ALBERT

Description: The Pollino range is a region of slow deformation where earthquakes generally nucleate on low-angle normal faults. Recent studies have mapped fault structures and identified fluid related dynamics responsible for historical and recent seismicity in the area. Here, we apply the coda-normalization method at multiple frequencies and scales to image the 3-D P-wave attenuation (QP) properties of its slowly deforming fault network. The wide-scale average attenuation properties of the Pollino range are typical for a stable continental block, with a dependence of QP on frequency of Q−1 P = (0.0011   0.0008) f (0.36 0.32). Using only waveforms comprised in the area of seismic swarms, the dependence of attenuation on frequency increases [Q−1 P = (0.0373   0.0011) f (−0.59 0.01)], as expected when targeting seismically active faults. A shallow very-low-attenuation anomaly (max depth of 4–5 km) caps the seismicity recorded within the western cluster 1 of the Pollino seismic sequence (2012, maximum magnitude Mw = 5.1). High-attenuation volumes below this anomaly are likely related to fluid storage and comprise the western and northern portions of cluster 1 and the Mercure basin. These anomalies are constrained to the NW by a sharp low-attenuation interface, corresponding to the transition towards the eastern unit of the Apennine Platform under the Lauria mountains. The low-seismicity volume between cluster 1 and cluster 2 (maximum magnitude Mw = 4.3, east of the primary) shows diffuse low-to-average attenuation features. There is no clear indication of fluid-filled pathways between the two clusters resolvable at our resolution. In this volume, the attenuation values are anyway lower than in recognized low-attenuation blocks, like the Lauria Mountain and Pollino Range. As the volume develops in a region marked at surface by small-scale cross-faulting, it suggests no actual barrier between clusters, more likely a system of small locked fault patches that can break in the future. Our model loses resolution at depth, but it can still resolve a 5-to-15-km-deep high-attenuation anomaly that underlies the Castrovillari basin. This anomaly is an ideal deep source for the SE-to-NW migration of historical seismicity. Our novel deep structural maps support the hypothesis that the Pollino sequence has been caused by a mechanism of deep and lateral fluid-induced migration.

Description: Natural Environment Research Council (NERC) Centre for Doctoral Training (CDT) in Oil and Gas. University of Aberdeen.

Description: Published

Description: 536–547

Description: 4T. Sismicità dell'Italia

Description: JCR Journal

Description: © The Author(s), 2022. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Page, H. N., Bahr, K. D., Cyronak, T., Jewett, E. B., Johnson, M. D., & McCoy, S. J. Responses of benthic calcifying algae to ocean acidification differ between laboratory and field settings. Ices Journal of Marine Science, 79(1), (2022): 1–11, https://doi.org/10.1093/icesjms/fsab232.

Description: Accurately predicting the effects of ocean and coastal acidification on marine ecosystems requires understanding how responses scale from laboratory experiments to the natural world. Using benthic calcifying macroalgae as a model system, we performed a semi-quantitative synthesis to compare directional responses between laboratory experiments and field studies. Variability in ecological, spatial, and temporal scales across studies, and the disparity in the number of responses documented in laboratory and field settings, make direct comparisons difficult. Despite these differences, some responses, including community-level measurements, were consistent across laboratory and field studies. However, there were also mismatches in the directionality of many responses with more negative acidification impacts reported in laboratory experiments. Recommendations to improve our ability to scale responses include: (i) developing novel approaches to allow measurements of the same responses in laboratory and field settings, and (ii) researching understudied calcifying benthic macroalgal species and responses. Incorporating these guidelines into research programs will yield data more suitable for robust meta-analyses and will facilitate the development of ecosystem models that incorporate proper scaling of organismal responses to in situ acidification. This, in turn, will allow for more accurate predictions of future changes in ecosystem health and function in a rapidly changing natural climate.

Description: We would like to thank the Ocean Carbon and Biogeochemistry Program for organizing the fourth U.S. Ocean Acidification Principal Investigators meeting, which is where this synthesis was conceived. HNP was a postdoctoral research fellow at Mote Marine Laboratory. MDJ is a postdoctoral scholar at Woods Hole Oceanographic Institution. SJM is a Norma J. Lang early career fellow of the Phycological Society of America.

Description: In this paper we simulate the earthquake that hit the city of L'Aquila on the 6th of April 2009 using SPEED (SPectral Elements in Elastodynamics with Discontinuous Galerkin), an open-source code able to simulate the propagation of seismic waves in complex three-dimensional (3D) domains. Our model includes an accurate 3D recon- struction of the Quaternary deposits, according to the most up-to-date data obtained from the Microzonation studies in Central Italy and a detailed model of the topography incorporated using a newly developed tool (May et al. 2021). The sensitivity of our results with respect to dfferent kinematic seismic sources is inves- tigated. The results obtained are in good agreement with the recordings at the available seismic stations at epicentral distances within a range of 20km. Finally, a blind source prediction scenario application shows a reasonably good agreement between simulations and recordings can be obtained by simulating stochastic rupture realizations with basic input data. These results, although limited to nine simulated scenarios, demonstrate that it is possible to obtain a satisfactory reconstruction of a ground shaking scenario employing a stochastic source constrained on a limited amount of ex-ante information. A similar approach can be used to model future and past earthquakes for which little or no information is typically available, with potential relevant implications for seismic risk assessment.

Description: Published

Description: 29–49

Description: 3T. Fisica dei terremoti e Sorgente Sismica

Description: JCR Journal

Description: This article has been accepted for publication in Geophysical Journal International ©: The Authors 2022. Published by Oxford University Press on behalf of the Royal Astronomical Society. All rights reserved. Uploaded in accordance with the publisher's self-archiving policy.

Description: On 29 December 2020, a shallow earthquake of magnitude Mw 6.4 struck northern Croatia, near the town of Petrinja, more than 24 hours after a strong foreshock (Ml 5). We formed a reconnaissance team of European geologists and engineers, from Croatia, Slovenia, France, Italy and Greece, rapidly deployed in the field to map the evidence of coseismic environmental effects. In the epicentral area, we recognized surface deformation, such as tectonic breaks along the earthquake source at the surface, liquefaction features (scattered in the fluvial plains of Kupa, Glina and Sava rivers), and slope failures, both caused by strong motion. Thanks to this concerted, collective and meticulous work, we were able to document and map a clear and unambiguous coseismic surface rupture associated with the main shock. The surface rupture appears discontinuous, consisting of multi-kilometer en échelon right stepping sections, along a NW-SE striking fault that we call the Petrinja-Pokupsko Fault (PPKF). The observed deformation features, in terms of kinematics and trace alignments, are consistent with slip on a right lateral fault, in agreement with the focal solution of the main shock. We found mole tracks, displacement on faults affecting natural features (e. g. drainage channels), scarplets, and more frequently breaks of anthropogenic markers (roads, fences). The surface rupture is observed over a length of ∼13 km from end-to-end, with a maximum displacement of 38 cm, and an average displacement of ∼10 cm. Moreover, the liquefaction extends over an area of nearly 600 km² around the epicenter. Typology of liquefaction features include sand blows, lateral spreading phenomenon along the road and river embankments, as well as sand ejecta of different grain size and matrix. Development of large and long fissures along the fluvial landforms, current or ancient, with massive ejections of sediments is pervasive. These features are sometimes accompanied by small horizontal displacements. Finally, the environmental effects of the earthquake appear to be reasonably consistent with the usual scaling relationships, in particular the surface faulting. This rupture of the ground occurred on or near traces of a fault that shows clear evidence of Quaternary activity. Further and detailed studies will be carried out to characterize this source and related faults in terms of future large earthquakes potential, for their integration into seismic hazard models.

Description: Published

Description: 1394–1418

Description: 2T. Deformazione crostale attiva

Description: JCR Journal

Description: In the last years the scientific literature has been enriched with new models of the Moho depth in the Antarctica Continent derived by the seismic reflection technique and refraction profiles, receiver functions and seismic surface waves, but also by gravimetric observations over the continent. In particular, the gravity satellite missions of the last two decades have provided data in this remote region of the Earth and have allowed the investigation of the crust properties. Meanwhile, other important contributions in this direction has been given by the fourth International Polar Year (IPY, 2007–2008) which started seismographic and geodetic networks of unprecedented duration and scale, including airborne gravimetry over largely unexplored Antarctic frontiers. In this study, a new model for the Antarctica Moho depths is proposed. This new estimation is based on no satellite gravity measures, thanks to the availability of the gravity database ANTGG2015, that collects gravity data from ground-base, airborne and shipborne campaigns. In this new estimate of the Moho depths the contribution of the gravity measures has been maximized reducing any correction of the gravity measures and avoiding constraints of the solution to seismological observations and to geological evidence. With this approach a pure gravimetric solution has been determined. The model obtained is pretty in agreement with other Moho models and thanks to the use of independent data it can be exploited also for cross-validating different Moho depths solutions.

Description: Published

Description: 1404–1420

Description: 1T. Struttura della Terra

Description: JCR Journal

Description: Seismic reflection and refraction data were collected in 2007 and 2012 to reveal the crustal fabric on a single long composite profile offshore Prydz Bay, East Antarctica. A P-wave velocity model provides insights on the crustal fabric, and a gravity-constrained density model is used to describe the crustal and mantle structure. The models show that a 230-km- wide continent–ocean transition separates stretched continental from oceanic crust along our profile. While the oceanic crust close to the continent–ocean boundary is just 3.5–5 km thick, its thickness increases northwards towards the Southern Kerguelen Plateau to 12 km. This change is accompanied by thickening of a lower crustal layer with high P-wave velocities of up to 7.5 km s–1, marking intrusive rocks emplaced beneath the mid-ocean ridge under increasing influence of the Kerguelen plume. Joint interpretations of our crustal model, seismic reflection data and magnetic data sets constrain the age and extent of oceanic crust in the research area. Oceanic crust is shown to continue to around 160 km farther south than has been interpreted in previous data, with profound implications for plate kinematic models of the region. Finally, by combining our findings with a regional magnetic data compilation and regional seismic reflection data we propose a larger extent of oceanic crust in the Enderby Basin than previously known.

Description: © The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Tassia, M. G., David, K. T., Townsend, J. P., & Halanych, K. M. TIAMMAt: leveraging biodiversity to revise protein domain models, evidence from innate immunity. Molecular Biology and Evolution, 38(12), (2021): 5806–5818, https://doi.org/10.1093/molbev/msab258.

Description: Sequence annotation is fundamental for studying the evolution of protein families, particularly when working with nonmodel species. Given the rapid, ever-increasing number of species receiving high-quality genome sequencing, accurate domain modeling that is representative of species diversity is crucial for understanding protein family sequence evolution and their inferred function(s). Here, we describe a bioinformatic tool called Taxon-Informed Adjustment of Markov Model Attributes (TIAMMAt) which revises domain profile hidden Markov models (HMMs) by incorporating homologous domain sequences from underrepresented and nonmodel species. Using innate immunity pathways as a case study, we show that revising profile HMM parameters to directly account for variation in homologs among underrepresented species provides valuable insight into the evolution of protein families. Following adjustment by TIAMMAt, domain profile HMMs exhibit changes in their per-site amino acid state emission probabilities and insertion/deletion probabilities while maintaining the overall structure of the consensus sequence. Our results show that domain revision can heavily impact evolutionary interpretations for some families (i.e., NLR’s NACHT domain), whereas impact on other domains (e.g., rel homology domain and interferon regulatory factor domains) is minimal due to high levels of sequence conservation across the sampled phylogenetic depth (i.e., Metazoa). Importantly, TIAMMAt revises target domain models to reflect homologous sequence variation using the taxonomic distribution under consideration by the user. TIAMMAt’s flexibility to revise any subset of the Pfam database using a user-defined taxonomic pool will make it a valuable tool for future protein evolution studies, particularly when incorporating (or focusing) on nonmodel species.

Description: This work was supported by The National Science Foundation (Grant No. IOS—1755377 to K.M.H., Rita Graze, and Elizabeth Hiltbold Schwartz), and K.T.D. was supported by The National Science Foundation’s Graduate Research Fellowship Program.

Description: © The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Shoshan, Y., Liscovitch-Brauer, N., Rosenthal, J. J. C., & Eisenberg, E. Adaptive proteome diversification by nonsynonymous A-to-I RNA editing in coleoid cephalopods. Molecular Biology and Evolution, 38(9), (2021): 3775–3788, https://doi.org/10.1093/molbev/msab154.

Description: RNA editing by the ADAR enzymes converts selected adenosines into inosines, biological mimics for guanosines. By doing so, it alters protein-coding sequences, resulting in novel protein products that diversify the proteome beyond its genomic blueprint. Recoding is exceptionally abundant in the neural tissues of coleoid cephalopods (octopuses, squids, and cuttlefishes), with an over-representation of nonsynonymous edits suggesting positive selection. However, the extent to which proteome diversification by recoding provides an adaptive advantage is not known. It was recently suggested that the role of evolutionarily conserved edits is to compensate for harmful genomic substitutions, and that there is no added value in having an editable codon as compared with a restoration of the preferred genomic allele. Here, we show that this hypothesis fails to explain the evolutionary dynamics of recoding sites in coleoids. Instead, our results indicate that a large fraction of the shared, strongly recoded, sites in coleoids have been selected for proteome diversification, meaning that the fitness of an editable A is higher than an uneditable A or a genomically encoded G.

Description: This research was supported by a grants from the United States–Israel Binational Science Foundation (BSF), Jerusalem, Israel (BSF2017262 to J.J.C.R. and E.E.), the Israel Science Foundation (3371/20 to E.E.) and the National Science Foundation (IOS 1827509 and 1557748 to J.J.C.R).

Description: Author Posting. © The Author(s), 2022. This is the author's version of the work. It is posted here by permission of Oxford University Press for personal use, not for redistribution. The definitive version was published in Integrative & Comparative Biology 62(3), (2022): 805-816, https://doi.org/10.1093/icb/icac108.

Description: Skates are a diverse group of dorso-ventrally compressed cartilaginous fish found primarily in high-latitude seas. These slow-growing oviparous fish deposit their fertilized eggs into cases, which then rest on the seafloor. Developing skates remain in their cases for 1–4 years after they are deposited, meaning the abiotic characteristics of the deposition sites, such as current and substrate type, must interact with the capsule in a way to promote long residency. Egg cases are morphologically variable and can be identified to species. Both the gross morphology and the microstructures of the egg case interact with substrate to determine how well a case stays in place on a current-swept seafloor. Our study investigated the egg case hydrodynamics of eight North Pacific skate species to understand how their morphology affects their ability to stay in place. We used a flume to measure maximum current velocity, or “break-away velocity,” each egg case could withstand before being swept off the substrate and a tilt table to measure the coefficient of static friction between each case and the substrate. We also used the programing software R to calculate theoretical drag on the egg cases of each species. For all flume trials, we found the morphology of egg cases and their orientation to flow to be significantly correlated with break-away velocity. In certain species, the morphology of the egg case was correlated with flow rate required to dislodge a case from the substrate in addition to the drag experienced in both the theoretical and flume experiments. These results effectively measure how well the egg cases of different species remain stationary in a similar habitat. Parsing out attachment biases and discrepancies in flow regimes of egg cases allows us to identify where we are likely to find other elusive species nursery sites. These results will aid predictive models for locating new nursery habitats and protective policies for avoiding the destruction of these nursery sites.

Description: This work was supported by the NSF-REU and FHL Blinks-Beacon for funding JNE. And the Stephen and Ruth Wainwright Endowed Fellowship, BEACON and Hoag Awards, Robert T. Paine Experimental and Field Ecology Award, FHL Award, FHL Marine Science Fund, FHL Student Fund (Kohn), Patricia L. Dudley Endowment for funding KCH.

Description: 2023-07-04

Description: © The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Suca, J. J., Wiley, D. N., Silva, T. L., Robuck, A. R., Richardson, D. E., Glancy, S. G., Clancey, E., Giandonato, T., Solow, A. R., Thompson, M. A., Hong, P., Baumann, H., Kaufman, L., & Llopiz, J. K. Sensitivity of sand lance to shifting prey and hydrography indicates forthcoming change to the northeast US shelf forage fish complex. Ices Journal of Marine Science, 78(3), (2021): 1023–1037, https://doi.org/10.1093/icesjms/fsaa251.

Description: Northern sand lance (Ammodytes dubius) and Atlantic herring (Clupea harengus) represent the dominant lipid-rich forage fish species throughout the Northeast US shelf and are critical prey for numerous top predators. However, unlike Atlantic herring, there is little research on sand lance or information about drivers of their abundance. We use intra-annual measurements of sand lance diet, growth, and condition to explain annual variability in sand lance abundance on the Northeast US Shelf. Our observations indicate that northern sand lance feed, grow, and accumulate lipids in the late winter through summer, predominantly consuming the copepod Calanus finmarchicus. Sand lance then cease feeding, utilize lipids, and begin gonad development in the fall. We show that the abundance of C. finmarchicus influences sand lance parental condition and recruitment. Atlantic herring can mute this effect through intra-guild predation. Hydrography further impacts sand lance abundance as increases in warm slope water decrease overwinter survival of reproductive adults. The predicted changes to these drivers indicate that sand lance will no longer be able to fill the role of lipid-rich forage during times of low Atlantic herring abundance—changing the Northeast US shelf forage fish complex by the end of the century.

Description: Research was funded by the Bureau of Ocean Energy Management (IA agreement M17PG0019; DNW, LK, HB, and JKL), including a subaward via the National Marine Sanctuary Foundation (18-11-B-203). Additional support came from the National Oceanic and Atmospheric Administration Woods Hole Sea Grant Program (NA18OAR4170104, Project No. R/O-57; JKL, HB, and DNW) and a National Science Foundation Long-term Ecological Research grant for the Northeast US Shelf Ecosystem (OCE 1655686; JKL). JJS was funded by the National Science Foundation Graduate Research Fellowship programme. ARR was funded by an NOAA Nancy Foster Scholarship.

Description: This article has been accepted for publication in Geophysical Journal International ©: The Authors 2022. Published by Oxford University Press on behalf of the Royal Astronomical Society. All rights reserved. Uploaded in accordance with the publisher's self-archiving policy.

