolution needs to be traced iteratively, i.e., through a return mapping algorithm. Here, we show that these assumptions are not needed in the context of sequence learning when using recurrent neural networks, diverting the above-mentioned complications. This work offers an alternative to currently established plasticity formulations by providing the foundations for finding history- and microstructure-dependent constitutive models through deep learning.

Description: Two-dimensional monolayer materials, with thicknesses of up to several atoms, can be obtained from almost every layer-structured material. It is believed that the catalogs of known 2D materials are almost complete, with fewer new graphene-like materials being discovered. Here, we report 2D graphene-like monolayers from monoxides such as BeO, MgO, CaO, SrO, BaO, and rock-salt structured monochlorides such as LiCl, and NaCl using first-principle calculations. Two-dimensional materials containing d-orbital atoms such as HfO, CdO, and AgCl are predicted. Adopting the same strategy, 2D graphene-like monolayers from mononitrides such as scandium nitride (ScN) and monoselenides such as cadmium selenide (CdSe) are discovered. Stress engineering is found to help stabilize 2D monolayers, through canceling the imaginary frequency of phonon dispersion relation. These 2D monolayers show high dynamic, thermal, kinetic, and mechanic stabilities due to atomic hybridization, and electronic delocalization.

Description: Materials that can be switched between low and high thermal conductivity states would advance the control and conversion of thermal energy. Employing in situ time-domain thermoreflectance (TDTR) and in situ synchrotron X-ray scattering, we report a reversible, light-responsive azobenzene polymer that switches between high (0.35 W m−1K−1) and low thermal conductivity (0.10 W m−1K−1) states. This threefold change in the thermal conductivity is achieved by modulation of chain alignment resulted from the conformational transition between planar (trans) and nonplanar (cis) azobenzene groups under UV and green light illumination. This conformational transition leads to changes in the π-π stacking geometry and drives the crystal-to-liquid transition, which is fully reversible and occurs on a time scale of tens of seconds at room temperature. This result demonstrates an effective control of the thermophysical properties of polymers by modulating interchain π-π networks by light.

Description: The Hippo pathway is involved in regulating contact inhibition of proliferation and organ size control and responds to various physical and biochemical stimuli. It is a kinase cascade that negatively regulates the activity of cotranscription factors YAP and TAZ, which interact with DNA binding transcription factors including TEAD and activate the expression of target genes. In this study, we show that the palmitoylation of TEAD, which controls the activity and stability of TEAD proteins, is actively regulated by cell density independent of Lats, the key kinase of the Hippo pathway. The expression of fatty acid synthase and acetyl-CoA carboxylase involved in de novo biosynthesis of palmitate is reduced by cell density in an Nf2/Merlin-dependent manner. Depalmitoylation of TEAD is mediated by depalmitoylases including APT2 and ABHD17A. Palmitoylation-deficient TEAD4 mutant is unstable and degraded by proteasome through the activity of the E3 ubiquitin ligase CHIP. These findings show that TEAD activity is tightly controlled through the regulation of palmitoylation and stability via the orchestration of FASN, depalmitoylases, and E3 ubiquitin ligase in response to cell contact.

Description: Foraging is a goal-directed behavior that balances the need to explore the environment for resources with the need to exploit those resources. InDrosophila melanogaster, distinct phenotypes have been observed in relation to theforaginggene (for), labeled the rover and sitter. Adult rovers explore their environs more extensively than do adult sitters. We explored whether this distinction would be conserved in humans. We made use of a distinction from regulatory mode theory between those who “get on with it,” so-called locomotors, and those who prefer to ensure they “do the right thing,” so-called assessors. In this logic, rovers and locomotors share similarities in goal pursuit, as do sitters and assessors. We showed that genetic variation inPRKG1, the human ortholog offor, is associated with preferential adoption of a specific regulatory mode. Next, participants performed a foraging task to see whether genetic differences associated with distinct regulatory modes would be associated with distinct goal pursuit patterns. Assessors tended to hug the boundary of the foraging environment, much like behaviors seen inDrosophilaadult sitters. In a patchy foraging environment, assessors adopted more cautious search strategies maximizing exploitation. These results show that distinct patterns of goal pursuit are associated with particular genotypes ofPRKG1, the human ortholog offor.

