USAP-DC

{"dp_type": "Dataset", "free_text": "Genomics"}

[{"awards": "1850988 Teets, Nicholas", "bounds_geometry": ["POLYGON((-64.366767 -62.68104,-63.9917003 -62.68104,-63.6166336 -62.68104,-63.241566899999995 -62.68104,-62.8665002 -62.68104,-62.4914335 -62.68104,-62.1163668 -62.68104,-61.741300100000004 -62.68104,-61.3662334 -62.68104,-60.9911667 -62.68104,-60.6161 -62.68104,-60.6161 -62.953703700000005,-60.6161 -63.2263674,-60.6161 -63.4990311,-60.6161 -63.771694800000006,-60.6161 -64.0443585,-60.6161 -64.31702220000001,-60.6161 -64.5896859,-60.6161 -64.8623496,-60.6161 -65.13501330000001,-60.6161 -65.407677,-60.9911667 -65.407677,-61.3662334 -65.407677,-61.741300100000004 -65.407677,-62.1163668 -65.407677,-62.4914335 -65.407677,-62.8665002 -65.407677,-63.241566899999995 -65.407677,-63.6166336 -65.407677,-63.9917003 -65.407677,-64.366767 -65.407677,-64.366767 -65.13501330000001,-64.366767 -64.8623496,-64.366767 -64.5896859,-64.366767 -64.31702220000001,-64.366767 -64.0443585,-64.366767 -63.771694800000006,-64.366767 -63.4990311,-64.366767 -63.2263674,-64.366767 -62.953703700000005,-64.366767 -62.68104))"], "date_created": "Thu, 22 Jun 2023 00:00:00 GMT", "description": "This study examines how energy reserves and gene expression change between Belgica antarctica larvae that did and did not go through a freezing and recovery event (frozen and control). The midges were exposed to -5C for 24h and recovered for 15 days. Samples were taken immediately after thaw, 1, 3, 7, and 15 days of recovery for biochemical assays and RNA-sequencing, \r\n\r\nDataset \"survival\" shows survival rate between frozen and control\r\nDatasets \"carb results\", \"lipid results\", and \"protein results\" show changes in energy reserves between frozen and control\r\nDataset \"KEGG results\" show pathways elicited by differential gene expression between frozen and control", "east": -60.6161, "geometry": ["POINT(-62.4914335 -64.0443585)"], "keywords": "Antarctica; Belgica Antarctica; Palmer Station", "locations": "Palmer Station; Antarctica", "north": -62.68104, "nsf_funding_programs": "Antarctic Organisms and Ecosystems", "persons": "Lima, Cleverson; Lecheta, Melise; Devlin, Jack; Teets, Nicholas", "project_titles": "NSFGEO-NERC: Mechanisms of Adaptation to Terrestrial Antarctica through Comparative Physiology and Genomics of Antarctic and sub-Antarctic Insects", "projects": [{"proj_uid": "p0010203", "repository": "USAP-DC", "title": "NSFGEO-NERC: Mechanisms of Adaptation to Terrestrial Antarctica through Comparative Physiology and Genomics of Antarctic and sub-Antarctic Insects"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -65.407677, "title": "Long-term recovery from freezing in Belgica antarctica", "uid": "601698", "west": -64.366767}, {"awards": "1850988 Teets, Nicholas", "bounds_geometry": ["POLYGON((-64.366767 -62.681,-51.868477 -62.681,-39.370186999999994 -62.681,-26.87189699999999 -62.681,-14.373606999999993 -62.681,-1.875316999999996 -62.681,10.622973000000016 -62.681,23.121263000000013 -62.681,35.61955300000001 -62.681,48.11784300000001 -62.681,60.616133 -62.681,60.616133 -62.9536677,60.616133 -63.226335399999996,60.616133 -63.4990031,60.616133 -63.7716708,60.616133 -64.04433850000001,60.616133 -64.31700620000001,60.616133 -64.58967390000001,60.616133 -64.86234160000001,60.616133 -65.13500930000001,60.616133 -65.407677,48.11784299999999 -65.407677,35.619552999999996 -65.407677,23.121262999999992 -65.407677,10.622972999999995 -65.407677,-1.875317000000003 -65.407677,-14.373607000000014 -65.407677,-26.87189700000001 -65.407677,-39.37018700000001 -65.407677,-51.868477000000006 -65.407677,-64.366767 -65.407677,-64.366767 -65.13500930000001,-64.366767 -64.86234160000001,-64.366767 -64.58967390000001,-64.366767 -64.31700620000001,-64.366767 -64.04433850000001,-64.366767 -63.7716708,-64.366767 -63.4990031,-64.366767 -63.226335399999996,-64.366767 -62.9536677,-64.366767 -62.681))"], "date_created": "Sun, 11 Jun 2023 00:00:00 GMT", "description": "Antarctic winters are challenging for terrestrial invertebrates, and species that\r\nlive there have specialised adaptations to conserve energy and protect against\r\ncold injury in the winter. However, rapidly occurring climate change in these\r\nregions will increase the unpredictability of winter conditions, and there is\r\ncurrently a dearth of knowledge on how the highly adapted invertebrates of\r\nAntarctica will respond to changes in winter temperatures.