Description: Defining the regional variability of minimum magnitude for earthquake detection is crucial for planning seismic networks. Knowing the earthquake detection magnitude values is fundamental for the optimal location of new stations and to select the priority for reactivating the stations of a seismic network in case of a breakdown. In general, the assessment of earthquake detection is performed by analysing seismic noise with spectral or more sophisticated methods. Further, to simulate amplitude values at the recording sites, spectral methods require knowledge of several geophysical parameters including rock density, S-wave velocity, corner frequency, quality factor, site specific decay parameter and so on, as well as a velocity model for the Earth's interior. The simulation results are generally expressed in terms of Mw and therefore a further conversion must be done to obtain the values of local magnitude (ML), which is the parameter commonly used for moderate and small earthquakes in seismic catalogues. Here, the relationship utilized by a seismic network to determine ML is directly applied to obtain the expected amplitude [in mm, as if it were recorded by a Wood–Anderson (WA) seismometer] at the recording site, without any additional assumptions. The station detection estimates are obtained by simply considering the ratio of the expected amplitude with respect to the background noise, also measured in mm. The seismic noise level for the station is estimated starting from four waveforms (each signal lasting 1 min) sampled at various times of the day for a period of one week. The proposed method is tested on Italian seismic events occurring in 2019 by using the locations of 16.879 earthquakes recorded by 374 stations. The first results indicate that by evaluating the station noise level with 5-s windows, a representative sample of the variability in expected noise level is generated for every station, even if only 4 min of signal per day over a week of recordings is used. The method was applied to define the detection level of the Italian National Seismic Network (RSN). The RSN detection level represents a reference for the definition and application of guidelines in the field of monitoring of subsurface industrial activities in Italy. The proposed approach can be successfully applied to define the current performance of a local seismic network (managed by private companies) and to estimate the expected further improvements, requested to fulfil the guidelines with the installation of new seismic stations. This method has been tested in Italy and can be reproduced wherever the local magnitude ML, based on synthetic WA records, is used.

Description: Published

Description: 1283–1297

Description: 4T. Sismicità dell'Italia

Description: JCR Journal

Description: © The Author(s), 2022. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Aoki, L. R., Brisbin, M. M., Hounshell, A. G., Kincaid, D. W., Larson, E., Sansom, B. J., Shogren, A. J., Smith, R. S., & Sullivan-Stack, J. Preparing aquatic research for an extreme future: call for improved definitions and responsive, multidisciplinary approaches. Bioscience, 72(6), (2022): 508-520, https://doi.org/10.1093/biosci/biac020.

Description: Extreme events have increased in frequency globally, with a simultaneous surge in scientific interest about their ecological responses, particularly in sensitive freshwater, coastal, and marine ecosystems. We synthesized observational studies of extreme events in these aquatic ecosystems, finding that many studies do not use consistent definitions of extreme events. Furthermore, many studies do not capture ecological responses across the full spatial scale of the events. In contrast, sampling often extends across longer temporal scales than the event itself, highlighting the usefulness of long-term monitoring. Many ecological studies of extreme events measure biological responses but exclude chemical and physical responses, underscoring the need for integrative and multidisciplinary approaches. To advance extreme event research, we suggest prioritizing pre- and postevent data collection, including leveraging long-term monitoring; making intersite and cross-scale comparisons; adopting novel empirical and statistical approaches; and developing funding streams to support flexible and responsive data collection.

Description: We developed a new version of the Alfred Wegener Institute Climate Model (AWI-CM3), which has higher skills in representing the observed climatology and better computational efficiency than its predecessors. Its ocean component FESOM2 has the multi-resolution functionality typical for unstructured-mesh models while still featuring a scalability and efficiency similar to regular-grid models. The atmospheric component OpenIFS (CY43R3) enables the use of latest developments in the numerical weather prediction community in climate sciences. In this paper we describe the coupling of the model components and evaluate the model performance on a variable resolution (25–125 km) ocean mesh and a 61 km atmosphere grid, which serves as a reference and starting point for other on-going research activities with AWI-CM3. This includes the exploration of high and variable resolution, the development of a full Earth System Model as well as the creation of a new sea ice prediction system. At this early development stage and with the given coarse to medium resolutions, the model already features above CMIP6-average skills in representing the climatology and competitive model throughput. Finally we identify remaining biases and suggest further improvements to be made to the model.

Description: © The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Suca, J. J., Deroba, J. J., Richardson, D. E., Ji, R., & Llopiz, J. K. Environmental drivers and trends in forage fish occupancy of the Northeast US shelf. Ices Journal of Marine Science, 78(10), (2021): 3687–3708, https://doi.org/10.1093/icesjms/fsab214.

Description: The Northeast US shelf ecosystem is undergoing unprecedented changes due to long-term warming trends and shifts in regional hydrography leading to changes in community composition. However, it remains uncertain how shelf occupancy by the region's dominant, offshore small pelagic fishes, also known as forage fishes, has changed throughout the late 20th and early 21st centuries. Here, we use species distribution models to estimate the change in shelf occupancy, mean weighted latitude, and mean weighted depth of six forage fishes on the Northeast US shelf, and whether those trends were linked to coincident hydrographic conditions. Our results suggest that observed shelf occupancy is increasing or unchanging for most species in both spring and fall, linked both to gear shifts and increasing bottom temperature and salinity. Exceptions include decreases to observed shelf occupancy by sand lance and decreases to Atlantic herring's inferred habitat suitability in the fall. Our work shows that changes in shelf occupancy and inferred habitat suitability have varying coherence, indicating complex mechanisms behind observed shelf occupancy for many species. Future work and management can use these results to better isolate the aspects of forage fish life histories that are important for determining their occupancy of the Northeast US shelf.

Description: Funding came from the National Oceanic and Atmospheric Administration Woods Hole Sea Grant Program (NA18OAR4170104, Project number R/O-57; RJ and JKL) and a National Science Foundation Long-term Ecological Research grant for the Northeast US Shelf Ecosystem (OCE1655686; RJ and JKL). JJS was funded by the National Science Foundation Graduate Research Fellowship program.

Description: Relative relocation methods are commonly used to precisely relocate earthquake clusters consisting of similar waveforms. Repeating waveforms are often recorded at volcanoes, where, however, the crust structure is expected to contain strong heterogeneities and therefore the 1D velocity model assumption that is made in most location strategies is not likely to describe reality. A peculiar cluster of repeating low-frequency seismic events was recorded on the south flank of Katla volcano (Iceland) from 2011. As the hypocentres are located at the rim of the glacier, the seismicity may be due to volcanic or glacial processes. Information on the size and shape of the cluster may help constraining the source process. The extreme similarity of waveforms points to a very small spatial distribution of hypocentres. In order to extract meaningful information about size and shape of the cluster, we minimize uncertainty by optimizing the cross-correlation measurements and relative-relocation process. With a synthetic test we determine the best parameters for differential-time measurements and estimate their uncertainties, specifically for each waveform. We design a relocation strategy to work without a predefined velocity model, by formulating and inverting the problem to seek changes in both location and slowness, thus accounting for azimuth, take-off angles and velocity deviations from a 1D model. We solve the inversion explicitly in order to propagate data errors through the calculation. With this approach we are able to resolve a source volume few tens of meters wide on horizontal directions and around 100 meters in depth. There is no suggestion that the hypocentres lie on a single fault plane and the depth distribution indicates that their source is unlikely to be related to glacial processes as the ice thickness is not expected to exceed few tens of meters in the source area.

Description: Published

Description: 1244–1257

Description: 5T. Sismologia, geofisica e geologia per l'ingegneria sismica

Description: JCR Journal

Description: Changes in Southern Ocean export production have broad biogeochemical and climatic implications. Specifically, iron fertilization likely increased subantarctic nutrient utilization and enhanced the efficiency of the biological pump during glacials. However, past export production in the subantarctic Southeast Pacific is poorly documented, and its connection to Fe fertilization, potentially related to Patagonian Ice Sheet dynamics is unknown. We report on biological productivity changes over the past 400 ka, based on a combination of 230Thxs-normalized and stratigraphy-based mass accumulation rates of biogenic barium, organic carbon, biogenic opal, and calcium carbonate as indicators of paleo-export production in a sediment core upstream of the Drake Passage. In addition, we use fluxes of iron and lithogenic material as proxies for terrigenous matter, and thus potential micronutrient supply. Stratigraphy-based mass accumulation rates are strongly influenced by bottom-current dynamics, which result in variable sediment focussing or winnowing at our site. Carbonate is virtually absent in the core, except during peak interglacial intervals of the Holocene, and Marine Isotope Stages (MIS) 5 and 11, likely caused by transient decreases in carbonate dissolution. All other proxies suggest that export production increased during most glacial periods, coinciding with high iron fluxes. Such augmented glacial iron fluxes at the core site were most likely derived from glaciogenic input from the Patagonian Ice Sheet promoting the growth of phytoplankton. Additionally, glacial export production peaks are also consistent with northward shifts of the Subantarctic and Polar Fronts, which positioned our site south of the Subantarctic Front and closer to silicic acid-rich waters of the Polar Frontal Zone, as well as a with a decrease in the diatom utilization of Si relative to nitrate under Fe-replete conditions. However, glacial export production near the Drake Passage was lower than in the Atlantic and Indian sectors of the Southern Ocean, which may relate to complete consumption of silicic acid in the study area. Our results underline the importance of micro-nutrient fertilization through lateral terrigenous input from South America rather than aeolian transport, and exemplify the role of frontal shifts and nutrient limitation for past productivity changes in the Pacific entrance to the Drake Passage.

Description: © The Author(s), 2022. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Sassenhagen, I., Erdner, D., Lougheed, B., Richlen, M., & SjÖqvist, C. Estimating genotypic richness and proportion of identical multi-locus genotypes in aquatic microalgal populations. Journal of Plankton Research, 44(4), (2022): 559-572, https://doi.org/10.1093/plankt/fbac034.

Description: The majority of microalgal species reproduce asexually, yet population genetic studies rarely find identical multi-locus genotypes (MLG) in microalgal blooms. Instead, population genetic studies identify large genotypic diversity in most microalgal species. This paradox of frequent asexual reproduction but low number of identical genotypes hampers interpretations of microalgal genotypic diversity. We present a computer model for estimating, for the first time, the number of distinct MLGs by simulating microalgal population composition after defined exponential growth periods. The simulations highlighted the effects of initial genotypic diversity, sample size and intraspecific differences in growth rates on the probability of isolating identical genotypes. We estimated the genotypic richness for five natural microalgal species with available high-resolution population genetic data and monitoring-based growth rates, indicating 500 000 to 2 000 000 distinct genotypes for species with few observed clonal replicates (〈5%). Furthermore, our simulations indicated high variability in genotypic richness over time and among microalgal species. Genotypic richness was also strongly impacted by intraspecific variability in growth rates. The probability of finding identical MLGs and sampling a representative fraction of genotypes decreased noticeably with smaller sample sizes, challenging the detection of differences in genotypic diversity with typical isolate numbers in the field.

Description: This work was supported by the Olle Engkvist foundation [200-0564 to I.S.]; the Swedish Research Council (Vetenskapsrådet) [2018-04992 to B.C.L.]; the Academy of Finland [321609 to C.S.]; the National Science Foundation [NSF OCE-1841811 to D.L.E. and M.L.R.]; and the National Institute of Environmental Health [NIEHS P01ES028949 to M.L.R.].

Description: Crystalline rocks can produce dangerous radiation levels on the basis of their content in radioisotopes. Here, we report radiological data from 10 metamorphic and igneous rock samples collected from the crystalline basement of the Peloritani Mountains (southern Italy). In order to evaluate the radiological properties of these rocks, the gamma radiation and the radon emanation have been measured. Moreover, since some of these rocks are employed as building materials, we assess the potential hazard for population connected to their use. Gamma spectroscopy was used to measure the 226Ra, 232Th and 40K activity concentration, whereas the radon emanation was investigated by using a RAD 7 detector. The results show 226Ra, 232Th and 40K activity concentration values ranging from (17 ± 4) to (56 ± 8) Bq kg-1, (14 ± 3) to (77 ± 14) Bq kg-1 and (167 ± 84) to (1760 ± 242) Bq kg-1, respectively. Values of the annual effective dose equivalent outdoor range from 0.035 to 0.152 mSv y-1, whereas the gamma index is in the range of 0.22-0.98. The 222Rn emanation coefficient and the 222Rn surface exhalation rate vary from (0.63 ± 0.3) to (8.27 ± 1.6)% and from (0.12 ± 0.03) to (2.75 ± 0.17) Bq m-2 h-1, respectively. The indoor radon derived from the building use of these rocks induces an approximate contribution to the annual effective dose ranging from 8 to 176 μSv y-1. All the obtained results suggest that the crystalline rocks from the Peloritani Mountains are not harmful for the residential population, even though they induce annual effective doses due to terrestrial gamma radiation above the worldwide average values. Moreover, their use as building materials does not produce significant health hazards connected to the indoor radon exposure.

Description: Published

Description: 452–464

Description: 6A. Geochimica per l'ambiente e geologia medica

Description: JCR Journal

Description: This article has been accepted for publication in Geophysical Journal International ©: The Authors 2021. Published by Oxford University Press on behalf of the Royal Astronomical Society. All rights reserved. Uploaded in accordance with the publisher's self-archiving policy.

Description: In a recent study (Jozinovi\'c et al, 2020) we showed that convolutional neural networks (CNNs) applied to network seismic traces can be used for rapid prediction of earthquake peak ground motion intensity measures (IMs) at distant stations using only recordings from stations near the epicenter. The predictions are made without any previous knowledge concerning the earthquake location and magnitude. This approach differs from the standard procedure adopted by earthquake early warning systems (EEWSs) that rely on location and magnitude information. In the previous study, we used 10 s, raw, multistation waveforms for the 2016 earthquake sequence in central Italy for 915 events (CI dataset). The CI dataset has a large number of spatially concentrated earthquakes and a dense station network. In this work, we applied the CNN model to an area around the VIRGO gravitational waves observatory sited near Pisa, Italy. In our initial application of the technique, we used a dataset consisting of 266 earthquakes recorded by 39 stations. We found that the CNN model trained using this smaller dataset performed worse compared to the results presented in the original study by Jozinovi\'c et al. (2020). To counter the lack of data, we adopted transfer learning (TL) using two approaches: first, by using a pre-trained model built on the CI dataset and, next, by using a pre-trained model built on a different (seismological) problem that has a larger dataset available for training. We show that the use of TL improves the results in terms of outliers, bias, and variability of the residuals between predicted and true IMs values. We also demonstrate that adding knowledge of station positions as an additional layer in the neural network improves the results. The possible use for EEW is demonstrated by the times for the warnings that would be received at the station PII.

Description: RISE (Union's Horizon 2020 research and innovation programme, grant agreement No.821115)

Description: Published

Description: 704–718

Description: 5T. Sismologia, geofisica e geologia per l'ingegneria sismica

Description: JCR Journal

Description: The mid-Pliocene warm period (3.264–3.025 Ma) is the most recent geological period during which atmospheric CO2 levels were similar to recent historical values (∼400 ppm). Several proxy reconstructions for the mid-Pliocene show highly reduced zonal sea surface temperature (SST) gradients in the tropical Pacific Ocean, indicating an El Niño-like mean state. However, past modelling studies do not show these highly reduced gradients. Efforts to understand mid-Pliocene climate dynamics have led to the Pliocene Model Intercomparison Project (PlioMIP). Results from the first phase (PlioMIP1) showed clear El Niño variability (albeit significantly reduced) and did not show the greatly reduced time-mean zonal SST gradient suggested by some of the proxies. In this work, we study El Niño–Southern Oscillation (ENSO) variability in the PlioMIP2 ensemble, which consists of additional global coupled climate models and updated boundary conditions compared to PlioMIP1. We quantify ENSO amplitude, period, spatial structure and “flavour”, as well as the tropical Pacific annual mean state in mid-Pliocene and pre-industrial simulations. Results show a reduced ENSO amplitude in the model-ensemble mean (−24 %) with respect to the pre-industrial, with 15 out of 17 individual models showing such a reduction. Furthermore, the spectral power of this variability considerably decreases in the 3–4-year band. The spatial structure of the dominant empirical orthogonal function shows no particular change in the patterns of tropical Pacific variability in the model-ensemble mean, compared to the pre-industrial. Although the time-mean zonal SST gradient in the equatorial Pacific decreases for 14 out of 17 models (0.2 ∘C reduction in the ensemble mean), there does not seem to be a correlation with the decrease in ENSO amplitude. The models showing the most “El Niño-like” mean state changes show a similar ENSO amplitude to that in the pre-industrial reference, while models showing more “La Niña-like” mean state changes generally show a large reduction in ENSO variability. The PlioMIP2 results show a reasonable agreement with both time-mean proxies indicating a reduced zonal SST gradient and reconstructions indicating a reduced, or similar, ENSO variability.

Description: The mid-Pliocene (∼3 Ma) is one of the most recent warm periods with high CO2 concentrations in the atmosphere and resulting high temperatures, and it is often cited as an analog for near-term future climate change. Here, we apply a moisture budget analysis to investigate the response of the large-scale hydrological cycle at low latitudes within a 13-model ensemble from the Pliocene Model Intercomparison Project Phase 2 (PlioMIP2). The results show that increased atmospheric moisture content within the mid-Pliocene ensemble (due to the thermodynamic effect) results in wetter conditions over the deep tropics, i.e., the Pacific intertropical convergence zone (ITCZ) and the Maritime Continent, and drier conditions over the subtropics. Note that the dynamic effect plays a more important role than the thermodynamic effect in regional precipitation minus evaporation (PmE) changes (i.e., northward ITCZ shift and wetter northern Indian Ocean). The thermodynamic effect is offset to some extent by a dynamic effect involving a northward shift of the Hadley circulation that dries the deep tropics and moistens the subtropics in the Northern Hemisphere (i.e., the subtropical Pacific). From the perspective of Earth's energy budget, the enhanced southward cross-equatorial atmospheric transport (0.22 PW), induced by the hemispheric asymmetries of the atmospheric energy, favors an approximately 1∘ northward shift of the ITCZ. The shift of the ITCZ reorganizes atmospheric circulation, favoring a northward shift of the Hadley circulation. In addition, the Walker circulation consistently shifts westward within PlioMIP2 models, leading to wetter conditions over the northern Indian Ocean. The PlioMIP2 ensemble highlights that an imbalance of interhemispheric atmospheric energy during the mid-Pliocene could have led to changes in the dynamic effect, offsetting the thermodynamic effect and, hence, altering mid-Pliocene hydroclimate.