Description: Mutational signatures can reveal properties of underlying mutational processes and are important when assessing signals of selection in cancer. Here, we describe the sequence characteristics of mutations induced by ultraviolet (UV) light, a major mutagen in several human cancers, in terms of extended (longer than trinucleotide) patterns as well as variability of the signature across chromatin states. Promoter regions display a distinct UV signature with reduced TCG 〉 TTG transitions, and genome-wide mapping of UVB-induced DNA photoproducts (pyrimidine dimers) showed that this may be explained by decreased damage formation at hypomethylated promoter CpG sites. Further, an extended signature model encompassing additional information from longer contextual patterns improves modeling of UV mutations, which may enhance discrimination between drivers and passenger events. Our study presents a refined picture of the UV signature and underscores that the characteristics of a single mutational process may vary across the genome.

Description: Drugs that reverse epigenetic silencing, such as the DNA methyltransferase inhibitor (DNMTi) 5-azacytidine (AZA), have profound effects on transcription and tumor cell survival. AZA is an approved drug for myelodysplastic syndromes and acute myeloid leukemia, and is under investigation for different solid malignant tumors. AZA treatment generates self, double-stranded RNA (dsRNA), transcribed from hypomethylated repetitive elements. Self dsRNA accumulation in DNMTi-treated cells leads to type I IFN production and IFN-stimulated gene expression. Here we report that cell death in response to AZA treatment occurs through the 2′,5′-oligoadenylate synthetase (OAS)-RNase L pathway. OASs are IFN-induced enzymes that synthesize the RNase L activator 2-5A in response to dsRNA. Cells deficient in RNase L or OAS1 to 3 are highly resistant to AZA, as are wild-type cells treated with a small-molecule inhibitor of RNase L. A small-molecule inhibitor of c-Jun NH2-terminal kinases (JNKs) also antagonizes RNase L-dependent cell death in response to AZA, consistent with a role for JNK in RNase L-induced apoptosis. In contrast, the rates of AZA-induced and RNase L-dependent cell death were increased by transfection of 2-5A, by deficiencies in ADAR1 (which edits and destabilizes dsRNA), PDE12 or AKAP7 (which degrade 2-5A), or by ionizing radiation (which induces IFN-dependent signaling). Finally, OAS1 expression correlates with AZA sensitivity in the NCI-60 set of tumor cell lines, suggesting that the level of OAS1 can be a biomarker for predicting AZA sensitivity of tumor cells. These studies may eventually lead to pharmacologic strategies for regulating the antitumor activity and toxicity of AZA and related drugs.

Description: Analyses of thermal diffusivity data on complex insulators and on strongly correlated electron systems hosted in similar complex crystal structures suggest that quantum chaos is a good description for thermalization processes in these systems, particularly in the high-temperature regime where the many phonon bands and their interactions dominate the thermal transport. Here we observe that for these systems diffusive thermal transport is controlled by a universal Planckian timescale τ∼ℏ/kBT and a unique velocity vE. Specifically, vE≈vph for complex insulators, and vph≲vE≪vF in the presence of strongly correlated itinerant electrons (vph and vF are the phonon and electron velocities, respectively). For the complex correlated electron systems we further show that charge diffusivity, while also reaching the Planckian relaxation bound, is largely dominated by the Fermi velocity of the electrons, hence suggesting that it is only the thermal (energy) diffusivity that describes chaos diffusivity.

Description: SalmonellaTyphimurium can invade and survive within macrophages where the bacterium encounters a range of host environmental conditions. Like many bacteria,S.Typhimurium rapidly responds to changing environments by the use of second messengers such as cyclic di-GMP (c-di-GMP). Here, we generate a fluorescent biosensor to measure c-di-GMP concentrations in thousands of individual bacteria during macrophage infection and to define the sensor enzymes important to c-di-GMP regulation. Three sensor phosphodiesterases were identified as critical to maintaining low c-di-GMP concentrations generated after initial phagocytosis by macrophages. Maintenance of low c-di-GMP concentrations by these phosphodiesterases was required to promote survival within macrophages and virulence for mice. Attenuation ofS. Typhimurium virulence was due to overproduction of c-di-GMP−regulated cellulose, as deletion of the cellulose synthase machinery restored virulence to a strain lacking enzymatic activity of the three phosphodiesterases. We further identified that the cellulose-mediated reduction in survival was constrained to a slow-replicating persister population ofS.Typhimurium induced within the macrophage intracellular environment. As utilization of glucose has been shown to be required forS.Typhimurium macrophage survival, one possible hypothesis is that this persister population requires the glucose redirected to the synthesis of cellulose to maintain a slow-replicating, metabolically active state.