\r\n2. We evaluated the response of larvae of the Antarctic midge, Belgica antarctica,\r\nto simulated winters at three ecologically relevant mean temperature scenarios:\r\nwarm (\u22121\u00b0C), normal (\u22123\u00b0C) and cold (\u22125\u00b0C). Within each scenario, larvae were\r\nplaced into three distinct habitat types in which they are commonly observed\r\n(decaying organic matter, living moss, and Prasiola crispa algae). Following the\r\nsimulated overwintering period, a range of physiological outcomes were measured,\r\nnamely survival, locomotor activity, tissue damage, energy store levels and\r\nmolecular stress responses.\r\n3. Survival, energy stores and locomotor activity were significantly lower following\r\nthe Warm overwintering environment than at lower temperatures, but tissue\r\ndamage and heat shock protein expression (a proxy for protein damage) did not\r\nsignificantly differ between the three temperatures. Survival was also significantly\r\nlower in larvae overwintered in Prasiola crispa algae, although the underlying\r\nmechanism is unclear. Heat shock proteins were expressed least in larvae\r\noverwintering in living moss, suggesting it is less stressful to overwinter in this\r\nsubstrate, perhaps due to a more defined structure affording less direct contact\r\nwith ice.\r\n4. Our results demonstrate that a realistic 2\u00b0C increase in winter microhabitat temperature\r\nreduces survival and causes energy deficits that have implications for subsequent\r\ndevelopment and reproduction. While our Warm winter scenario was close tothe range of observed overwintering temperatures for this species, warmer winters\r\nare expected to become more common in response to climate change. Conversely,\r\nif climate change reduces the length of winter, some of the negative consequences\r\nof winter warming may be attenuated, so it will be important to consider this factor\r\nin future studies. Nonetheless, our results indicate that winter warming could\r\nnegatively impact cold-adapted insects such as the Antarctic midge.", "east": 60.616133, "geometry": ["POINT(-1.875316999999996 -64.04433850000001)"], "keywords": "Antarctica", "locations": "Antarctica", "north": -62.681, "nsf_funding_programs": "Antarctic Organisms and Ecosystems", "persons": "Devlin, Jack; Unfried, Laura; McCabe, Eleanor; Gantz, Josiah D.; Kawarasaki, Yuta; Elnitsky, Michael; Hotaling, Scott; Michel, Andrew; Convey, Peter; Hayward, Scott; Teets, Nicholas", "project_titles": "NSFGEO-NERC: Mechanisms of Adaptation to Terrestrial Antarctica through Comparative Physiology and Genomics of Antarctic and sub-Antarctic Insects", "projects": [{"proj_uid": "p0010203", "repository": "USAP-DC", "title": "NSFGEO-NERC: Mechanisms of Adaptation to Terrestrial Antarctica through Comparative Physiology and Genomics of Antarctic and sub-Antarctic Insects"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -65.407677, "title": "Simulated winter warming negatively impacts survival of Antarctica\u0027s only endemic insect", "uid": "601694", "west": -64.366767}, {"awards": "1850988 Teets, Nicholas", "bounds_geometry": ["POLYGON((-64.366767 -62.68104,-63.991703599999994 -62.68104,-63.6166402 -62.68104,-63.2415768 -62.68104,-62.866513399999995 -62.68104,-62.49145 -62.68104,-62.1163866 -62.68104,-61.7413232 -62.68104,-61.366259799999995 -62.68104,-60.9911964 -62.68104,-60.616133 -62.68104,-60.616133 -62.953703700000005,-60.616133 -63.2263674,-60.616133 -63.4990311,-60.616133 -63.771694800000006,-60.616133 -64.0443585,-60.616133 -64.31702220000001,-60.616133 -64.5896859,-60.616133 -64.8623496,-60.616133 -65.13501330000001,-60.616133 -65.407677,-60.9911964 -65.407677,-61.366259799999995 -65.407677,-61.7413232 -65.407677,-62.1163866 -65.407677,-62.49145 -65.407677,-62.866513399999995 -65.407677,-63.2415768 -65.407677,-63.6166402 -65.407677,-63.991703599999994 -65.407677,-64.366767 -65.407677,-64.366767 -65.13501330000001,-64.366767 -64.8623496,-64.366767 -64.5896859,-64.366767 -64.31702220000001,-64.366767 -64.0443585,-64.366767 -63.771694800000006,-64.366767 -63.4990311,-64.366767 -63.2263674,-64.366767 -62.953703700000005,-64.366767 -62.68104))"], "date_created": "Tue, 09 May 2023 00:00:00 GMT", "description": "The file associated with this submission contains information about the collection of Belgica antarctica individuals realized during the 