Description: This article has been accepted for publication in Geophysical Journal International ©: The Authors 2021. Published by Oxford University Press on behalf of the Royal Astronomical Society. All rights reserved. Uploaded in accordance with the publisher's self-archiving policy.

Description: Ambient-noise records from the AlpArray network are used to measure Rayleigh wave phase velocities between more than 150,000 station pairs. From these, azimuthally anisotropic phase-velocity maps are obtained by applying the Eikonal tomography method. Several synthetic tests are shown to study the bias in the Ψ2 anisotropy. There are two main groups of bias, the first one caused by interference between refracted/reflected waves and the appearance of secondary wavefronts that affect the phase travel-time measurements. This bias can be reduced if the amplitude field can be estimated correctly. Another source of error is related to the incomplete reconstruction of the travel-time field that is only sparsely sampled due to the receiver locations. Both types of bias scale with the magnitude of the velocity heterogeneities. Most affected by the spurious Ψ2 anisotropy are areas inside and at the border of low-velocity zones. In the isotropic velocity distribution, most of the bias cancels out if the azimuthal coverage is good. Despite the lack of resolution in many parts of the surveyed area, we identify a number of anisotropic structures that are robust: in the central Alps, we find a layered anisotropic structure, arc-parallel at midcrustal depths and arc-perpendicular in the lower crust. In contrast, in the eastern Alps, the pattern is more consistently E-W oriented which we relate to the eastward extrusion. The northern Alpine forleand exhibits a preferential anisotropic orientation that is similar to SKS observations in the lowermost crust and uppermost mantle.

Description: German Science Foundation (SPP-2017, Project Ha 2403/21-1); Swiss National Science Foundation SINERGIA Project CRSII2-154434/1 (Swiss-AlpArray); Progetto Pianeta Dinamico, finanziamento MUR-INGV, Task S2 – 2021

Description: Published

Description: 151–170

Description: 1T. Struttura della Terra

Description: JCR Journal

Description: This article has been accepted for publication in Geophysical Journal International ©: The Authors 2022. Published by Oxford University Press on behalf of the Royal Astronomical Society. All rights reserved. Uploaded in accordance with the publisher's self-archiving policy.

Description: To understand the seismotectonics and the seismic hazard of the study sector of the Northern Apennines (Italy), one of the most important earthquakes of magnitude Mw = 6.5 which struck the Lunigiana and Garfagnana areas (Tuscany) on 7 September 1920 should be studied. Given the early instrumental epoch of the event, neither geometric and kinematic information on the fault-source nor its fault-plane solution were available. Both areas were candidates for hosting the source fault and there was uncertainty between a normal fault with Apenninic direction or an anti-Apenninic strike-slip. We retrieved 11 focal parameters (including the fault-plane solution) of the 1920 earthquake. Only macroseismic intensity information (from 499 inhabited centres) through the KF-NGA inversion technique was used. This technique uses a Kinematic model of the earthquake source and speeds up the calculation by a Genetic Algorithm with Niching. The result is a pure dip-slip focal solution. The intrinsic ambiguities of the KF-NGA method (±180° on the rake angle; choice of the fault plane between the two nodal planes) were solved with field and seismotectonic evidence. The earthquake was generated by a normal fault (rake angle = 265° ± 8°) with an Apennine direction (114° ± 5°) and dipping 38° ± 6° towards SW. The likely candidate for hosting the source-fault in 1920 is the Compione-Comano fault that borders the NE edge of the Lunigiana graben. The KF-NGA algorithm proved to be invaluable for studying the kinematics of early instrumental earthquakes and allowed us to uniquely individuate, for the first time ever, the seismogenic source of the 1920 earthquake. Our findings have implications in hazard computation and seismotectonic contexts.

Description: Published

Description: 1465–1477

Description: 4T. Sismicità dell'Italia

Description: JCR Journal

Description: Systematic variations in the crystal cargo and whole-rock isotopic compositions of mantle-derived basalts in the intraplate Dunedin Volcano (New Zealand) indicate the influence of a complex mantle-to-crust polybaric plumbing system. Basaltic rocks define a compositional spectrum from low-alkali basalts through mid-alkali basalts to high-alkali basalts. High-alkali basalts display clinopyroxene crystals with sector (hourglass) and oscillatory zoning (Mg#61–82) as well as Fe-rich green cores (Mg#43–69), whereas low-alkali basalts are characterized by clinopyroxenes with unzoned overgrowths (Mg#69–83) on resorbed mafic cores (Mg#78–88), coexisting with reversely zoned plagioclase crystals (An43–68 to An60–84 from core to rim). Complex magma dynamics are indicated by distinctive compositional variations in clinopyroxene phenocrysts, with Cr-rich zones (Mg#74–87) indicating continuous recharge by more mafic magmas. Crystallization of olivine, clinopyroxene and titanomagnetite occurred within a polybaric plumbing system extending from upper mantle to mid-crustal depths (485–1059 MPa and 1147–1286°C), whereas crystallization of plagioclase with subordinate clinopyroxene and titanomagnetite proceeded towards shallower crustal levels. The compositions of high-alkali basalts and mid-alkali basalts resemble those of ocean island basalts and are characterized by FOZO-HIMU isotopic signatures (87Sr/86Sri = 0.70277–0.70315, 143Nd/144Ndi = 0.51286–0.51294 and 206Pb/204Pb = 19.348–20.265), whereas low-alkali basalts have lower incompatible element abundances and isotopic compositions trending towards EMII (87Sr/86Sri = 0.70327–70397, 143Nd/144Ndi = 0.51282–0.51286 and 206Pb/204Pb = 19.278–19.793). High- and mid-alkali basalt magmas mostly crystallized in the lower crust, whereas low-alkali basalt magma recorded deeper upper mantle clinopyroxene crystallization before eruption. The variable alkaline character and isotope composition may result from interaction of low-alkaline melts derived from the asthenosphere with melts derived from lithospheric mantle, possibly initiated by asthenospheric melt percolation. The transition to more alkaline compositions was induced by variable degrees of melting of metasomatic lithologies in the lithospheric mantle, leading to eruption of predominantly small-volume, high-alkali magmas at the periphery of the volcano. Moreover, the lithosphere imposed a filtering effect on the alkalinity of these intraplate magmas. As a consequence, the eruption of low-alkali basalts with greater asthenospheric input was concentrated at the centre of the volcano, where the plumbing system was more developed.

Description: Published

Description: egab062

Description: 2V. Struttura e sistema di alimentazione dei vulcani

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

Description: 4V. Processi pre-eruttivi

Description: JCR Journal

Description: The Italian earthquake waveform data are collected here in a dataset suited for machine learning analysis (ML) applications. The dataset consists of nearly 1.2 million three-component (3C) waveform traces from about 50 000 earthquakes and more than 130 000 noise 3C waveform traces, for a total of about 43 000 h of data and an average of 21 3C traces provided per event. The earthquake list is based on the Italian Seismic Bulletin (http://terremoti.ingv.it/bsi, last access: 15 February 2020​​​​​​​) of the Istituto Nazionale di Geofisica e Vulcanologia between January 2005 and January 2020, and it includes events in the magnitude range between 0.0 and 6.5. The waveform data have been recorded primarily by the Italian National Seismic Network (network code IV) and include both weak- (HH, EH channels) and strong-motion (HN channels) recordings. All the waveform traces have a length of 120 s, are sampled at 100 Hz, and are provided both in counts and ground motion physical units after deconvolution of the instrument transfer functions. The waveform dataset is accompanied by metadata consisting of more than 100 parameters providing comprehensive information on the earthquake source, the recording stations, the trace features, and other derived quantities. This rich set of metadata allows the users to target the data selection for their own purposes. Much of these metadata can be used as labels in ML analysis or for other studies. The dataset, assembled in HDF5 format, is available at http://doi.org/10.13127/instance (Michelini et al., 2021).

Description: Published

Description: 5509–5544

Description: 4T. Sismicità dell'Italia

Description: JCR Journal

Description: Author Posting. © Oxford University Press, 2021. This article is posted here by permission of [publisher] for personal use, not for redistribution. The definitive version was published in Lund, S., Acton, G., Clement, B., Okada, M., & Keigwin, L. On the relationship between palaeomagnetic secular variation and excursions-records from MIS 8-ODP leg 172. Geophysical Journal International, 225(2), (2021): 1129-1141, https://doi.org/10.1093/gji/ggaa564.

Description: Palaeomagnetic secular variation (PSV) and excursion data obtained across MIS 8 (243–300 ka) from the western North Atlantic Ocean ODP (Ocean Drilling Program) sites 1060–1063 show composite high-resolution PSV records (both directions and relative palaeointensity) developed for each site and intercompared. Two methods of chronostratigraphy allow us to date these records. First, we used published results that compared the calcium carbonate records of ODP Leg 172 sediments and tuned them with Milankovich cyclicity. We also compared our palaeointensity records with the PISO-1500 global palaeointensity record that was dated with oxygen isotope stratigraphy. We prefer the PISO-1500 record to date our cores. Two excursions are preserved in our PSV records—Excursions 8α and 9α. Our revised age estimates for both excursions are 8α (236.7–239.8 ka) and 9α (283.7–286.9 ka). We have compared shipboard measurements of the two excursions with u-channel measurements of selected excursion intervals. Excursion 8α is interpreted as a ‘Class II’ excursion (local reversal) with in-phase inclination and declination changes; Excursion 9α is a ‘Class I’ excursion with 90° out-of-phase inclination and declination changes. Averaged directions (after removal of true excursional directions) and relative palaeointensity in 3 and 9 ka overlapping intervals show significant PSV directional variability over 104 yr timescales that is regionally correlatable among the four sites. A notable pattern of angular dispersion variability involves most time spent with low (∼10°) dispersion, with three shorter intervals of high (∼25°) dispersion. The relative palaeointensity variability also shows significant variability over 104 yr timescales with three notable intervals of low palaeointensity in all four records and a direct correspondence between the three low-palaeointensity intervals and the three intervals of high angular dispersion. The two magnetic field excursions occur in two of the three low-palaeointensity/high-dispersion intervals. This suggests that the geomagnetic field operates in two states between reversals, one with regular to high palaeointensity and low directional variability and one with low palaeointensity and significantly higher directional variability and excursions.

Description: Author Posting. © The Author(s), 2021. This is the author's version of the work. It is posted here by permission of Oxford University Press for personal use, not for redistribution. The definitive version was published in Toxicological Sciences 182(20), (2021): 310-326, https://doi.org/10.1093/toxsci/kfab066.

Description: Harmful algal blooms produce potent neurotoxins that accumulate in seafood and are hazardous to human health. Developmental exposure to the harmful algal bloom toxin, domoic acid (DomA), has behavioral consequences well into adulthood, but the cellular and molecular mechanisms of DomA developmental neurotoxicity are largely unknown. To assess these, we exposed zebrafish embryos to DomA during the previously identified window of susceptibility and used the well-known startle response circuit as a tool to identify specific neuronal components that are targeted by exposure to DomA. Exposure to DomA reduced startle responsiveness to both auditory/vibrational and electrical stimuli, and even at the highest stimulus intensities tested, led to a dramatic reduction of one type of startle (short-latency c-starts). Furthermore, DomA-exposed larvae had altered kinematics for both types of startle responses tested, exhibiting shallower bend angles and slower maximal angular velocities. Using vital dye staining, immunolabeling, and live imaging of transgenic lines, we determined that although the sensory inputs were intact, the reticulospinal neurons required for short-latency c-starts were absent in most DomA-exposed larvae. Furthermore, axon tracing revealed that DomA-treated larvae also showed significantly reduced primary motor neuron axon collaterals. Overall, these results show that developmental exposure to DomA targets large reticulospinal neurons and motor neuron axon collaterals, resulting in measurable deficits in startle behavior. They further provide a framework for using the startle response circuit to identify specific neural populations disrupted by toxins or toxicants and to link these disruptions to functional consequences for neural circuit function and behavior.

Description: This research was supported by a WHOI Von Damm and Ocean Ridge Initiative Fellowships to J.M.P. and the Woods Hole Center for Oceans and Human Health (NIH: P01ES021923 and P01ES028938; NSF: OCE-1314642 and OCE-1840381).

Description: 2022-06-07

Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Bowen, J. L., Giblin, A. E., Murphy, A. E., Bulseco, A. N., Deegan, L. A., Johnson, D. S., Nelson, J. A., Mozdzer, T. J., & Sullivan, H. L. Not all nitrogen is created equal: differential effects of nitrate and ammonium enrichment in coastal wetlands. Bioscience, 70(12), (2020): 1108-1119, doi:10.1093/biosci/biaa140.

Description: Excess reactive nitrogen (N) flows from agricultural, suburban, and urban systems to coasts, where it causes eutrophication. Coastal wetlands take up some of this N, thereby ameliorating the impacts on nearshore waters. Although the consequences of N on coastal wetlands have been extensively studied, the effect of the specific form of N is not often considered. Both oxidized N forms (nitrate, NO3−) and reduced forms (ammonium, NH4+) can relieve nutrient limitation and increase primary production. However, unlike NH4+, NO3− can also be used as an electron acceptor for microbial respiration. We present results demonstrating that, in salt marshes, microbes use NO3− to support organic matter decomposition and primary production is less stimulated than when enriched with reduced N. Understanding how different forms of N mediate the balance between primary production and decomposition is essential for managing coastal wetlands as N enrichment and sea level rise continue to assail our coasts.

Description: This work was supported by the following funding sources: National Science Foundation (NSF) grant no. DEB 1902712 to LAD, JLB, DSJ, and TJM; NSF grant no. DEB 1902695 to AEG; NSF grant no. DEB 1902704 to JAN; NSF grant no. DEB 1354214 to TJM; NSF grant no. DEB 1350491 to JLB; NSF grant no. OCE 1637630 to AEG and LAD; and additional funding from the Dorr Foundation, the Department of the Interior Northeast Climate Science Center (grant no. DOI G12AC00001), and a Bullard Fellowship (Harvard University) to LAD and from the National Academies of Science, Medicine, and Engineering Gulf Research Program to JAN. Resources purchased with funds from the NSF Biological Field Stations and Marine Laboratories program (grant no. DBI 1722553, to Northeastern University) were used to generate the data for the manuscript. Initial conversations on the effects of nutrient enrichment in marshes with Scott Warren and Bruce Peterson were critical in informing the work described in the manuscript. Sam Kelsey and Jane Tucker contributed to much of the N cycling biogeochemistry; Caitlin Bauer, Frankie Leach, Paige Weber, Emily Geoghegan and Sophie Drew assisted with field work; and Joe Vineis assisted with metagenomic analysis. This is contribution 3941 from the Virginia Institute of Marine Science. The data were compiled from multiple published sources. Links to published data can be found here: https://pie-lter.ecosystems.mbl.edu/data. The sequence data used to derive figure 6 are publicly available on the MG-RAST website under project number mgp84173.

Description: © The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Hirschberger, C., Sleight, V. A., Criswell, K. E., Clark, S. J., & Gillis, J. A. Conserved and unique transcriptional features of pharyngeal arches in the skate (Leucoraja erinacea) and evolution of the jaw. Molecular Biology and Evolution, (2021): msab123, https://doi.org/10.1093/molbev/msab123

Description: The origin of the jaw is a long-standing problem in vertebrate evolutionary biology. Classical hypotheses of serial homology propose that the upper and lower jaw evolved through modifications of dorsal and ventral gill arch skeletal elements, respectively. If the jaw and gill arches are derived members of a primitive branchial series, we predict that they would share common developmental patterning mechanisms. Using candidate and RNAseq/differential gene expression analyses, we find broad conservation of dorsoventral patterning mechanisms within the developing mandibular, hyoid and gill arches of a cartilaginous fish, the skate (Leucoraja erinacea). Shared features include expression of genes encoding members of the ventralising BMP and endothelin signalling pathways and their effectors, the joint markers nkx3.2 and gdf5 and pro-chondrogenic transcription factor barx1, and the dorsal territory marker pou3f3. Additionally, we find that mesenchymal expression of eya1/six1 is an ancestral feature of the mandibular arch of jawed vertebrates, while differences in notch signalling distinguish the mandibular and gill arches in skate. Comparative transcriptomic analyses of mandibular and gill arch tissues reveal additional genes differentially expressed along the dorsoventral axis of the pharyngeal arches, including scamp5 as a novel marker of the dorsal mandibular arch, as well as distinct transcriptional features of mandibular and gill arch muscle progenitors and developing gill buds. Taken together, our findings reveal conserved patterning mechanisms in the pharyngeal arches of jawed vertebrates, consistent with serial homology of their skeletal derivatives, as well as unique transcriptional features that may underpin distinct jaw and gill arch morphologies.

Description: This work was supported by a Biotechnology and Biological Sciences Research Council Doctoral Training Partnership studentship to CH, by a Wolfson College Junior Research Fellowship and MBL Whitman Early Career Fellowship to VAS, and by a Royal Society University Research Fellowship (UF130182 and URF\R\191007), Royal Society Research Grant (RG140377) and University of Cambridge Sir Isaac Newton Trust Grant (14.23z) to JAG.

Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Doo, S. S., Kealoha, A., Andersson, A., Cohen, A. L., Hicks, T. L., Johnson, Z., I., Long, M. H., McElhany, P., Mollica, N., Shamberger, K. E. F., Silbiger, N. J., Takeshita, Y., & Busch, D. S. The challenges of detecting and attributing ocean acidification impacts on marine ecosystems. ICES Journal of Marine Science, 77(7-8), (2020): 2411-2422, https://doi.org/10.1093/icesjms/fsaa094.

