ALBERT

Description: To study the complex pathophysiology of aGvHD in allogeneic hematopoietic cell transplantation (HCT) we transplanted transgenic luciferase expressing T cell populations into lethally irradiated HCT recipients (murine MHC major mismatch model, H-2q into H-2d). Tracking of light emitting donor T cells in living animals and detailed studies by multi color immunofluorescence microscopy (IFM) and FACS revealed the tight links of spatial and temporal evolution in this complex immune process. Donor derived T cells migrate to T cell areas in lymphoid tissues within a period of 12 hours. In the initial periods donor CD4+ T cells appear first with CD8+ T cell infiltration at later time points. Donor T cells start proliferating in lymphatic tissues on day 2 after transfer, as observed by BrdU stainings. Although alloreactive T cells are similarly activated in all lymphoid organs, they only up-regulate gut homing molecules after more than 5 cell divisions (CFSE proliferation analysis by FACS) in certain lymphoid organs (Peyer’s patches, mesenteric LN and spleen). Abruptly on day 4 after HCT, T cells migrate into intestinal sites. These findings strongly suggested, that specific priming sites are required for alloreactive T cells to induce a distinct type of tissue tropism in GvHD. In contrast to previous reports peformed without host conditioning, depletion of certain lymphoid organs (e.g. Peyer’s patches) before HCT or antibody blocking experiments did not control aGVHD. BLI showed, that anti-L-selectin or anti-MAdCAM-1 antibody treatment alone or in combination was effective in blocking donor T cell migration to lymph nodes and Peyer’s patches, while redirecting these cells to liver and spleen. Subsequently cells proliferated predominantly in the spleen until day 3 after HCT. Surprisingly we observed a full picture of gut infiltration on day 4 and skin involvement on day 5–6, similar in dynamics and strength to the aGvHD isotype control group. These findings demonstrated, that other lymphoid organs can functionally compensate for inducing gut and skin homing of alloreactive T cells. Of importance, we demonstrated that T cells that lacked homing molecules for secondary lymphoid organs had alloreactive properties in vitro, yet did not cause aGVHD in vivo. In summary, the activation of alloreactive T cells in specific sites throughout the body is complex and involves the acquisition of homing molecule expression. Transplantation of T cells with defined homing properties therefore, appears to be a promising alternative in conferring protective immunity early after HCT without the risk of aGvHD.

Description: Author Posting. © American Geophysical Union, 2021. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Geochemistry, Geophysics, Geosystems 22(4), (2021): e2020GC009481, https://doi.org/10.1029/2020GC009481.

Description: The impact of submarine hydrothermal systems on organic carbon in the ocean—one of the largest fixed carbon reservoirs on Earth—could be profound. Yet, different vent sites show diverse fluid chemical compositions and the subsequent biological responses. Observations from various vent sites are to evaluate hydrothermal systems' impact on the ocean carbon cycle. A response cruise in May 2009 to an on-going submarine eruption at West Mata Volcano, northeast Lau Basin, provided an opportunity to quantify the organic matter production in a back-arc spreading hydrothermal system. Hydrothermal vent fluids contained elevated dissolved organic carbon, particulate organic carbon (POC), and particulate nitrogen (PN) relative to background seawater. The δ13C-POC values for suspended particles in the diffuse vent fluids (−15.5‰ and −12.3‰) are distinct from those in background seawater (−23 ± 1‰), indicative of unique carbon synthesis pathways of the vent microbes from the seawater counterparts. The first dissolved organic nitrogen concentrations reported for diffuse vents were similar to or higher than those for background seawater. Enhanced nitrogen fixation and denitrification removed 37%–89% of the total dissolved nitrogen in the recharging background seawater in the hydrothermal vent flow paths. The hydrothermal plume samples were enriched in POC and PN, indicating enhanced biological production. The total “dark” organic carbon production within the plume matches the thermodynamic prediction based on available reducing chemical substances supplied to the plume. This research combines the measured organic carbon contents with thermodynamic modeled results and demonstrates the importance of hydrothermal activities on the water column carbon production in the deep ocean.