Description: IgA is the most abundantly produced antibody in the body and plays a crucial role in gut homeostasis and mucosal immunity. IgA forms a dimer that covalently associates with the joining (J) chain, which is essential for IgA transport into the mucosa. Here, we demonstrate that the marginal zone B and B-1 cell-specific protein (MZB1) interacts with IgA through the α-heavy-chain tailpiece dependent on the penultimate cysteine residue and prevents the intracellular degradation of α-light-chain complexes. Moreover, MZB1 promotes J-chain binding to IgA and the secretion of dimeric IgA. MZB1-deficient mice are impaired in secreting large amounts of IgA into the gut in response to acute inflammation and develop severe colitis. Oral administration of a monoclonal IgA significantly ameliorated the colitis, accompanied by normalization of the gut microbiota composition. The present study identifies a molecular chaperone that promotes J-chain binding to IgA and reveals an important mechanism that controls the quantity, quality, and function of IgA.

Description: Raindrop impact on infected plants can disperse micron-sized propagules of plant pathogens (e.g., spores of fungi). Little is known about the mechanism of how plant pathogens are liberated and transported due to raindrop impact. We used high-speed photography to observe thousands of dry-dispersed spores of the rust fungus Puccinia triticina being liberated from infected wheat plants following the impact of a single raindrop. We revealed that an air vortex ring was formed during the raindrop impact and carried the dry-dispersed spores away from the surface of the host plant. The maximum height and travel distance of the airborne spores increased with the aid of the air vortex. This unique mechanism of vortex-induced dispersal dynamics was characterized to predict trajectories of spores. Finally, we found that the spores transported by the air vortex can reach beyond the laminar boundary layer of leaves, which would enable the long-distance transport of plant pathogens through the atmosphere.

Description: The avian predentary is a small skeletal structure located rostral to the paired dentaries found only in Mesozoic ornithuromorphs. The evolution and function of this enigmatic element is unknown. Skeletal tissues forming the predentary and the lower jaws in the basal ornithuromorph Yanornis martini are identified using computed-tomography, scanning electron microscopy, and histology. On the basis of these data, we propose hypotheses for the development, structure, and function of this element. The predentary is composed of trabecular bone. The convex caudal surface articulates with rostromedial concavities on the dentaries. These articular surfaces are covered by cartilage, which on the dentaries is divided into 3 discrete patches: 1 rostral articular cartilage and 2 symphyseal cartilages. The mechanobiology of avian cartilage suggests both compression and kinesis were present at the predentary–dentary joint, therefore suggesting a yet unknown form of avian cranial kinesis. Ontogenetic processes of skeletal formation occurring within extant taxa do not suggest the predentary originates within the dentaries, nor Meckel’s cartilage. We hypothesize that the predentary is a biomechanically induced sesamoid that arose within the soft connective tissues located rostral to the dentaries. The mandibular canal hosting the alveolar nerve suggests that the dentary teeth and predentary of Yanornis were proprioceptive. This whole system may have increased foraging efficiency. The Mesozoic avian predentary apparently coevolved with an edentulous portion of the premaxilla, representing a unique kinetic morphotype that combined teeth with a small functional beak and persisted successfully for ∼60 million years.

Description: Human feet have evolved to facilitate bipedal locomotion, losing an opposable digit that grasped branches in favor of a longitudinal arch (LA) that stiffens the foot and aids bipedal gait. Passive elastic structures are credited with supporting the LA, but recent evidence suggests that plantar intrinsic muscles (PIMs) within the foot actively contribute to foot stiffness. To test the functional significance of the PIMs, we compared foot and lower limb mechanics with and without a tibial nerve block that prevented contraction of these muscles. Comparisons were made during controlled limb loading, walking, and running in healthy humans. An inability to activate the PIMs caused slightly greater compression of the LA when controlled loads were applied to the lower limb by a linear actuator. However, when greater loads were experienced during ground contact in walking and running, the stiffness of the LA was not altered by the block, indicating that the PIMs’ contribution to LA stiffness is minimal, probably because of their small size. With the PIMs blocked, the distal joints of the foot could not be stiffened sufficiently to provide normal push-off against the ground during late stance. This led to an increase in stride rate and compensatory power generated by the hip musculature, but no increase in the metabolic cost of transport. The results reveal that the PIMs have a minimal effect on the stiffness of the LA when absorbing high loads, but help stiffen the distal foot to aid push-off against the ground when walking or running bipedally.