Description: A substantial body of research now exists demonstrating sensitivities of marine organisms to ocean acidification (OA) in laboratory settings. However, corresponding in situ observations of marine species or ecosystem changes that can be unequivocally attributed to anthropogenic OA are limited. Challenges remain in detecting and attributing OA effects in nature, in part because multiple environmental changes are co-occurring with OA, all of which have the potential to influence marine ecosystem responses. Furthermore, the change in ocean pH since the industrial revolution is small relative to the natural variability within many systems, making it difficult to detect, and in some cases, has yet to cross physiological thresholds. The small number of studies that clearly document OA impacts in nature cannot be interpreted as a lack of larger-scale attributable impacts at the present time or in the future but highlights the need for innovative research approaches and analyses. We summarize the general findings in four relatively well-studied marine groups (seagrasses, pteropods, oysters, and coral reefs) and integrate overarching themes to highlight the challenges involved in detecting and attributing the effects of OA in natural environments. We then discuss four potential strategies to better evaluate and attribute OA impacts on species and ecosystems. First, we highlight the need for work quantifying the anthropogenic input of CO2 in coastal and open-ocean waters to understand how this increase in CO2 interacts with other physical and chemical factors to drive organismal conditions. Second, understanding OA-induced changes in population-level demography, potentially increased sensitivities in certain life stages, and how these effects scale to ecosystem-level processes (e.g. community metabolism) will improve our ability to attribute impacts to OA among co-varying parameters. Third, there is a great need to understand the potential modulation of OA impacts through the interplay of ecology and evolution (eco–evo dynamics). Lastly, further research efforts designed to detect, quantify, and project the effects of OA on marine organisms and ecosystems utilizing a comparative approach with long-term data sets will also provide critical information for informing the management of marine ecosystems.

Description: SSD was funded by NSF OCE (grant # 1415268). DSB and PM were supported by the NOAA Ocean Acidification Program and Northwest Fisheries Science Center, MHL was supported by NSF OCE (grant # 1633951), ZIJ was supported by NSF OCE (grant # 1416665) and DOE EERE (grant #DE-EE008518), NJS was supported by NSF OCE (grant # 1924281), ALC was supported by NSF OCE (grant # 1737311), and AA was supported by NSF OCE (grant # 1416518). KEFS, AK, and TLH were supported by Texas A&M University. This is CSUN Marine Biology contribution (# 306).

Description: © The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Keller, A. G., Apprill, A., Lebaron, P., Robbins, J., Romano, T. A., Overton, E., Rong, Y., Yuan, R., Pollara, S., & Whalen, K. E. Characterizing the culturable surface microbiomes of diverse marine animals. FEMS Microbiology Ecology, 97(4), (2021): fiab040, https://doi.org/10.1093/femsec/fiab040.

Description: Biofilm-forming bacteria have the potential to contribute to the health, physiology, behavior and ecology of the host and serve as its first line of defense against adverse conditions in the environment. While metabarcoding and metagenomic information furthers our understanding of microbiome composition, fewer studies use cultured samples to study the diverse interactions among the host and its microbiome, as cultured representatives are often lacking. This study examines the surface microbiomes cultured from three shallow-water coral species and two whale species. These unique marine animals place strong selective pressures on their microbial symbionts and contain members under similar environmental and anthropogenic stress. We developed an intense cultivation procedure, utilizing a suite of culture conditions targeting a rich assortment of biofilm-forming microorganisms. We identified 592 microbial isolates contained within 15 bacterial orders representing 50 bacterial genera, and two fungal species. Culturable bacteria from coral and whale samples paralleled taxonomic groups identified in culture-independent surveys, including 29% of all bacterial genera identified in the Megaptera novaeangliae skin microbiome through culture-independent methods. This microbial repository provides raw material and biological input for more nuanced studies which can explore how members of the microbiome both shape their micro-niche and impact host fitness.

Description: Funding was provided by the National Science Foundation (Biological Oceanography) award #1657808 and National Institutes of Health grants 1R21-AI119311–01 to K. E. Whalen, as well as funding from the Koshland Integrated Natural Science Center and Green Fund at Haverford College. This constitutes scientific manuscript #298 from the Sea Research Foundation.

Description: The late Pleistocene Yedoma Ice Complex is an ice-rich and organic-bearing type of permafrost deposit widely distributed across Beringia and is assumed to be especially prone to deep degradation with warming temperature, which is a potential tipping point of the climate system. To better understand Yedoma formation, its local characteristics, and its regional sedimentological composition, we compiled the grain-size distributions (GSDs) of 771 samples from 23 Yedoma locations across the Arctic; samples from sites located close together were pooled to form 17 study sites. In addition, we studied 160 samples from three non-Yedoma ice-wedge polygon and floodplain sites for the comparison of Yedoma samples with Holocene depositional environments. The multimodal GSDs indicate that a variety of sediment production, transport, and depositional processes were involved in Yedoma formation. To disentangle these processes, a robust endmember modeling analysis (rEMMA) was performed. Nine robust grain-size endmembers (rEMs) characterize Yedoma deposits across Beringia. The study sites of Yedoma deposits were finally classified using cluster analysis. The resulting four clusters consisted of two to five sites that are distributed randomly across northeastern Siberia and Alaska, suggesting that the differences are associated with rather local conditions. In contrast to prior studies suggesting a largely aeolian contribution to Yedoma sedimentation, the wide range of rEMs indicates that aeolian sedimentation processes cannot explain the entire variability found in GSDs of Yedoma deposits. Instead, Yedoma sedimentation is controlled by local conditions such as source rocks and weathering processes, nearby paleotopography, and diverse sediment transport processes. Our findings support the hypothesis of a polygenetic Yedoma origin involving alluvial, fluvial, and niveo-aeolian transport; accumulation in ponding waters; and in situ frost weathering as well as postdepositional processes of solifluction, cryoturbation, and pedogenesis. The characteristic rEM composition of the Yedoma clusters will help to improve how grain-size-dependent parameters in permafrost models and soil carbon budgets are considered. Our results show the characteristic properties of ice-rich Yedoma deposits in the terrestrial Arctic. Characterizing and quantifying site-specific past depositional processes is crucial for elucidating and understanding the trajectories of this unique kind of ice-rich permafrost in a warmer future.

Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Carroll, E. L., Ott, P. H., McMillan, L. F., Galletti Vernazzani, B., Neveceralova, P., Vermeulen, E., Gaggiotti, O. E., Andriolo, A., Baker, C. S., Bamford, C., Best, P., Cabrera, E., Calderan, S., Chirife, A., Fewster, R. M., Flores, P. A. C., Frasier, T., Freitas, T. R. O., Groch, K., Hulva, P., Kennedy, A., Leaper, R., Leslie, M. S., Moore, M., Oliveira, L., Seger, J., Stepien, E. N., Valenzuela, L. O., Zerbini, A., & Jackson, J. A. Genetic diversity and connectivity of southern right whales (Eubalaena australis) found in the Brazil and Chile-Peru wintering grounds and the South Georgia (Islas Georgias del Sur) feeding ground. Journal of Heredity, 111(3), (2020): 263-276, doi:10.1093/jhered/esaa010.

Description: As species recover from exploitation, continued assessments of connectivity and population structure are warranted to provide information for conservation and management. This is particularly true in species with high dispersal capacity, such as migratory whales, where patterns of connectivity could change rapidly. Here we build on a previous long-term, large-scale collaboration on southern right whales (Eubalaena australis) to combine new (nnew) and published (npub) mitochondrial (mtDNA) and microsatellite genetic data from all major wintering grounds and, uniquely, the South Georgia (Islas Georgias del Sur: SG) feeding grounds. Specifically, we include data from Argentina (npub mtDNA/microsatellite = 208/46), Brazil (nnew mtDNA/microsatellite = 50/50), South Africa (nnew mtDNA/microsatellite = 66/77, npub mtDNA/microsatellite = 350/47), Chile–Peru (nnew mtDNA/microsatellite = 1/1), the Indo-Pacific (npub mtDNA/microsatellite = 769/126), and SG (npub mtDNA/microsatellite = 8/0, nnew mtDNA/microsatellite = 3/11) to investigate the position of previously unstudied habitats in the migratory network: Brazil, SG, and Chile–Peru. These new genetic data show connectivity between Brazil and Argentina, exemplified by weak genetic differentiation and the movement of 1 genetically identified individual between the South American grounds. The single sample from Chile–Peru had an mtDNA haplotype previously only observed in the Indo-Pacific and had a nuclear genotype that appeared admixed between the Indo-Pacific and South Atlantic, based on genetic clustering and assignment algorithms. The SG samples were clearly South Atlantic and were more similar to the South American than the South African wintering grounds. This study highlights how international collaborations are critical to provide context for emerging or recovering regions, like the SG feeding ground, as well as those that remain critically endangered, such as Chile–Peru.

Description: This work was supported by the EU BEST 2.0 medium grant 1594 and UK DARWIN PLUS grant 057 and additional funding from the World Wildlife Fund GB107301. The collection of the Chile–Peru sample was supported by the Global Greengrants Fund and the Pacific Whale Foundation. The collection of the Brazilian samples was supported through grants by the Brazilian National Research Council to Paulo H. Ott (CNPq proc. n° 144064/98-7) and Paulo A.C. Flores (CNPq proc. n° 146609/1999-9) and with support from the World Wildlife Fund (WWF-Brazil). The collection of the South African samples was supported by the Global Greengrants Fund, the Pacific Whale Foundation and Charles University Grant Agency (1140217). E.L.C. was partially supported by a Rutherford Discovery Fellowship from the Royal Society of New Zealand. This study forms part of the Ecosystems component of the British Antarctic Survey Polar Sciences for Planet Earth Programme, funded by the Natural Environment Research Council.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Lasek-Nesselquist, E., & Johnson, M. D. A phylogenomic approach to clarifying the relationship of Mesodinium within the Ciliophora: a case study in the complexity of mixed-species transcriptome analyses. Genome Biology and Evolution, 11(11), (2019): 3218–3232, doi:10.1093/gbe/evz233.

Description: Recent high-throughput sequencing endeavors have yielded multigene/protein phylogenies that confidently resolve several inter- and intra-class relationships within the phylum Ciliophora. We leverage the massive sequencing efforts from the Marine Microbial Eukaryote Transcriptome Sequencing Project, other SRA submissions, and available genome data with our own sequencing efforts to determine the phylogenetic position of Mesodinium and to generate the most taxonomically rich phylogenomic ciliate tree to date. Regardless of the data mining strategy, the multiprotein data set, or the molecular models of evolution employed, we consistently recovered the same well-supported relationships among ciliate classes, confirming many of the higher-level relationships previously identified. Mesodinium always formed a monophyletic group with members of the Litostomatea, with mixotrophic species of Mesodinium—M. rubrum, M. major, and M. chamaeleon—being more closely related to each other than to the heterotrophic member, M. pulex. The well-supported position of Mesodinium as sister to other litostomes contrasts with previous molecular analyses including those from phylogenomic studies that exploited the same transcriptomic databases. These topological discrepancies illustrate the need for caution when mining mixed-species transcriptomes and indicate that identifying ciliate sequences among prey contamination—particularly for Mesodinium species where expression from stolen prey nuclei appears to dominate—requires thorough and iterative vetting with phylogenies that incorporate sequences from a large outgroup of prey.

Description: We thank David Beaudoin and Holly V. Moeller for their assistance in collecting cells and extracting RNA. We thank the Josephine Bay Paul Center for Comparative Molecular Biology and Evolution at the Marine Biological Laboratory for the generous use of their servers. This work was supported in part by a National Science Foundation grant to both authors (IOS 1354773).

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Xu, X., Li, G., Li, C., Zhang, J., Wang, Q., Simmons, D. K., Chen, X., Wijesena, N., Zhu, W., Wang, Z., Wang, Z., Ju, B., Ci, W., Lu, X., Yu, D., Wang, Q., Aluru, N., Oliveri, P., Zhang, Y. E., Martindale, M. Q., & Liu, J. Evolutionary transition between invertebrates and vertebrates via methylation reprogramming in embryogenesis. National Science Review, 6(5), (2019):993-1003, doi:10.1093/nsr/nwz064.

Description: Major evolutionary transitions are enigmas, and the most notable enigma is between invertebrates and vertebrates, with numerous spectacular innovations. To search for the molecular connections involved, we asked whether global epigenetic changes may offer a clue by surveying the inheritance and reprogramming of parental DNA methylation across metazoans. We focused on gametes and early embryos, where the methylomes are known to evolve divergently between fish and mammals. Here, we find that methylome reprogramming during embryogenesis occurs neither in pre-bilaterians such as cnidarians nor in protostomes such as insects, but clearly presents in deuterostomes such as echinoderms and invertebrate chordates, and then becomes more evident in vertebrates. Functional association analysis suggests that DNA methylation reprogramming is associated with development, reproduction and adaptive immunity for vertebrates, but not for invertebrates. Interestingly, the single HOX cluster of invertebrates maintains unmethylated status in all stages examined. In contrast, the multiple HOX clusters show dramatic dynamics of DNA methylation during vertebrate embryogenesis. Notably, the methylation dynamics of HOX clusters are associated with their spatiotemporal expression in mammals. Our study reveals that DNA methylation reprogramming has evolved dramatically during animal evolution, especially after the evolutionary transitions from invertebrates to vertebrates, and then to mammals.

Description: This work was supported by the National Key Research and Development Program of China (2018YFC1003303), the Strategic Priority Research Program of the CAS (XDB13040200), the National Natural Science Foundation of China (91519306, 31425015), the Youth Innovation Promotion Association of the CAS and the Key Research Program of Frontier Sciences, CAS (QYZDY-SSW-SMC016).

Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Vallecillo-Viejo, I. C., Liscovitch-Brauer, N., Diaz Quiroz, J. F., Montiel-Gonzalez, Maria F., Nemes, Sonya E., Rangan, K. J., Levinson, S. R., Eisenberg, E., & Rosenthal, J. J. C. Spatially regulated editing of genetic information within a neuron. Nucleic Acids Research, (2020): gkaa172, doi: 10.1093/nar/gkaa172.

Description: In eukaryotic cells, with the exception of the specialized genomes of mitochondria and plastids, all genetic information is sequestered within the nucleus. This arrangement imposes constraints on how the information can be tailored for different cellular regions, particularly in cells with complex morphologies like neurons. Although messenger RNAs (mRNAs), and the proteins that they encode, can be differentially sorted between cellular regions, the information itself does not change. RNA editing by adenosine deamination can alter the genome’s blueprint by recoding mRNAs; however, this process too is thought to be restricted to the nucleus. In this work, we show that ADAR2 (adenosine deaminase that acts on RNA), an RNA editing enzyme, is expressed outside of the nucleus in squid neurons. Furthermore, purified axoplasm exhibits adenosine-to-inosine activity and can specifically edit adenosines in a known substrate. Finally, a transcriptome-wide analysis of RNA editing reveals that tens of thousands of editing sites (〉70% of all sites) are edited more extensively in the squid giant axon than in its cell bodies. These results indicate that within a neuron RNA editing can recode genetic information in a region-specific manner.

Description: National Science Foundation (NSF) [IOS1557748 to J.R.]; United States–Israel Binational Science Foundation [BSF2013094 to J.R. and E.E.]; The Grass Foundation grant in support of the Doryteuthis pealeii Genome Project, and a gift by Mr. Edward Owens. Funding for open access charge: United States–Israel Binational Science Foundation [BSF2013094].

Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in da Fonseca, R. R., Couto, A., Machado, A. M., Brejova, B., Albertin, C. B., Silva, F., Gardner, P., Baril, T., Hayward, A., Campos, A., Ribeiro, A. M., Barrio-Hernandez, I., Hoving, H. J., Tafur-Jimenez, R., Chu, C., Frazao, B., Petersen, B., Penaloza, F., Musacchia, F., Alexander, G. C., Osorio, H., Winkelmann, I., Simakov, O., Rasmussen, S., Rahman, M. Z., Pisani, D., Vinther, J., Jarvis, E., Zhang, G., Strugnell, J. M., Castro, L. F. C., Fedrigo, O., Patricio, M., Li, Q., Rocha, S., Antunes, A., Wu, Y., Ma, B., Sanges, R., Vinar, T., Blagoev, B., Sicheritz-Ponten, T., Nielsen, R., & Gilbert, M. T. P. A draft genome sequence of the elusive giant squid, Architeuthis dux. Gigascience, 9(1), (2020): giz152. doi: 10.1093/gigascience/giz152.

Description: Background: The giant squid (Architeuthis dux; Steenstrup, 1857) is an enigmatic giant mollusc with a circumglobal distribution in the deep ocean, except in the high Arctic and Antarctic waters. The elusiveness of the species makes it difficult to study. Thus, having a genome assembled for this deep-sea–dwelling species will allow several pending evolutionary questions to be unlocked. Findings: We present a draft genome assembly that includes 200 Gb of Illumina reads, 4 Gb of Moleculo synthetic long reads, and 108 Gb of Chicago libraries, with a final size matching the estimated genome size of 2.7 Gb, and a scaffold N50 of 4.8 Mb. We also present an alternative assembly including 27 Gb raw reads generated using the Pacific Biosciences platform. In addition, we sequenced the proteome of the same individual and RNA from 3 different tissue types from 3 other species of squid (Onychoteuthis banksii, Dosidicus gigas, and Sthenoteuthis oualaniensis) to assist genome annotation. We annotated 33,406 protein-coding genes supported by evidence, and the genome completeness estimated by BUSCO reached 92%. Repetitive regions cover 49.17% of the genome. Conclusions: This annotated draft genome of A. dux provides a critical resource to investigate the unique traits of this species, including its gigantism and key adaptations to deep-sea environments.