Description: This project was supported by N.S.F. (OCE0929881, J. P. Cowen and K. H. Rubin), the NOAA PMEL VENTS (now Earth-Ocean Interactions) Program and the Joint Institute for the Study of the Atmosphere and Ocean (JISAO) under NOAA Cooperative Agreement No. NA10OAR4320148, and the UH NASA Astrobiology Institute. The Ministry of Science and Technology of Taiwan award (MOST 107-2611-M-002-002, and MOST 108-2611-M-002-006 to H.-T. Lin). Ministry of Education (M.O.E.) Republic of China (Taiwan) 109L892601 to H.-T. Lin. SOEST contributions no. 11285, C-DEBI contribution no. 563. PMEL contribution no. 3996, JISAO contribution 2183.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Chapman, A. S. A., Beaulieu, S. E., Colaco, A., Gebruk, A. V., Hilario, A., Kihara, T. C., Ramirez-Llodra, E., Sarrazin, J., Tunnicliffe, V., Amon, D. J., Baker, M. C., Boschen-Rose, R. E., Chen, C., Cooper, I. J., Copley, J. T., Corbari, L., Cordes, E. E., Cuvelier, D., Duperron, S., Du Preez, C., Gollner, S., Horton, T., Hourdez, S., Krylova, E. M., Linse, K., LokaBharathi, P. A., Marsh, L., Matabos, M., Mills, S. W., Mullineaux, L. S., Rapp, H. T., Reid, W. D. K., Rybakova (Goroslavskaya), E., Thomas, T. R. A., Southgate, S. J., Stohr, S., Turner, P. J., Watanabe, H. K., Yasuhara, M., & Bates, A. E. sFDvent: a global trait database for deep-sea hydrothermal-vent fauna. Global Ecology and Biogeography, 28(11), (2019): 1538-1551, doi: 10.1111/geb.12975.

Description: Motivation Traits are increasingly being used to quantify global biodiversity patterns, with trait databases growing in size and number, across diverse taxa. Despite growing interest in a trait‐based approach to the biodiversity of the deep sea, where the impacts of human activities (including seabed mining) accelerate, there is no single repository for species traits for deep‐sea chemosynthesis‐based ecosystems, including hydrothermal vents. Using an international, collaborative approach, we have compiled the first global‐scale trait database for deep‐sea hydrothermal‐vent fauna – sFDvent (sDiv‐funded trait database for the Functional Diversity of vents). We formed a funded working group to select traits appropriate to: (a) capture the performance of vent species and their influence on ecosystem processes, and (b) compare trait‐based diversity in different ecosystems. Forty contributors, representing expertise across most known hydrothermal‐vent systems and taxa, scored species traits using online collaborative tools and shared workspaces. Here, we characterise the sFDvent database, describe our approach, and evaluate its scope. Finally, we compare the sFDvent database to similar databases from shallow‐marine and terrestrial ecosystems to highlight how the sFDvent database can inform cross‐ecosystem comparisons. We also make the sFDvent database publicly available online by assigning a persistent, unique DOI. Main types of variable contained Six hundred and forty‐six vent species names, associated location information (33 regions), and scores for 13 traits (in categories: community structure, generalist/specialist, geographic distribution, habitat use, life history, mobility, species associations, symbiont, and trophic structure). Contributor IDs, certainty scores, and references are also provided. Spatial location and grain Global coverage (grain size: ocean basin), spanning eight ocean basins, including vents on 12 mid‐ocean ridges and 6 back‐arc spreading centres. Time period and grain sFDvent includes information on deep‐sea vent species, and associated taxonomic updates, since they were first discovered in 1977. Time is not recorded. The database will be updated every 5 years. Major taxa and level of measurement Deep‐sea hydrothermal‐vent fauna with species‐level identification present or in progress. Software format .csv and MS Excel (.xlsx).