Description: R.R.F. thanks the Villum Fonden for grant VKR023446 (Villum Fonden Young Investigator Grant), the Portuguese Science Foundation (FCT) for grant PTDC/MAR/115347/2009; COMPETE-FCOMP-01-012; FEDER-015453, Marie Curie Actions (FP7-PEOPLE-2010-IEF, Proposal 272927), and the Danish National Research Foundation (DNRF96) for its funding of the Center for Macroecology, Evolution, and Climate. H.O. thanks the Rede Nacional de Espectrometria de Massa, ROTEIRO/0028/2013, ref. LISBOA-01-0145-FEDER-022125, supported by COMPETE and North Portugal Regional Operational Programme (Norte2020), under the PORTUGAL 2020 Partnership Agreement, through the European Regional Development Fund (ERDF). A.C. thanks FCT for project UID/Multi/04423/2019. M.P. acknowledges the support from the Wellcome Trust (grant number WT108749/Z/15/Z) and the European Molecular Biology Laboratory. M.P.T.G. thanks the Danish National Research Foundation for its funding of the Center for GeoGenetics (grant DNRF94) and Lundbeck Foundation for grant R52–5062 on Pathogen Palaeogenomics. S.R. was supported by the Novo Nordisk Foundation grant NNF14CC0001. A.H. is supported by a Biotechnology and Biological Sciences Research Council David Phillips Fellowship (fellowship reference: BB/N020146/1). T.B. is supported by the Biotechnology and Biological Sciences Research Council-funded South West Biosciences Doctoral Training Partnership (training grant reference BB/M009122/1). This work was partially funded by the Lundbeck Foundation (R52-A4895 to B.B.). H.J.T.H. was supported by the David and Lucile Packard Foundation, the Netherlands Organization for Scientific Research (#825.09.016), and currently by the Deutsche Forschungsgemeinschaft (DFG) under grant HO 5569/2-1 (Emmy Noether Junior Research Group). T.V. and B. Brejova were supported by grants from the Slovak grant agency VEGA (1/0684/16, 1/0458/18). F.S. was supported by a PhD grant (SFRH/BD/126560/2016) from FCT. A.A. was partly supported by the FCT project PTDC/CTA-AMB/31774/2017. C.C. and Y.W. are partly supported by grant IIS-1526415 from the US National Science Foundation. Computation for the work described in this article was partially supported by the DeiC National Life Science Supercomputer at DTU.

Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Beckman, N. G., Asian, C. E., Rogers, H. S., Kogan, O., Bronstein, J. L., Bullock, J. M., Hartig, F., HilleRisLambers, J., Zhou, Y., Zurell, D., Brodie, J. F., Bruna, E. M., Cantrell, R. S., Decker, R. R., Efiom, E., Fricke, E. C., Gurski, K., Hastings, A., Johnson, J. S., Loiselle, B. A., Miriti, M. N., Neubert, M. G., Pejchar, L., Poulsen, J. R., Pufal, G., Razafindratsima, O. H., Sandor, M. E., Shea, K., Schreiber, S., Schupp, E. W., Snell, R. S., Strickland, C., & Zambrano, J. Advancing an interdisciplinary framework to study seed dispersal ecology. Aob Plants, 12(2), (2020): plz048, doi:10.1093/aobpla/plz048.

Description: Although dispersal is generally viewed as a crucial determinant for the fitness of any organism, our understanding of its role in the persistence and spread of plant populations remains incomplete. Generalizing and predicting dispersal processes are challenging due to context dependence of seed dispersal, environmental heterogeneity and interdependent processes occurring over multiple spatial and temporal scales. Current population models often use simple phenomenological descriptions of dispersal processes, limiting their ability to examine the role of population persistence and spread, especially under global change. To move seed dispersal ecology forward, we need to evaluate the impact of any single seed dispersal event within the full spatial and temporal context of a plant’s life history and environmental variability that ultimately influences a population’s ability to persist and spread. In this perspective, we provide guidance on integrating empirical and theoretical approaches that account for the context dependency of seed dispersal to improve our ability to generalize and predict the consequences of dispersal, and its anthropogenic alteration, across systems. We synthesize suitable theoretical frameworks for this work and discuss concepts, approaches and available data from diverse subdisciplines to help operationalize concepts, highlight recent breakthroughs across research areas and discuss ongoing challenges and open questions. We address knowledge gaps in the movement ecology of seeds and the integration of dispersal and demography that could benefit from such a synthesis. With an interdisciplinary perspective, we will be able to better understand how global change will impact seed dispersal processes, and potential cascading effects on plant population persistence, spread and biodiversity.

Description: Ideas for this manuscript initiated during the Seed Dispersal Workshop held in May 2016 at the Socio-Environmental Synthesis Center in Annapolis, MD and supported by the US National Science Foundation Grant DEB-1548194 to N.G.B. and the National Socio-Environmental Synthesis Center under the US National Science Foundation Grant DBI-1052875. D.Z. received funding from the Swiss National Science Foundation (SNF, grant: PZ00P3_168136/1) and from the German Science Foundation (DFG, grant: ZU 361/1-1).

Description: Author Posting. © The Author(s), 2020. This is the author's version of the work. It is posted here by permission of Oxford University Press for personal use, not for redistribution. The definitive version was published in Toxicological Sciences (2020): kfaa158, doi:10.1093/toxsci/kfaa158.

Description: Chemical modifications of proteins, DNA, and RNA moieties play critical roles in regulating gene expression. Emerging evidence suggests the RNA modifications (epitranscriptomics) have substantive roles in basic biological processes. One of the most common modifications in mRNA and noncoding RNAs is N6-methyladenosine (m6A). In a subset of mRNAs, m6A sites are preferentially enriched near stop codons, in 3′ UTRs, and within exons, suggesting an important role in the regulation of mRNA processing and function including alternative splicing and gene expression. Very little is known about the effect of environmental chemical exposure on m6A modifications. As many of the commonly occurring environmental contaminants alter gene expression profiles and have detrimental effects on physiological processes, it is important to understand the effects of exposure on this important layer of gene regulation. Hence, the objective of this study was to characterize the acute effects of developmental exposure to PCB126, an environmentally relevant dioxin-like PCB, on m6A methylation patterns. We exposed zebrafish embryos to PCB126 for 6 h starting from 72 h post fertilization and profiled m6A RNA using methylated RNA immunoprecipitation followed by sequencing (MeRIP-seq). Our analysis revealed 117 and 217 m6A peaks in the DMSO and PCB126 samples (false discovery rate 5%), respectively. The majority of the peaks were preferentially located around the 3′ UTR and stop codons. Statistical analysis revealed 15 m6A marked transcripts to be differentially methylated by PCB126 exposure. These include transcripts that are known to be activated by AHR agonists (eg, ahrra, tiparp, nfe2l2b) as well as others that are important for normal development (vgf, cebpd, sned1). These results suggest that environmental chemicals such as dioxin-like PCBs could affect developmental gene expression patterns by altering m6A levels. Further studies are necessary to understand the functional consequences of exposure-associated alterations in m6A levels.

Description: National Institute of Health National Institute of Environmental Health Sciences Outstanding New Environmental Scientist (NIH R01ES024915 to N.A.); Woods Hole Center for Oceans and Human Health [National Institutes of Health (NIH) (Grant P01ES028938); National Science Foundation (Grant OCE-1840381) to M. E. Hahn, J. J. Stegeman, N.A., and S.K.].

Description: 2021-10-16

Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Lamb, D. C., Hargrove, T. Y., Zhao, B., Wawrzak, Z., Goldstone, J. V., Nes, W. D., Kelly, S. L., Waterman, M. R., Stegeman, J. J., & Lepesheva, G. I. Concerning P450 evolution: structural analyses support bacterial origin of sterol 14α-demethylases. Molecular Biology and Evolution, (2020): msaa260, doi:10.1093/molbev/msaa260.

Description: Sterol biosynthesis, primarily associated with eukaryotic kingdoms of life, occurs as an abbreviated pathway in the bacterium Methylococcus capsulatus. Sterol 14α-demethylation is an essential step in this pathway and is catalyzed by cytochrome P450 51 (CYP51). In M. capsulatus, the enzyme consists of the P450 domain naturally fused to a ferredoxin domain at the C-terminus (CYP51fx). The structure of M. capsulatus CYP51fx was solved to 2.7 Å resolution and is the first structure of a bacterial sterol biosynthetic enzyme. The structure contained one P450 molecule per asymmetric unit with no electron density seen for ferredoxin. We connect this with the requirement of P450 substrate binding in order to activate productive ferredoxin binding. Further, the structure of the P450 domain with bound detergent (which replaced the substrate upon crystallization) was solved to 2.4 Å resolution. Comparison of these two structures to the CYP51s from human, fungi, and protozoa reveals strict conservation of the overall protein architecture. However, the structure of an “orphan” P450 from nonsterol-producing Mycobacterium tuberculosis that also has CYP51 activity reveals marked differences, suggesting that loss of function in vivo might have led to alterations in the structural constraints. Our results are consistent with the idea that eukaryotic and bacterial CYP51s evolved from a common cenancestor and that early eukaryotes may have recruited CYP51 from a bacterial source. The idea is supported by bioinformatic analysis, revealing the presence of CYP51 genes in 〉1,000 bacteria from nine different phyla, 〉50 of them being natural CYP51fx fusion proteins.

Description: The study was supported by National Institutes of Health (Grant No. R01 GM067871 to G.I.L.) and by a UK-USA Fulbright Scholarship and the Royal Society (to D.C.L.).

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Zemeckis, D. R., Dean, M. J., DeAngelis, A. I., Van Parijs, S. M., Hoffman, W. S., Baumgartner, M. F., Hatch, L. T., Cadrin, S. X., & McGuire, C. H. Identifying the distribution of Atlantic cod spawning using multiple fixed and glider-mounted acoustic technologies. ICES Journal of Marine Science, 76(6), (2019): 1610-1625, doi: 10.1093/icesjms/fsz064.

Description: Effective fishery management measures to protect fish spawning aggregations require reliable information on the spatio-temporal distribution of spawning. Spawning closures have been part of a suite of fishery management actions to rebuild the Gulf of Maine stock of Atlantic cod (Gadus morhua), but difficulties remain with managing rebuilding. The objective of this study was to identify the spatial and temporal distribution of cod spawning during winter in Massachusetts Bay to improve our understanding of cod spawning dynamics and inform fisheries management. Spawning was investigated in collaboration with commercial fishermen during three winter spawning seasons (October 2013–March 2016) using acoustic telemetry and passive acoustic monitoring equipment deployed in fixed-station arrays and mounted on mobile autonomous gliders. Tagged cod exhibited spawning site fidelity and spawning primarily occurred from early November through January with a mid-December peak and some inter-annual variability. The spatial distribution of spawning was generally consistent among years with multiple hotspots in areas 〉50 m depth. Current closures encompass most of spawning, but important areas are recommended for potential modifications. Utilizing multiple complementary technologies and deployment strategies in collaboration with commercial fishermen enabled a comprehensive description of spawning and provides a valuable model for future studies.

Description: Year 1 was jointly funded by The Nature Conservancy and Massachusetts Division of Marine Fisheries. The remainder of this research was funded through the 2013–2014 NOAA Saltonstall Kennedy grant program (Award No. NA14NMF4270027) with additional support from the Nature Conservancy and Cabot Family Charitable Foundation.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Dong, E., Zhang, Y., Song, Z., Zhang, T., Cai, C., & Fang, N. X. Physical modeling and validation of porpoises' directional emission via hybrid metamaterials. National Science Review, 6(5), (2019): 921-928, doi:10.1093/nsr/nwz085.

Description: In wave physics and engineering, directional emission sets a fundamental limitation on conventional simple sources as their sizes should be sufficiently larger than their wavelength. Artificial metamaterial and animal biosonar both show potential in overcoming this limitation. Existing metamaterials arranged in periodic microstructures face great challenges in realizing complex and multiphase biosonar structures. Here, we proposed a physical directional emission model to bridge the gap between porpoises’ biosonar and artificial metamaterial. Inspired by the anatomical and physical properties of the porpoise's biosonar transmission system, we fabricated a hybrid metamaterial system composed of multiple composite structures. We validated that the hybrid metamaterial significantly increased directivity and main lobe energy over a broad bandwidth both numerically and experimentally. The device displayed efficiency in detecting underwater target and suppressing false target jamming. The metamaterial-based physical model may be helpful to achieve the physical mechanisms of porpoise biosonar detection and has diverse applications in underwater acoustic sensing, ultrasound scanning, and medical ultrasonography.

Description: E.D., Y.Z., Z.S., T.Z. and C.C. acknowledge the financial support in part by the National Key Research and Development Program of China (2018YFC1407504), the National Natural Science Foundation of China (41676023, 41276040 and 41422604). N.X.F. acknowledges the support from the MIT Energy Initiative grant. Z.S. thanks the China Scholarship Council for the financial support of his oversea study in Woods Hole Oceanographic Institution.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Lin, J., Xu, Y., Sun, Z., & Zhou, Z. Mantle upwelling beneath the South China Sea and links to surrounding subduction systems. National Science Review, 6(5), (2019): 877-881, doi:10.1093/nsr/nwz123.

Description: The evolution of the South China Sea (SCS) is directly linked to the complex subduction systems of the surrounding Pacific, Philippine Sea and Indo-Australian Plates (Fig. 1a). Major advances in the last several years are providing new insights into the SCS-mantle dynamics, through regional seismic imaging of the upper mantle [1,2], unprecedented IODP drilling expeditions (349/367/368/368X) [3–5] that obtained the oceanic basement basalt samples for the first time, geochemical analyses of the SCS-mantle source compositions [6–8] and geodynamic modeling [9,10]. Furthermore, new geological mapping, seismic imaging [11,12] and IODP drilling [13,14] have revealed evidence for significantly greater magma production at the northern SCS rifted margin, in comparison to the magma-poor end-member of the Atlantic rifted margins. This paper provides a new perspective of the SCS-mantle dynamics inspired by new observations and geodynamic modeling. We first highlight new geophysical evidence for a broad region of low-seismic-velocity anomalies in the upper mantle beneath the northern SCS, abundant magmatism during continental breakup and post-seafloor spreading, and geochemical evidence for recycled oceanic components beneath the SCS. We then present new models of layered flows in the mantle beneath the SCS, revealing two modes of plate- and subduction-driven mantle upwelling, including (i) narrow centers of mantle upwelling at shallow depths induced by divergent plate motion at seafloor-spreading centers and (ii) broad zones of mantle upwelling as a result of subduction-induced mantle-return flows at greater depths. These new observations and geodynamic studies suggest strong links between mantle upwelling beneath the SCS and surrounding subducting plates.

Description: This work was supported by the National Natural Science Foundation of China (41890813, 91628301, U1606401, 41976066, 91858207 and 41706056), the Chinese Academy of Sciences (Y4SL021001, QYZDY-SSW-DQC005 and 133244KYSB20180029), the Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou, GML2019ZD0205), the National Key R&D Program of China (2018YFC0309800 and 2018YFC0310100), the State Oceanic Administration (GASI-GEOGE-02) and China Ocean Mineral Resources R&D Association (DY135-S2–1-04).

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Sun, Z., Lin, J., Qiu, N., Jian, Z., Wang, P., Pang, X., Zheng, J., & Zhu, B. The role of magmatism in the thinning and breakup of the South China Sea continental margin: Special Topic: the South China Sea Ocean Drilling. National Science Review, 6(5), (2019): 871-876, doi:10.1093/nsr/nwz116.

Description: Magmatism plays a key role in the process of continental margin breakup and ocean formation. Even in the extremely magma-poor Iberia and Newfoundland margin, studies of field outcrops have shown that syn-rift magmatism had participated in rifting from a very early stage and contributed directly to the rifting process. The final transition from exhumed continental mantle to the ocean formation is also triggered by the accumulation and eruption of magma [1]. Therefore, Atlantic-type passive continental margins are classified into two end-members: magma-poor (non-volcanic) and magma-rich (volcanic). The differences between them lie in whether a large amount of intrusive and extrusive magmatism from the mantle plume/hotspot is involved in the syn-rift and breakup stages. A magma-rich margin [2] should include the following characteristics: (i) a high-velocity lower crust (HVLC) caused by syn-rift mafic magma underplating; (ii) continental crust intruded by abundant sills and dikes; (iii) a large volume of seaward-dipping reflectors (SDRs) caused by flood basalt eruption or tuffs. All other margins are classified as magma-poor margins.

Description: We thank the research team project of Guangdong Natural Science Foundation (2017A030312002), IODP-China and South China Sea Deep Project (91628301) and K.C. Wong Education Foundation (GJTD-2018-13) for providing support for the research. This research was also supported by the China National Science and Technology Major Project (2016ZX05026–003), the joint foundation of the National Natural Science Foundation of China and Guangdong province (U1301233), as well as the National Natural Science Foundation of China (41576070 and 41890813).

Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Johnson, W. M., Alexander, H., Bier, R. L., Miller, D. R., Muscarella, M. E., Pitz, K. J., & Smith, H. Auxotrophic interactions: A stabilizing attribute of aquatic microbial communities? FEMS Microbiology Ecology, (2020): fiaa115, doi: 10.1093/femsec/fiaa115.

Description: Auxotrophy, or an organism's requirement for an exogenous source of an organic molecule, is widespread throughout species and ecosystems. Auxotrophy can result in obligate interactions between organisms, influencing ecosystem structure and community composition. We explore how auxotrophy-induced interactions between aquatic microorganisms affect microbial community structure and stability. While some studies have documented auxotrophy in aquatic microorganisms, these studies are not widespread, and we therefore do not know the full extent of auxotrophic interactions in aquatic environments. Current theoretical and experimental work suggests that auxotrophy links microbial community members through a complex web of metabolic dependencies. We discuss the proposed ways in which auxotrophy may enhance or undermine the stability of aquatic microbial communities, highlighting areas where our limited understanding of these interactions prevents us from being able to predict the ecological implications of auxotrophy. Finally, we examine an example of auxotrophy in harmful algal blooms to place this often theoretical discussion in a field context where auxotrophy may have implications for the development and robustness of algal bloom communities. We seek to draw attention to the relationship between auxotrophy and community stability in an effort to encourage further field and theoretical work that explores the underlying principles of microbial interactions.

Description: This work was supported by the National Science Foundation [OCE-1356192].

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Wang, P., Huang, C., Lin, J., Jian, Z., Sun, Z., & Zhao, M. The South China Sea is not a mini-Atlantic: plate-edge rifting vs intra-plate rifting. National Science Review, 6(5), (2019): 902-913, doi:10.1093/nsr/nwz135.

Description: The South China Sea, as ‘a non-volcanic passive margin basin’ in the Pacific, has often been considered as a small-scale analogue of the Atlantic. The recent ocean drilling in the northern South China Sea margin found, however, that the Iberian model of non-volcanic rifted margin from the Atlantic does not apply to the South China Sea. In this paper, we review a variety of rifted basins and propose to discriminate two types of rifting basins: plate-edge type such as the South China Sea and intra-plate type like the Atlantic. They not only differ from each other in structure, formation process, lifespan and geographic size, but also occur at different stages of the Wilson cycle. The intra-plate rifting occurred in the Mesozoic and gave rise to large oceans, whereas the plate-edge rifting took place mainly in the mid-Cenozoic, with three-quarters of the basins concentrated in the Western Pacific. As a member of the Western Pacific system of marginal seas, the South China Sea should be studied not in isolation on its origin and evolution, but in a systematic context to include also its neighboring counterparts.

Description: This work was supported by the National Natural Science Foundation of China as a part of the ‘South China Sea Deep’ Project (91128000).

Description: Intense bottom-ice algal blooms, often dominated by diatoms, are an important source of food for grazers, organic matter for export during sea ice melt, and dissolved organic carbon. Sea-ice diatoms have a number of adaptations, including accumulation of compatible solutes, that allows them to inhabit this highly variable environment characterized by extremes in temperature, salinity, and light. In addition to protecting them from extreme conditions, these compounds present a labile, nutrient-rich source of organic matter, and include precursors to climate active compounds (e.g., dimethyl sulfide [DMS]), which are likely regulated with environmental change. Here, intracellular concentrations of 45 metabolites were quantified in three sea-ice diatom species and were compared to two temperate diatom species, with a focus on compatible solutes and free amino acid pools. There was a large diversity of metabolite concentrations between diatoms with no clear pattern identifiable for sea-ice species. Concentrations of some compatible solutes (isethionic acid, homarine) approached 1 M in the sea-ice diatoms, Fragilariopsis cylindrus and Navicula cf. perminuta, but not in the larger sea-ice diatom, Nitzschia lecointei or in the temperate diatom species. The differential use of compatible solutes in sea-ice diatoms suggests different adaptive strategies and highlights which small organic compounds may be important in polar biogeochemical cycles.

Description: © 2009 The Authors. This article is distributed under the terms of the Creative Commons Attribution Non-Commercial License. The definitive version was published in ICES Journal of Marine Science: Journal du Conseil 67 (2010): 379-394, doi:10.1093/icesjms/fsp242.

Description: In principle, measurements of high-frequency acoustic scattering from oceanic microstructure and zooplankton across a broad range of frequencies can reduce the ambiguities typically associated with the interpretation of acoustic scattering at a single frequency or a limited number of discrete narrowband frequencies. With this motivation, a high-frequency broadband scattering system has been developed for investigating zooplankton and microstructure, involving custom modifications of a commercially available system, with almost complete acoustic coverage spanning the frequency range 150–600 kHz. This frequency range spans the Rayleigh-to-geometric scattering transition for some zooplankton, as well as the diffusive roll-off in the spectrum for scattering from turbulent temperature microstructure. The system has been used to measure scattering from zooplankton and microstructure in regions of non-linear internal waves. The broadband capabilities of the system provide a continuous frequency response of the scattering over a wide frequency band, and improved range resolution and signal-to-noise ratios through pulse-compression signal-processing techniques. System specifications and calibration procedures are outlined and the system performance is assessed. The results point to the utility of high-frequency broadband scattering techniques in the detection, classification, and under certain circumstances, quantification of zooplankton and microstructure.

Description: The work was supported by the US Office of Naval Research (Grant # N000140210359).

Description: Author Posting. © Society of Systematic Biologists, 2006. This article is posted here by permission of Oxford University Press for personal use, not for redistribution. The definitive version was published in Systematic Biology 55 (2006): 875-885, doi:10.1080/10635150601077683.

Description: Penelope-like elements (PLEs) are a relatively little studied class of eukaryotic retroelements, distinguished by the presence of the GIY-YIG endonuclease domain, the ability of some representatives to retain introns, and the similarity of PLE-encoded reverse transcriptases to telomerases. Although these retrotransposons are abundant in many animal genomes, the reverse transcriptase moiety can also be found in several protists, fungi, and plants, indicating its ancient origin. A comprehensive phylogenetic analysis of PLEs was conducted, based on extended sequence alignments and a considerably expanded data set. PLEs exhibit the pattern of evolution similar to that of non-LTR retrotransposons, which form deep-branching clades dating back to the Precambrian era. However, PLEs seem to have experienced a much higher degree of lineage losses than non-LTR retrotransposons. It is suggested that PLEs and non-LTR retrotransposons are included into a larger eTPRT (eukaryotic target-primed) group of retroelements, characterized by 5' truncation, variable target-site duplication, and the potential of the 3' end to participate in formation of non-autonomous derivatives.

Description: This work was supported by the U.S. National Science Foundation (MCB 0614142).

Description: This paper is not subject to U.S. copyright. The definitive version was published in ICES Journal of Marine Science: Journal du Conseil 67 (2010): 1-9, doi:10.1093/icesjms/fsp221.

Description: Effective marine ecosystem-based management (EBM) requires understanding the key processes and relationships controlling the aspects of biodiversity, productivity, and resilience to perturbations. Unfortunately, the scales, complexity, and non-linear dynamics that characterize marine ecosystems often confound managing for these properties. Nevertheless, scientifically derived decision-support tools (DSTs) are needed to account for impacts resulting from a variety of simultaneous human activities. Three possible methodologies for revealing mechanisms necessary to develop DSTs for EBM are: (i) controlled experimentation, (ii) iterative programmes of observation and modelling ("learning by doing"), and (iii) comparative ecosystem analysis. We have seen that controlled experiments are limited in capturing the complexity necessary to develop models of marine ecosystem dynamics with sufficient realism at appropriate scales. Iterative programmes of observation, model building, and assessment are useful for specific ecosystem issues but rarely lead to generally transferable products. Comparative ecosystem analyses may be the most effective, building on the first two by inferring ecosystem processes based on comparisons and contrasts of ecosystem response to human-induced factors. We propose a hierarchical system of ecosystem comparisons to include within-ecosystem comparisons (utilizing temporal and spatial changes in relation to human activities), within-ecosystem-type comparisons (e.g. coral reefs, temperate continental shelves, upwelling areas), and cross-ecosystem-type comparisons (e.g. coral reefs vs. boreal, terrestrial vs. marine ecosystems). Such a hierarchical comparative approach should lead to better understanding of the processes controlling biodiversity, productivity, and the resilience of marine ecosystems. In turn, better understanding of these processes will lead to the development of increasingly general laws, hypotheses, functional forms, governing equations, and broad interpretations of ecosystem responses to human activities, ultimately improving DSTs in support of EBM.

Description: 〈b〉Paleomagnetic determination of paleolatitude and rotation of Bering Island (Komandorsky Islands) Russia: comparison with rotations in the Aleutian Islands and Kamchatka〈/b〉〈br〉 P. S. Minyuk and D. B. Stone〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 329-348, https://doi.org/10.5194/smsps-4-329-2009, 2009〈br〉 A paleomagnetic study was carried out on Paleogene sedimentary rocks from Bering Island, Komandorsky islands, located at the far western end of the Aleutian Island Arc. The age of these sediments has been debated at length, but the combination of magnetostratigraphy with the fossil record indicates that the base of the section is of early Eocene (approximately 55 Ma) and the top latest Eocene age. Paleomagnetic data were obtained from 260 samples from 60 individual bedding units. The combined data show a clockwise rotation 〈i〉R〈/i〉=26.3°±8.5°, 〈i〉F〈/i〉=8.1°±2.5° with respect to the North American Plate and 〈i〉R〈/i〉=38°±8.8°, 〈i〉F〈/i〉=8.7°±2.7° with respect to the Eurasian Plate. They also show a shallowing of the inclination which yields a paleolatitude of 53°, 12° south of its expected latitude. The shallowing may have a component due to compaction, but the wide variation in sampled lithologies, combined with internal consistency of the data set, would argue against the shallowing being significant. To compare these data with other Aleutian Arc data we compiled a comprehensive survey of all available data sets. Out of these we selected four islands for which the data passed basic reliability criteria, namely Umnak, Amlia, Amchitka and Medny islands. All four showed significant clockwise rotation with respect to both North American and Eurasian polar wander paths. Several mechanisms can generate the observed rotation, ranging from block rotation driven by oblique relative motion of the Pacific plate, through lateral transport along the curve of the arc, to whole-arc rotation about its eastern end. The distribution and age spread of the rotation data are insufficient to discriminate between mechanisms, but it seems likely that different mechanism may have operated at different times and in different locations.

Description: 〈b〉Paleomagnetism of the Cretaceous rocks from Cape Kronotskiy, East Kamchatka and reconstruction of terrane trajectories in the NE Pacific area〈/b〉〈br〉 W. Harbert, N. V. Tsukanov, D. V. Alexeiev, C. Gaedicke, R. Freitag, B. V. Baranov, S. G. Skolotnev, W. Kramer, and W. Seifert〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 313-327, https://doi.org/10.5194/smsps-4-313-2009, 2009〈br〉 The Kamchatka Peninsula of northeastern Russia is located along the northwestern margin of the Bering Sea and consists of zones of complexly deformed accreted terranes. Paleomagnetic samples were collected for study from a Late Cretaceous aged locality at Cape Kronotskiy (λ=54°44.8´ N, φ=162°1.29´ E). Two components of magnetization were observed. During stepwise thermal demagnetization, the B-magnetic component was observed up to 600°C having a direction and associated uncertainty in stratigraphic coordinates of 〈i〉D〈sub〉s〈/sub〉〈/i〉=300.7°, 〈i〉I〈sub〉s〈/sub〉〈/i〉=48.7°, α〈sub〉95〈/sub〉=10.9°, k-value=11.8, n=17. The B component paleolatitude calculated from the Fisher mean in stratigraphic coordinates and associated statistics are λ〈sub〉obs〈/sub〉=30.4° N or S, λ〈sub〉95〈/sub〉=8.9°, n=17 (sites), k-value=11. Our overall study paleolatitude result is similar to a previously reported paleomagnetic study completed within this unit. Terrane trajectories calculated using the finite rotation poles of Engebretson et al. (1985), which are corrected for either Pacific-hotspot drift or True Polar Wander hotspot-spin axis relative motion, show that the sampled unit represents a far traveled tectonostratigraphic terrane and support a model in which accretion (docking) events of this composite or superterrane with the North America plate occur at approximately 40 Ma.

Description: 〈b〉Comparison of Cretaceous granitoids of the Chaun tectonic zone to those of the Taigonos Peninsula, NE Asia: rock chemistry, composition of rock forming minerals, and conditions of formation〈/b〉〈br〉 P. L. Tikhomirov, M. V. Luchitskaya, and I. R. Kravchenko-Berezhnoy〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 289-311, https://doi.org/10.5194/smsps-4-289-2009, 2009〈br〉 The Cretaceous granitoid complexes of the Eastern Taigonos and the Prybrezhny Taigonos belts (southern part of the Taigonos Peninsula), Tanyurer pluton of the Okhotsk-Chukotka volcanic belt, and the Peekiney, Moltykan, and Telekay plutons of the Chaun tectonic zone are discussed in relation to their structural position, petrography, rock and mineral chemistry and physicochemical conditions of melt crystallization. These granitoid plutons were generated through melting of a compositionally heterogeneous crustal source, with direct contribution from mafic melts produced in the mantle wedge above active or extinct Benioff zones. Variations of the trace-element composition of granitoids are controlled to a greater extent by local compositional peculiarities of the source regions than by the geodynamic regime as such. The final crystallization of these plutons occurred at comparatively shallow depths, between 1–2 and 6–7 km, in a temperature interval of 700–770°C. The depth of emplacement of the bodies decreases with increasing distance from the areas with oceanic and transitional type crust, as does the degree of incompatible element enrichment of the mantle and crustal sources of melts. Variations in fo〈sub〉2〈/sub〉 values at the late stages of crystallization of the plutons reach 3–4 orders of magnitude, exceeding the limits of the quartz-fayalite-magnetite (QFM) and nickel-nickel oxide (NNO) buffer equilibria, which likely results from local variations of the source composition.

Description: 〈b〉Thermogeodynamic manifestations in the Caucasus and their genesis〈/b〉〈br〉 G. E. Gugunava, J. K. Kiria, and T. B. Bochorishvili〈br〉 eEarth Discuss., 4, 77-89, doi:10.5194/eed-4-77-2009, 2009〈br〉 〈b〉Publication in eE not foreseen〈/b〉 (discussion: closed, 2 comments)〈br〉 In the work two aspects of thermal character are considered: first of all this is the connection of subduction phenomena with thermal life of the Caucasus on the basis of over interpreted data of magnetotelluric sounding, and secondly, origin of thermostressed condition of the Caucasus and its geological aspects which is manifested in the following: 〈br〉〈br〉 1. in the zones of anomalous thermodisplacements thermofaults should occur (Le Pishon et al., 1977). These thermofaults are in good correlation with deep faults which are distinguished by geological and seismic methods, these thermofaults may be earthquake sources (Spitak, Racha, etc. earthquakes), also may be channels through which magma derivates (giving mineral deposits) may penetrate on surface (Gugunava and Gijeishvili, 1989); 〈br〉〈br〉 2. in the body of sedimentary complex thermostressed seals and seal failures occur, which are apparently traps for oil-gas fluids. Good correlation of thermodense anomalies with oil deposits of the Caucasus is shown (Alexidze et al., 1985; Gugunava, 1980). 〈br〉〈br〉 Everything above mentioned was carried out within frames of stationary thermal model which did not allow us to reveal time characteristics of interconnection of geological medium and thermal field. 〈br〉〈br〉 Now investigations are being carried out within the frames of stationary thermal model and its interconnection with geological environment.

Description: 〈b〉Thermogeodynamic manifestations in the Caucasus and their genesis〈/b〉〈br〉 G. E. Gugunava, J. K. Kiria, and T. B. Bochorishvili〈br〉 eEarth Discuss., 4, 77-89, doi:10.5194/eed-4-77-2009, 2009〈br〉 〈b〉Publication in eE not foreseen〈/b〉 (discussion: closed, 2 comments)〈br〉 In the work two aspects of thermal character are considered: first of all this is the connection of subduction phenomena with thermal life of the Caucasus on the basis of over interpreted data of magnetotelluric sounding, and secondly, origin of thermostressed condition of the Caucasus and its geological aspects which is manifested in the following: 〈br〉〈br〉 1. in the zones of anomalous thermodisplacements thermofaults should occur (Le Pishon et al., 1977). These thermofaults are in good correlation with deep faults which are distinguished by geological and seismic methods, these thermofaults may be earthquake sources (Spitak, Racha, etc. earthquakes), also may be channels through which magma derivates (giving mineral deposits) may penetrate on surface (Gugunava and Gijeishvili, 1989); 〈br〉〈br〉 2. in the body of sedimentary complex thermostressed seals and seal failures occur, which are apparently traps for oil-gas fluids. Good correlation of thermodense anomalies with oil deposits of the Caucasus is shown (Alexidze et al., 1985; Gugunava, 1980). 〈br〉〈br〉 Everything above mentioned was carried out within frames of stationary thermal model which did not allow us to reveal time characteristics of interconnection of geological medium and thermal field. 〈br〉〈br〉 Now investigations are being carried out within the frames of stationary thermal model and its interconnection with geological environment.

Description: 〈b〉Holocene evolution and sedimentation rate of Alikes Lagoon, Zakynthos island, Western Greece: preliminary results〈/b〉〈br〉 P. Avramidis and N. Kontopoulos〈br〉 eEarth, 4, 23-29, doi:10.5194/ee-4-23-2009, 2009〈br〉 In the present study we present preliminary results from Alikes lagoon in Zakynthos island, an area that is one of the most seismically active regions of Greece. In order to estimate – interpret the Holocene evolution of the area and to reconstruct the palaeoenvironmental changes, we based on data derived from a 21 m sediment core. Sediment types, structure, colour, as well as contact depths and bed characteristics were recorded in the field. Standarised sedimentological analysis was carried out, on 46 samples including grain size analysis, calculation of moment measures, and micro- and molluscan fossils of 17 selected samples. Moreover, radiocarbon age determinations have been made on individual 〈i〉Cardium〈/i〉 shells from two horizons and whole – core Magnetic Susceptibility (MS) measurements were taken. The interpretation of depositional environments suggests a coastal environment (restricted-shallow) with reduced salinity such as a lagoon margin and in a tidal flat and/or marsh particularly. The maximum age of the studied sediments is about 8500 BP. The rate of sedimentation between 8280 BP while 5590 BP was 5.3 mm/yr and between 5590 BP and modern times is on the order of 1.03 mm/yr. These sedimentation rates results are similar to other coastal areas of western Greece.

Description: 〈b〉Morphology of the pore space in claystones – evidence from BIB/FIB ion beam sectioning and cryo-SEM observations〈/b〉〈br〉 G. Desbois, J. L. Urai, and P. A. Kukla〈br〉 eEarth, 4, 15-22, doi:10.5194/ee-4-15-2009, 2009〈br〉 The morphology of pore space has a strong effect on mechanical and transport properties of mudrocks and clay-rich fault gouge, but its characterization has been mostly indirect. We report on a study of Boom clay from a proposed disposal site of radioactive waste (Mol site, Belgium) using high resolution SEM at cryogenic temperature, with ion beam cross-sectioning to prepare smooth, damage free surfaces. Pores commonly have crack-like tips, preferred orientation parallel to bedding and power law size distribution. We define a number of pore types depending on shape and location in the microstructure: large jagged pores in strain shadows of clastic grains, high aspect ratio pores between similarly oriented phyllosilicate grains and crescent-shaped pores in saddle reefs of folded phyllosilicates. 3-D reconstruction by serial cross-sectioning shows 3-D connectivity of the pore space. These findings offer a new insight into the morphology of pores down to nano-scale in comparison to traditional pore size distributions calculated from mercury Injection experiments, explain slaking of clays by successive wetting and drying and provide the basis for microstructure-based models of transport in clays.