Description: We would like to thank the following experts, who are not authors on this publication but made contributions to the sFDvent database: Anna Metaxas, Alexander Mironov, Jianwen Qiu (seep species contributions, to be added to a future version of the database) and Anders Warén. We would also like to thank Robert Cooke for his advice, time, and assistance in processing the raw data contributions to the sFDvent database using R. Thanks also to members of iDiv and its synthesis centre – sDiv – for much‐valued advice, support, and assistance during working‐group meetings: Doreen Brückner, Jes Hines, Borja Jiménez‐Alfaro, Ingolf Kühn and Marten Winter. We would also like to thank the following supporters of the database who contributed indirectly via early design meetings or members of their research groups: Malcolm Clark, Charles Fisher, Adrian Glover, Ashley Rowden and Cindy Lee Van Dover. Finally, thanks to the families of sFDvent working group members for their support while they were participating in meetings at iDiv in Germany. Financial support for sFDvent working group meetings was gratefully received from sDiv, the Synthesis Centre of iDiv (DFG FZT 118). ASAC was a PhD candidate funded by the SPITFIRE Doctoral Training Partnership (supported by the Natural Environmental Research Council, grant number: NE/L002531/1) and the University of Southampton at the time of submission. ASAC also thanks Dominic, Lesley, Lettice and Simon Chapman for their support throughout this project. AEB and VT are sponsored through the Canada Research Chair Programme. SEB received support from National Science Foundation Division of Environmental Biology Award #1558904 and The Joint Initiative Awards Fund from the Andrew W. Mellon Foundation. AC is supported by Program Investigador (IF/00029/2014/CP1230/CT0002) from Fundação para a Ciência e a Tecnologia (FCT). This study also had the support of Fundação para a Ciência e a Tecnologia, through the strategic project UID/MAR/04292/2013 granted to marine environmental sciences centre. Data compiled by AVG and EG were supported by Russian science foundation Grant 14‐50‐00095. AH was supported by the grant BPD/UI88/5805/2017 awarded by CESAM (UID/AMB/50017), which is financed by FCT/Ministério da Educação through national funds and co‐funded by fundo Europeu de desenvolvimento regional, within the PT2020 Partnership Agreement and Compete 2020. ERLL was partially supported by the MarMine project (247626/O30). JS was supported by Ifremer. Data on vent fauna from the East Scotia Ridge, Mid‐Cayman Spreading Centre, and Southwest Indian Ridge were obtained by UK natural environment research council Grants NE/D01249X/1, NE/F017774/1 and NE/H012087/1, respectively. REBR's contribution was supported by a Postdoctoral Fellowship at the University of Victoria, funded by the Canadian Healthy Oceans Network II Strategic Research Program (CHONe II). DC is supported by a post‐doctoral scholarship (SFRH/BPD/110278/2015) from FCT. HTR was supported by the Research Council of Norway through project number 70184227 and the KG Jebsen Centre for Deep Sea Research (University of Bergen). MY was partially supported by grants from the Research Grants Council of the Hong Kong Special Administrative Region, China (project codes: HKU 17306014, HKU 17311316).

Description: Author Posting. © American Geophysical Union, 2021. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Journal of Geophysical Research: Oceans 126(7), (2021): e2020JC016899, https://doi.org/10.1029/2020JC016899.

Description: Circulation in the nearshore region, which is critical for material transport along the coast and between the surf zone and the inner shelf, includes strong vortical motions. The horizontal length scales and vertical structure associated with vortical motions are not well documented on alongshore-variable beaches. Here, a three-dimensional phase-resolving numerical model, Simulating WAves till SHore (SWASH), is compared with surfzone waves and flows on a barred beach, and is used to investigate surfzone eddies. Model simulations with measured bathymetry reproduce trends in the mean surfzone circulation patterns, including alongshore currents and rip current circulation cells observed for offshore wave heights from 0.5 to 2.0 m and incident wave directions from 0 to 15° relative to shore normal. The length scales of simulated eddies, quantified using the alongshore wavenumber spectra of vertical vorticity, suggest that increasing wave directional spread intensifies small-scale eddies ( (10) m). Simulations with bathymetric variability ranging from alongshore uniform to highly alongshore variable indicate that large-scale eddies ( (100) m) may be enhanced by surfzone bathymetric variability, whereas small-scale eddies ( (10) m) are less dependent on bathymetric variability. The simulated vertical dependence of the magnitude and mean length scale (centroid) of the alongshore wavenumber spectra of vertical vorticity and very low-frequency (f ≈ 0.005 Hz) currents is weak in the outer surf zone, and decreases toward the shoreline. The vertical dependence in the simulations may be affected by the vertical structure of turbulence, mean shear, and bottom boundary layer dynamics.

Description: Support was provided by the University of Washington Royalty Research Fund, the National Science Foundation, the Office of Naval Research, a National Defense Science and Engineering Graduate Fellowship, a Vannevar Bush Faculty Fellowship, the United States Army Corps of Engineers, the United States Coastal Research Program, Sea Grant, and the WHOI Investment in Science Program.

Description: 2021-12-26