Description: 〈b〉Holocene evolution and sedimentation rate of Alikes Lagoon, Zakynthos island, Western Greece: preliminary results〈/b〉〈br〉 P. Avramidis and N. Kontopoulos〈br〉 eEarth, 4, 23-29, doi:10.5194/ee-4-23-2009, 2009〈br〉 In the present study we present preliminary results from Alikes lagoon in Zakynthos island, an area that is one of the most seismically active regions of Greece. In order to estimate – interpret the Holocene evolution of the area and to reconstruct the palaeoenvironmental changes, we based on data derived from a 21 m sediment core. Sediment types, structure, colour, as well as contact depths and bed characteristics were recorded in the field. Standarised sedimentological analysis was carried out, on 46 samples including grain size analysis, calculation of moment measures, and micro- and molluscan fossils of 17 selected samples. Moreover, radiocarbon age determinations have been made on individual 〈i〉Cardium〈/i〉 shells from two horizons and whole – core Magnetic Susceptibility (MS) measurements were taken. The interpretation of depositional environments suggests a coastal environment (restricted-shallow) with reduced salinity such as a lagoon margin and in a tidal flat and/or marsh particularly. The maximum age of the studied sediments is about 8500 BP. The rate of sedimentation between 8280 BP while 5590 BP was 5.3 mm/yr and between 5590 BP and modern times is on the order of 1.03 mm/yr. These sedimentation rates results are similar to other coastal areas of western Greece.

Description: 〈b〉Map – geographic locations related to the manuscript sequence〈/b〉〈br〉 〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 3-3, https://doi.org/10.5194/smsps-4-3-2009, 2009〈br〉

Description: 〈b〉Age and paleomagnetism of the Okhotsk-Chukotka Volcanic Belt (OCVB) near Lake El'gygytgyn, Chukotka, Russia〈/b〉〈br〉 D. B. Stone, P. W. Layer, and M. I. Raikevich〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 243-260, https://doi.org/10.5194/smsps-4-243-2009, 2009〈br〉 Paleomagnetic results from the upper two thirds of the whole section of the Okhotsk-Chukotka Volcanic Belt (OCVB) volcanics exposed in the area around Lake El'gygytgyn, Chukotka yield stable, consistent magnetic vectors and well-preserved reversed directions. The magnetostratigraphy and 〈sup〉40〈/sup〉Ar/〈sup〉39〈/sup〉Ar geochronologic data reported here indicate that the sampled OCVB volcanics were erupted between about 90 and 67 Ma, and show no significant change in the apparent pole position over that time. The OCVB extends from northeast China, across Northeast Russia to the Bering Straight. This belt is made up of both extrusive and intrusive rocks, with the extrusive rocks and their associated sediments being dominant. The whole belt important in interpreting the paleogeography of the region because it overlies many of the accreted terranes of Northeast Russia. Most importantly, it overlies parts of the Chukotka-Alaska block which is thought to have moved out of the Arctic Ocean region, as well as terranes accreted from the south. These latter terranes have been rafted northwards on the paleo-plates of the Pacific, implying that the present relative paleogeography of all of the terranes overlain by the OCVB were essentially in place by 67 Ma, and possibly as early as 90 Ma. However, comparing our paleomagnetic pole position for the OCVB with those for North America and Eurasia (a proxy for Siberia) shows a statistically significant displacement of the OCVB pole to the south west. This implies that not only the OCVB, but the underlying terranes of northeast Russia, experienced southerly displacement with respect to the Siberian and North American platforms since the Late Cretaceous.

Description: 〈b〉Tectonic reconstruction of Uda-Murgal arc and the Late Jurassic and Early Cretaceous convergent margin of Northeast Asia–Northwest Pacific〈/b〉〈br〉 S. D. Sokolov, G. Ye. Bondarenko, A. K. Khudoley, O. L. Morozov, M. V. Luchitskaya, M. I. Tuchkova, and P. W. Layer〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 273-288, https://doi.org/10.5194/smsps-4-273-2009, 2009〈br〉 A long tectonic zone composed of Upper Jurassic to Lower Cretaceous volcanic and sedimentary rocks is recognized along the Asian continent margin from the Mongol-Okhotsk fold and thrust belt on the south to the Chukotka Peninsula on the north. This belt represents the Uda-Murgal arc, which was developed along the convergent margin between Northeast Asia and Northwest Meso-Pacific. Several segments are identified in this arc based upon the volcanic and sedimentary rock assemblages, their respective compositions and basement structures. The southern and central parts of the Uda-Murgal arc were a continental margin belt with heterogeneous basement represented by metamorphic rocks of the Siberian craton, the Verkhoyansk terrigenous complex of Siberian passive margin and the Koni-Taigonos Late Paleozoic to Early Mesozoic island arc with accreted oceanic terranes. At the present day latitude of the Pekulney and Chukotka segments there was an ensimatic island arc with relicts of the South Anyui oceanic basin in a backarc basin. Accretionary prisms of the Uda-Murgal arc and accreted terranes contain fragments of Permian, Triassic to Jurassic and Jurassic to Cretaceous (Tithonian–Valanginian) oceanic crust and Jurassic ensimatic island arcs. Paleomagnetic and faunal data show significant displacement of these oceanic complexes and the terranes of the Taigonos Peninsula were originally parts of the Izanagi oceanic plate.

Description: 〈b〉Provenance analysis and tectonic setting of the Triassic clastic deposits in Western Chukotka, Northeast Russia〈/b〉〈br〉 M. I. Tuchkova, S. Sokolov, and I. R. Kravchenko-Berezhnoy〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 177-200, https://doi.org/10.5194/smsps-4-177-2009, 2009〈br〉 The study area is part of the Anyui subterrane of the Chukotka microplate, a key element in the evolution of the Amerasia Basin, located in Western Chukotka, Northeast Russia. The subterrane contains variably deformed, folded and cleaved rhythmic Triassic terrigenous deposits which represent the youngest stage of widespread marine deposition which form three different complexes: Lower-Middle Triassic, Upper Triassic (Carnian) and Upper Triassic (Norian). All of the complexes are represented by rhythmic interbeds of sandstone, siltstone and mudstone. Macrofaunas are not numerous, and in some cases deposits are dated by analogy to, or by their relationship with, other units dated with macrofaunas. The deposits are composed of pelagic sediments, low-density flows, high-density flows, and shelf facies associations suggesting that sedimentation was controlled by deltaic progradation on a continental shelf and subsequent submarine fan sedimentation at the base of the continental slope. Petrographic study of the mineral composition indicates that the sandstones are lithic arenites. Although the Triassic sandstones appear similar in outcrop and by classification, the constituent rock fragments are of diverse lithologies, and change in composition from lower grade metamorphic rocks in the Lower-Middle Triassic to higher grade metamorphic rocks in the Upper Triassic. This change suggests that the Triassic deposits represent an unroofing sequence as the source of the clastic material came from more deeply buried rocks with time.

Description: 〈b〉Multi-phase tectonic structures in the collision zone of the Kolyma-Omolon microcontinent and the eastern margin of the North Asian craton, Northeastern Russia〈/b〉〈br〉 A. V. Prokopiev and V. S. Oxman〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 65-70, https://doi.org/10.5194/smsps-4-65-2009, 2009〈br〉 The sequence of formation of structures is established in the zone of junction of the eastern margin of the North Asian craton and the northeastern flank of the Kolyma-Omolon microcontinent, in the area of bend of the Kolyma structural loop. Detailed structural studies revealed two phases in the formation of Mesozoic structures – an early thrust phase and a late strike-slip phase. Structures formed during each of the phases are described. Thrust structures are represented by the Setakchan nappe on which the minimum amount of horizontal displacement is estimated at 13–15 km. Later superposed left-lateral strike-slip faults have a north strike. Formation of these latter structures occurred during the second phase of collision between the Kolyma-Omolon microcontinent and the eastern margin of the North Asian craton.

Description: 〈b〉Geology of the Shelves surrounding the New Siberian Islands, Russian Arctic〈/b〉〈br〉 D. Franke and K. Hinz〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 35-44, https://doi.org/10.5194/smsps-4-35-2009, 2009〈br〉 A total of 11 700 km of multichannel seismic reflection data were acquired during recent reconnaissance surveys of the wide, shallow shelves of the Laptev and western East Siberian Seas around the New Siberian Islands. To the north of the Laptev Sea, the Gakkel Ridge, an active mid-ocean ridge which separates the North American and Eurasian Plates, meets abruptly the steep slope of the continental shelf. Extension has affected the Laptev Shelf since at least the Early Tertiary and has resulted in the formation of three major, generally north-south trending rift basins: the Ust' Lena Rift, the Anisin Basin, and the New Siberian Basin. Our data indicate that the rift basins on the Laptev Shelf are not continuous with those on the East Siberian Shelf. The latter shelf can best be described as an epicontinental platform which has undergone continuous subsidence since the Late Cretaceous. The greatest subsidence occurred in the NE, manifested by a major depocentre filled with inferred (?)Late Cretaceous to Tertiary sediments up to 5 s (twt) thick. On the basis of deep reflection data we revise and adjust Mesozoic domain boundaries around the New Siberian Islands.

Description: 〈b〉A seismic swarm near Neshkan, Chukotka, northeastern Russia, and implications for the boundary of the Bering plate〈/b〉〈br〉 K. G. Mackey, K. Fujita, B. M. Sedov, L. V. Gounbina, and S. Kurtkin〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 261-271, https://doi.org/10.5194/smsps-4-261-2009, 2009〈br〉 A seismic swarm lasting over two years occurred near the village of Neshkan, Chukotka, far northeastern Russia, beginning with a 〈i〉M〈sub〉L〈/sub〉〈/i〉, 4.2 (4.1 〈i〉m〈sub〉b〈/sub〉〈/i〉) earthquake on 9 December 2002. The swarm generated considerable anxiety among the local populace and authorities. Two temporary seismic stations were deployed during the latter part of September 2003, and recorded over 150 events with magnitudes up to 3.0. Eighteen locatable events appear to form a northeast striking linear trend, parallel to other seismicity trends in Chukotka, extending 20 km to the southwest from the village. We interpret this trend as a previously unknown fault. A small pond located ~1 km west of the village drained and some apparent surface deformation was observed over the course of the earthquake sequence. Relocation of historic seismicity in the region shows that a magnitude 6.0 in 1996 may have ruptured an adjacent fault segment. Other, less well located but larger, teleseismic events earlier in the 20th century may also have occurred on or near this fault. The seismicity is consistent a proposed region of transtension along the northern boundary of a Bering plate.

Description: 〈b〉South Anyui suture: tectono-stratigraphy, deformations, and principal tectonic events〈/b〉〈br〉 S. D. Sokolov, G. Ye. Bondarenko, P. W. Layer, and I. R. Kravchenko-Berezhnoy〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 201-221, https://doi.org/10.5194/smsps-4-201-2009, 2009〈br〉 Geochronologic and structural data from the terranes of the South Anyui suture zone record a protracted deformational history before, during and after an Early Cretaceous collision of the passive margin of the Chukotka-Arctic Alaska continental block with the active continental margin of the North Asian continent. Preceding this collision, the island arc complexes of the Yarakvaam terrane on the northern margin of the North Asian craton record Early Carboniferous to Neocomian ages in ophiolite, sedimentary, and volcanic rocks. Triassic to Jurassic amphibolites constrain the timing of subduction and intraoceanic deformation along this margin. The protracted (Neocomian to Aptian) collision of the Chukotka passive margin with the North Asian continent is preserved in a range of structural styles including first north verging folding, then south verging folding, and finally late collisional dextral strike slip motions which likely record a change from orthogonal collision to oblique collision. Due to this collision, the southern passive margin of Chukotka was overthrust by tectonic nappes composed of tectono-stratigraphic complexes of the South Anyui terrane. Greenschists with ages of 115–119 Ma are related to the last stages of this collision. The postcollisional orogenic stage (Albian to Cenomanian) is characterized by sinistral strike slip faults and an extensional environment.

Description: 〈b〉Deformation of the Northwestern Okhotsk Plate: How is it happening?〈/b〉〈br〉 D. Hindle, K. Fujita, and K. Mackey〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 147-156, https://doi.org/10.5194/smsps-4-147-2009, 2009〈br〉 The Eurasia (EU) – North America (NA) plate boundary zone across Northeast Asia still presents many open questions within the plate tectonic paradigm. Constraining the geometry and number of plates or microplates present in the plate boundary zone is especially difficult because of the location of the EU-NA euler pole close to or even upon the EU-NA boundary. One of the major challenges remains the geometry of the Okhotsk plate (OK). whose northwestern portion terminates on the EU-OK-NA triple junction and is thus caught and compressed between converging EU and NA. We suggest that this leads to a coherent and understandable large scale deformation pattern of mostly northwest-southeast trending strike-slip faults which split Northwest OK into several extruding slivers. When the fault geometry is analysed together with space geodetic and focal mechanism data it suggests a central block which is extruding faster bordered east and west by progressively slower extruding blocks until the OK plate boundary faults are encountered. Taking into account elastic loading from both the intra-OK faults and the OK-Pacific (PA) boundary reconciles geodetic motions with geologic slip rates on at least the OK-NA boundary which corresponds to the Ulakhan fault.

Description: 〈b〉The Tommot pluton: a Middle Paleozoic rift-related alkaline gabbro and syenite complex, Yakutia, northeast Russia〈/b〉〈br〉 V. A. Trunilina, P. W. Layer, L. M. Parfenov, A. I. Zaitsev, and Y. S. Orlov〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 97-109, https://doi.org/10.5194/smsps-4-97-2009, 2009〈br〉 The Tommot pluton is located within the continental Omulevka terrane of the inner zone of the Verkhoyansk-Kolyma Mesozoic orogen. It is a small complex (~12 km〈sup〉2〈/sup〉) composed of alkaline-ultramafic rocks, alkaline and subalkaline gabbroids, and alkaline and quartz syenites. The pluton is unique both in the composition and age of its constituent rocks. Mineralogical-petrographical and geochemical studies of the rocks indicate that the alkaline rocks resulted from the melting of depleted mantle horizons. K-Ar, Rb-Sr, and 〈sup〉40〈/sup〉Ar/〈sup〉39〈/sup〉Ar age determinations confirm a Paleozoic age of the rocks. Formation of the alkaline rocks is related to Middle Paleozoic rifting which occurred as two discrete events: a Late Devonian event, which affected the marginal part of the Siberian continent, and a Late Carboniferous event that reflects internal deformation of the Omulevka terrane or late-stage extension. A spatially associated alkali granite, the Somnitel'nyy pluton, is Late Jurassic–Early Cretaceous in age and is synchronous with accretion of the Kolyma-Omolon Superterrane to Siberia in the Mesozoic.

Description: 〈b〉Biography – Leonid M. Parfenov (1937–2002)〈/b〉〈br〉 K. Fujita, A. V. Prokopiev, and D. B. Stone〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 5-9, https://doi.org/10.5194/smsps-4-5-2009, 2009〈br〉

Description: 〈b〉Geochronology and thermochronology of Cretaceous plutons and metamorphic country rocks, Anyui-Chukotka fold belt, North East Arctic Russia〈/b〉〈br〉 E. L. Miller, S. M. Katkov, A. Strickland, J. Toro, V. V. Akinin, and T. A. Dumitru〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 157-175, https://doi.org/10.5194/smsps-4-157-2009, 2009〈br〉 U-Pb isotopic dating of seven granitoid plutons and associated intrusions from the Bilibino region (Arctic Chukotka, Russia) was carried out using the SHRIMP-RG. The crystallization ages of these granitoids, which range from approximately 116.9±2.5 to 108.5±2.7 Ma, bracket two regionally significant deformational events. The plutons cut folds, steep foliations and thrust-related structures related to sub-horizontal shortening at lower greenschist facies conditions (〈i〉D〈/i〉〈sub〉1〈/sub〉), believed to be the result of the collision of the Arctic Alaska-Chukotka microplate with Eurasia along the South Anyui Zone (SAZ). Deformation began in the Late Jurassic, based on fossil ages of syn-orogenic clastic strata, and involves strata as young as early Cretaceous (Valanginian) north of Bilibino and as young as Hauterivian-Barremian, in the SAZ. The second phase of deformation (〈i〉D〈/i〉〈sub〉2〈/sub〉) is developed across a broad region around and to the east of the Lupveem batholith of the Alarmaut massif and is interpreted to be coeval with magmatism. 〈i〉D〈/i〉〈sub〉2〈/sub〉 formed gently-dipping, high-strain foliations (〈i〉S〈/i〉〈sub〉2〈/sub〉). Growth of biotite, muscovite and actinolite define 〈i〉S〈/i〉〈sub〉2〈/sub〉 adjacent to the batholith, while chlorite and white mica define 〈i〉S〈/i〉〈sub〉2〈/sub〉 away from the batholith. Sillimanite (± andalusite) at the southeastern edge the Lupveem batholith represent the highest grade metamorphic minerals associated with 〈i〉D〈/i〉〈sub〉2〈/sub〉. 〈i〉D〈/i〉〈sub〉2〈/sub〉 is interpreted to have developed during regional extension and crustal thinning. Extension directions as measured by stretching lineations, quartz veins, boudinaged quartz veins is NE-SW to NW-SE. Mapped dikes associated with the plutons trend mostly NW-SE and indicate NE-SW directed extension. 〈sup〉40〈/sup〉Ar/〈sup〉39〈/sup〉Ar ages from 〈i〉S〈/i〉〈sub〉2〈/sub〉 micas range from 109.3±1.2 to 103.0±1.8 Ma and are interpreted as post-crystallization cooling ages following a protracted period of magmatism and high heat flow. Regional uplift and erosion of many kilometers of cover produced a subdued erosional surface prior to the eruption of volcanic rocks of the Okhotsk-Chukotka volcanic belt (OCVB) whose basal units (~87 Ma) overlie this profound regional unconformity. A single fission track age on apatite from granite in the Alarmaut massif yielded an age of 90±11 Ma, in good agreement with this inference.

Description: 〈b〉Summary of Northeast Asia geodynamics and tectonics*〈/b〉〈br〉 L. M. Parfenov, G. Badarch, N. A. Berzin, A. I. Khanchuk, M. I. Kuzmin, W. J. Nokleberg, A. V. Prokopiev, M. Ogasawara, and H. Yan〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 11-33, https://doi.org/10.5194/smsps-4-11-2009, 2009〈br〉 The compilation, synthesis, description, and interpretation of regional geology and tectonics of major regions, such as Northeast Asia (Eastern Russia, Mongolia, Northern China, South Korea, and Japan) and the Circum-North Pacific (the Russian Far East, Alaska, and Canadian Cordillera), requires a complex methodology that includes: (1) definitions of key terms; (2) compilation of a regional geodynamics map that can be constructed according to modern tectonic concepts and definitions; and (3) formulation of a comprehensive tectonic model. This article presents a summary of the regional dynamics and tectonics of Northeast Asia as developed for a new summary geodynamics map of the region. This article also describes how a high-quality summary geodynamics map and companion tectonic analysis substantially aids in the understanding of the origin of major rock units, major structures, and contained mineral and fuel resources, and provides important guidelines for new research. 〈br〉〈br〉 * Prepared in memory of Leonid M. Parfenov, the leader of the geodynamics map team for the International collaborative project on NE Asia tectonics and metallogenesis.

Description: 〈b〉Detrital zircon geochronologic tests of the SE Siberia-SW Laurentia paleocontinental connection〈/b〉〈br〉 J. S. MacLean, J. W. Sears, K. R. Chamberlain, A. K. Khudoley, A. V. Prokopiev, A. P. Kropachev, and G. G. Serkina〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 111-116, https://doi.org/10.5194/smsps-4-111-2009, 2009〈br〉 Strikingly similar Late Mesoproterozoic stratigraphic sequences and correlative U-Pb detrital-zircon ages may indicate that the Sette Daban region of southeastern Siberia and the Death Valley region of southwestern North America were formerly contiguous parts of a Grenville foreland basin. The Siberian section contains large numbers of detrital zircons that correlate with Grenville, Granite-Rhyolite, and Yavapai basement provinces of North America. The sections in both Siberia and Death Valley exhibit west-directed thrust faults that may represent remnants of a Grenville foreland thrust belt. North American detrital-zircon components do not occur in Siberian samples above a ~600 Ma breakup unconformity, suggesting that rifting and continental separation blocked transfer of clastic sediment between the cratons by 600 Ma. Faunal similarities suggest, however, that the two cratons remained within the breeding ranges of Early Cambrian trilobites and archeocyathans.

Description: 〈b〉Seismotectonics of the Chersky Seismic Belt, eastern Sakha Republic (Yakutia) and Magadan District, Russia〈/b〉〈br〉 K. Fujita, B. M. Koz'min, K. G. Mackey, S. A. Riegel, M. S. McLean, and V. S. Imaev〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 117-145, https://doi.org/10.5194/smsps-4-117-2009, 2009〈br〉 The Chersky seismic belt represents a zone of deformation between the North American and Eurasian plates in northeast Russia. The belt extends from the Laptev Sea into the Chersky Range where it splits into two branches. One branch extends to Kamchatka and the Aleutian-Kurile Junction, while the other branch extends south towards Sakhalin Island. Focal mechanisms indicate a change from extension to transpression in the northern Verkhoyansk Range and generally left-lateral transpression in the Chersky Range extending to northern Kamchatka. The few focal mechanisms on the second branch suggest right-lateral transpression. A large number of faults, sub-parallel to the seismicity and presumed to be strike-slip, are visible in satellite imagery and topographic maps and are also associated with seismically generated landslides. 〈br〉〈br〉 These data support a model in which the Sea of Okhotsk forms the core of a separate Okhotsk microplate surrounded by diffuse boundaries on the north and west. Microseismicity in continental northeast Russia is most heavily concentrated within and between the fault systems along the northern boundary of the proposed Okhotsk plate and indicates a high level of deformation. The sense of slip on the faults (both from focal mechanisms and geology) are also generally consistent with the extrusion of the Okhotsk plate to the southeast as it is compressed between its larger neighbors. The northernmost part of the Okhotsk plate may be decoupled to some degree from the more stable central Sea of Okhotsk.

Description: 〈b〉Review of geology of the New Siberian Islands between the Laptev and the East Siberian Seas, North East Russia〈/b〉〈br〉 M. Kos'ko and E. Korago〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 45-64, https://doi.org/10.5194/smsps-4-45-2009, 2009〈br〉 The New Siberian Islands comprise De Long Islands, Anjou Islands, and Lyakhov Islands. Early Paleozoic, Mesozoic and Cenozoic sediments and igneous rocks are known on the De Long Islands. Cambrian slate, siltstone, mudstone and silicified limestone occur on Bennett Island. Ordovician volcanogenic turbidites, lavas, and small intrusions of andesite-basalt, basalt, dolerite, and porphyritic diorite were mapped on Henrietta Island. The igneous rocks are of calc-alkaline island arc series. The Ordovician age of the sequence was defined radiometrically. Early Paleozoic strata were faulted and folded presumably in the Caledonian time. Early Cretaceous sandstone and mudstone are known on Bennett Island. They are overlain by a 106–124 Ma basalt unit. Cenozoic volcanics are widespread on the De Long Islands. Zhokhov Island is an eroded stratovolcano. The volcanics are mostly of picrite-olivine type and limburgite. Radiometric dating indicates Miocene to Recent ages for Cenozoic volcanism. 〈br〉〈br〉 On the Anjou islands Lower-Middle Paleozoic strata consist of carbonates, siliciclastics, and clay. A Northwest-southeast syn-sedimentary facies zonation has been reconstructed. Upper Paleozoic strata are marine carbonate, clay and siliciclastic facies. Mudstone and clay predominate in the Triassic to Upper Jurassic section. Aptian-Albian coal bearing deposits uconformably overlap lower strata indicating Early Cretaceous tectonism. Upper Cretaceous units are mostly clay and siltstone with brown coal strata resting on Early Cretaceous weathered rhyolite. Cenozoic marine and nonmarine silisiclastics and clay rest upon the older units with a transgressive unconformity including a weathering profile in the older rocks. 〈br〉〈br〉 Manifestations of Paleozoic and Triassic mafic and Cretaceous acidic magmatism are also found on these islands. The pre-Cretaceous structure of the Anjou islands is of a block and fold type Late Cimmerian in age followed by faulting in Cenozoic time. 〈br〉〈br〉 The Lyakhov islands are located at the western end of the Late Cimmerian South Anyui suture. Sequences of variable age, composition, and structural styles are known on the Lyakhov Islands. These include an ancient metamorphic sequence, Late Paleozoic ophiolitic sequence, Late Mesozoic turbidite sequence, Cretaceous granites, and Cenozoic sediments. Fold and thrust imbricate structures have been mapped on southern Bol'shoi Lyakhov Island. North-northwestern vergent thrusts transect the Island and project offshore. Open folds of Jurassic–Early Cretaceous strata are characteristic of Stolbovoi and Malyi Lyakhov islands. 〈br〉〈br〉 Geology of the New Siberian Islands supports the concept of a circum Arctic Phanerozoic fold belt. The belt is comprised of Caledonian, Ellesmerian, Early Cimmerian and Late Cimmerian fold systems, manifested in many places on the mainland and on islands around the Arctic Ocean. Knowledge of the geology of the New Siberian Islands has been used to interpret anomalous gravity and magnetic field maps and Multi Channel Seismic (MCS) lines. Two distinguishing structural stages are universally recognized within the offshore sedimentary cover which correlate with the onshore geology of the New Siberian Islands. Dating of the upper structural stage and constituent seismic units is based on structural and stratigraphic relationships between Late Mesozoic and Cenozoic units in the archipelago. The Laptev Sea–western East Siberian Sea seismostratigraphic model for the upper structural stage has much in common with the seismostratigraphic model in the American Chukchi Sea.

Description: 〈b〉Editors and Acknowledgement〈/b〉〈br〉 〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 1-1, https://doi.org/10.5194/smsps-4-1-2009, 2009〈br〉

Description: 〈b〉Morphology of the pore space in claystones – evidence from BIB/FIB ion beam sectioning and cryo-SEM observations〈/b〉〈br〉 G. Desbois, J. L. Urai, and P. A. Kukla〈br〉 eEarth, 4, 15-22, doi:10.5194/ee-4-15-2009, 2009〈br〉 The morphology of pore space has a strong effect on mechanical and transport properties of mudrocks and clay-rich fault gouge, but its characterization has been mostly indirect. We report on a study of Boom clay from a proposed disposal site of radioactive waste (Mol site, Belgium) using high resolution SEM at cryogenic temperature, with ion beam cross-sectioning to prepare smooth, damage free surfaces. Pores commonly have crack-like tips, preferred orientation parallel to bedding and power law size distribution. We define a number of pore types depending on shape and location in the microstructure: large jagged pores in strain shadows of clastic grains, high aspect ratio pores between similarly oriented phyllosilicate grains and crescent-shaped pores in saddle reefs of folded phyllosilicates. 3-D reconstruction by serial cross-sectioning shows 3-D connectivity of the pore space. These findings offer a new insight into the morphology of pores down to nano-scale in comparison to traditional pore size distributions calculated from mercury Injection experiments, explain slaking of clays by successive wetting and drying and provide the basis for microstructure-based models of transport in clays.

Description: 〈b〉Late Pleistocene palaeoproductivity patterns during the last climatic cycle in the Guyana Basin as revealed by calcareous nannoplankton〈/b〉〈br〉 G.-E. López-Otálvaro, J. A. Flores, F. J. Sierro, I. Cacho, J.-O. Grimalt, E. Michel, E. Cortijo, and L. Labeyrie〈br〉 eEarth, 4, 1-13, doi:10.5194/ee-4-1-2009, 2009〈br〉 Variations in the assemblage and abundance of coccoliths reveal changes in oceanic and atmospheric dynamics in the Guyana Basin over the last climatic cycle, mainly linked to latitudinal variations in the ITCZ (Intertropical Convergence Zone). Records of the N ratio (a palaeoproductivity index of coccolithophores) allowed us to monitor nutri-thermocline fluctuations. Nannofossil accumulation rates (NAR) vary closely with the N ratio, indicating a strong correlation between these two palaeoproductivity proxies. Decreases in the N ratio and NAR values suggest lower palaeoproductivity during glacial substages, indicating a deep nutri-thermocline (deep stratification of the mixed layer) as a consequence of the piling up of warm water dragged by the NEC. This setting was favoured by the southern shift of the ITCZ and Trade winds which blew perpendicular to the Guyana coast. By contrast, increases in the N ratio and NAR values revealed higher palaeoproductivity during interglacial substages, suggesting a shoaling of the nutri-thermocline. This scenario is favoured by a northward displacement of the ITCZ with the southeast Trade winds blowing alongshore. Additionally, palaeoproductivity changes during substages of Marine Isotope Stage (MIS) 6-5 are of much higher amplitude than those recorded in substages of MIS 4-2 and the early Holocene. Similarities between the palaeoproductivity and the 65° N summer insolation records, suggest a link between the depth of nutri-thermocline, the latitudinal migration of the ITCZ and ice-sheet changes in the Northern Hemisphere.

Description: 〈b〉Late Pleistocene palaeoproductivity patterns during the last climatic cycle in the Guyana Basin as revealed by calcareous nannoplankton〈/b〉〈br〉 G.-E. López-Otálvaro, J. A. Flores, F. J. Sierro, I. Cacho, J.-O. Grimalt, E. Michel, E. Cortijo, and L. Labeyrie〈br〉 eEarth, 4, 1-13, doi:10.5194/ee-4-1-2009, 2009〈br〉 Variations in the assemblage and abundance of coccoliths reveal changes in oceanic and atmospheric dynamics in the Guyana Basin over the last climatic cycle, mainly linked to latitudinal variations in the ITCZ (Intertropical Convergence Zone). Records of the N ratio (a palaeoproductivity index of coccolithophores) allowed us to monitor nutri-thermocline fluctuations. Nannofossil accumulation rates (NAR) vary closely with the N ratio, indicating a strong correlation between these two palaeoproductivity proxies. Decreases in the N ratio and NAR values suggest lower palaeoproductivity during glacial substages, indicating a deep nutri-thermocline (deep stratification of the mixed layer) as a consequence of the piling up of warm water dragged by the NEC. This setting was favoured by the southern shift of the ITCZ and Trade winds which blew perpendicular to the Guyana coast. By contrast, increases in the N ratio and NAR values revealed higher palaeoproductivity during interglacial substages, suggesting a shoaling of the nutri-thermocline. This scenario is favoured by a northward displacement of the ITCZ with the southeast Trade winds blowing alongshore. Additionally, palaeoproductivity changes during substages of Marine Isotope Stage (MIS) 6-5 are of much higher amplitude than those recorded in substages of MIS 4-2 and the early Holocene. Similarities between the palaeoproductivity and the 65° N summer insolation records, suggest a link between the depth of nutri-thermocline, the latitudinal migration of the ITCZ and ice-sheet changes in the Northern Hemisphere.

Description: 〈b〉Geotectonic setting of the Tertiary Uyandina and Indigirka-Zyryanka basins, Republic Sakha (Yakutia), Northeast Russia, using coal rank data〈/b〉〈br〉 H.-J. Paech〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 85-96, https://doi.org/10.5194/smsps-4-85-2009, 2009〈br〉 Outcrops along the Inach River in the Uyandina basin and those along the Myatis' River in the Indigirka-Zyryanka basin were studied in detail and sampled for coal rank determinations. The Uyandina basin is an intramontane pull-apart basin characterized by extensional structures within the Moma rift system. The coal rank is below 0.3% vitrinite reflectance (〈i〉R〈sub〉r〈/sub〉〈/i〉), which indicates shallow, immature conditions of basin formation and very low subsidence. The Myatis' River coal-bearing outcrops in the Indigirka-Zyryanka basin reveal compression induced by continent collision. The compressive deformation includes also lowermost Pliocene strata. Due to the position in the Verkhoyansk-Chersky fold belt adjacent to the Kolyma-Omolon microcontinent the Indigirka-Zyryanka basin has much in common with a foredeep, i.e. the asymmetry in thickness and tectonic structure. The vitrinite reflectance data (〈i〉R〈sub〉r〈/sub〉〈/i〉) which range from 0.25% to more than 5% reinforce the accepted models that describe basin subsidence and geothermal history and the tectonic deformation.

Description: 〈b〉Structural studies near Pevek, Russia: implications for formation of the East Siberian Shelf and Makarov Basin of the Arctic Ocean〈/b〉〈br〉 E. L. Miller and V. E. Verzhbitsky〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 223-241, https://doi.org/10.5194/smsps-4-223-2009, 2009〈br〉 The Pevek region of Arctic Russia provides excellent beach cliff exposure of sedimentary and igneous rocks that yield detailed information on the nature, progression and timing of structural events in this region. Regional folding and thrust faulting, with the development of a south-dipping axial plane cleavage/foliation developed during N-S to NE-SW directed shortening and formation of the Chukotka-Anyui fold belt. This deformation involves strata as young as Valanginian (136–140 Ma, Gradstein et al., 2004). Fold-related structures are cut by intermediate to silicic batholiths, plutons and dikes of Cretaceous age. Reported K-Ar whole rock and mineral ages on the granitoids range from 144 to 85 Ma, but to the south, more reliable U-Pb zircon ages on compositionally similar plutons yield a much narrower age range of ~120–105 Ma (Miller et al., this volume) and a pluton in Pevek yields a U-Pb age on zircon of 108.1±1.1 Ma with evidence for inheritance of slightly older 115 Ma zircons. Magmas were intruded during an episode of E-W to ENE-WSW directed regional extension based on the consistent N-S to NNW-SSE orientation of over 800 mapped dikes and quartz veins. Analysis of small-offset faults and slickensides yield results compatible with those inferred from the dikes. Younger tectonic activity across this region is minor and the locus of magmatic activity moved southward towards the Pacific margin as represented by the 〈90 Ma Okhotsk-Chukotsk volcanic belt (OCVB). A lengthy period of uplift and erosion occurred after emplacement of Cretaceous plutons and produced the peneplain beneath the younger OCVB. 〈br〉〈br〉 Based on our studies, we speculate that ~120–105 Ma magmatism, which heralds a change in tectonic regime from compression to extension, could represent one of the consequences of the inception of rifting in the Amerasian Basin of the Arctic, forming the Makarov Basin north of the Siberian shelf at this longitude. A synthesis of available seismic reflection, gravity and magnetic data for the offshore Siberian Shelf reveals a widespread, seismically mappable basement-sedimentary cover contact that deepens northward towards the edge of the shelf with few other significant basins. Various ages have been assigned to the oldest strata above the unconformity, ranging from Cretaceous (Albian – 112–100 Ma) to Tertiary (Paleocene–Eocene – ~60–50 Ma). The period of uplift and erosion documented along the Arctic coast of Russia at this longitude could represent the landward equivalent of the (yet undrilled) offshore basement-sedimentary cover contact, thus overlying sedimentary sequences could be as old as early Late Cretaceous. Although quite speculative, these conclusions suggest that land-based geologic, structural, petrologic and geochronologic studies could provide useful constraints to help resolve the plate tectonic history of the Arctic Ocean.

Description: 〈b〉Middle Paleozoic-Mesozoic boundary of the North Asian craton and the Okhotsk terrane: new geochemical and geochronological data and their geodynamic interpretation〈/b〉〈br〉 A. V. Prokopiev, J. Toro, J. K. Hourigan, A. G. Bakharev, and E. L. Miller〈br〉 Stephan Mueller Spec. Publ. Ser., 4, 71-84, https://doi.org/10.5194/smsps-4-71-2009, 2009〈br〉 The Okhotsk terrane, located east of the South Verkhoyansk sector of the Verkhoyansk fold-and-thrust belt, has Archean crystalline basement and Riphean to Early Paleozoic sedimentary cover similar to that of the adjacent the North Asian craton. However, 2.6 Ga biotite orthogneisses of the Upper Maya uplift of the Okhotsk terrane yielded Early Devonian 〈sup〉40〈/sup〉Ar/〈sup〉39〈/sup〉Ar cooling ages, evidence of a Mid-Paleozoic metamorphic event not previously known. These gneisses are also intruded by 375±2 Ma (Late Devonian) calc-alkaline granodiorite plutons that we interpret as part of a continental margin volcanic arc. Therefore, Late Devonian rifting, which affected the entire eastern margin of North Asia separating the Okhotsk terrane from the North Asian craton, was probably a back-arc event. 〈br〉〈br〉 Our limited 〈sup〉40〈/sup〉Ar/〈sup〉39〈/sup〉Ar data from the South Verkhoyansk metamorphic belt suggests that low grade metamorphism and deformation started in the Late Jurassic due to accretion of the Okhotsk terrane to the North Asia margin along the Bilyakchan fault. Shortening and ductile strain continued in the core of the South Verkhoyansk metamorphic belt until about 120 Ma due to paleo-Pacific subduction along the Uda-Murgal continental margin arc.