2022/2023 Antarctica summer season. Each entry on the table describes the collection locations, how many sites are within each location, how many individuals were collected in each site, the collection dates, the life stage, and the species.", "east": -60.616133, "geometry": ["POINT(-62.49145 -64.0443585)"], "keywords": "Antarctica; Antarctic Peninsula; Belgica Antarctica; Biota; Sample Location", "locations": "Antarctic Peninsula; Antarctica", "north": -62.68104, "nsf_funding_programs": "Antarctic Organisms and Ecosystems", "persons": "Pavinato, Vitor; Gantz, Joseph; Kawarasaki, Yuta; Lima, Cleverson; Devlin, Jack; Teets, Nicholas; Michel, Andrew; Peter, Convey", "project_titles": "NSFGEO-NERC: Mechanisms of Adaptation to Terrestrial Antarctica through Comparative Physiology and Genomics of Antarctic and sub-Antarctic Insects", "projects": [{"proj_uid": "p0010203", "repository": "USAP-DC", "title": "NSFGEO-NERC: Mechanisms of Adaptation to Terrestrial Antarctica through Comparative Physiology and Genomics of Antarctic and sub-Antarctic Insects"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -65.407677, "title": "Information on 2023 collection sites for Belgica antarctica", "uid": "601687", "west": -64.366767}, {"awards": "0732917 McCormick, Michael", "bounds_geometry": ["POLYGON((299.4 -63.1,299.92 -63.1,300.44 -63.1,300.96 -63.1,301.48 -63.1,302 -63.1,302.52 -63.1,303.04 -63.1,303.56 -63.1,304.08 -63.1,304.6 -63.1,304.6 -63.29,304.6 -63.48,304.6 -63.67,304.6 -63.86,304.6 -64.05,304.6 -64.24,304.6 -64.43,304.6 -64.62,304.6 -64.81,304.6 -65,304.08 -65,303.56 -65,303.04 -65,302.52 -65,302 -65,301.48 -65,300.96 -65,300.44 -65,299.92 -65,299.4 -65,299.4 -64.81,299.4 -64.62,299.4 -64.43,299.4 -64.24,299.4 -64.05,299.4 -63.86,299.4 -63.67,299.4 -63.48,299.4 -63.29,299.4 -63.1))"], "date_created": "Sun, 17 Dec 2017 00:00:00 GMT", "description": "Ice-shelf loss along the east coast of the Antarctic Peninsula over recent decades has brought new sources of carbon and energy to the marine benthos likely affecting sediment geochemistry and microbial community composition. To better understand the long-term effects of ice-shelf loss on benthic microbial communities, we conducted a five-station survey along a 160 km transect following the historic path of retreat of the Larsen A ice shelf. All microbial community sequence data is publicly available through the Metagenomics Analysis Server at Argonne National Laboratory (MG-RAST). The project title is \"Impact of ice-shelf loss on geochemical profiles and microbial community composition in marine sediments of the Larsen A embayment, Antarctic Peninsula\". A key word search using terms from this title at the MG-RAST portal (http://metagenomics.anl.gov/) will return the complete sample list. This submitted dataset summarizes the measured environmental parameters for these same samples (lat., long., water depth, sediment depth, pH, alkalinity, dissolved oxygen, silicate, phosphate, nitrate, nitrite, and ammonium).", "east": 304.6, "geometry": ["POINT(-58 -64.05)"], "keywords": "Antarctica; Antarctic Peninsula; Chemistry:ice; Chemistry:Ice; Geochemistry; Glaciers/ice Sheet; Glaciers/Ice Sheet; Glaciology; Ice Core Records; LARISSA; Microbiology", "locations": "Antarctic Peninsula; Antarctica", "north": -63.1, "nsf_funding_programs": "Antarctic Integrated System Science", "persons": "McCormick, Michael", "project_titles": "Collaborative Research in IPY: Abrupt Environmental Change in the Larsen Ice Shelf System, a Multidisciplinary Approach - Marine Ecosystems.", "projects": [{"proj_uid": "p0010135", "repository": "USAP-DC", "title": "Collaborative Research in IPY: Abrupt Environmental Change in the Larsen Ice Shelf System, a Multidisciplinary Approach - Marine Ecosystems."}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -65.0, "title": "LARISSA: Impact of ice-shelf loss on geochemical profiles and microbial community composition in marine sediments of the Larsen A embayment, Antarctic Peninsula", "uid": "601073", "west": 299.4}, {"awards": "0739783 Junge, Karen", "bounds_geometry": ["POLYGON((-180 -60,-144 -60,-108 -60,-72 -60,-36 -60,0 -60,36 -60,72 -60,108 -60,144 -60,180 -60,180 -63,180 -66,180 -69,180 -72,180 -75,180 -78,180 -81,180 -84,180 -87,180 -90,144 -90,108 -90,72 -90,36 -90,0 -90,-36 -90,-72 -90,-108 -90,-144 -90,-180 -90,-180 -87,-180 -84,-180 -81,-180 -78,-180 -75,-180 -72,-180 -69,-180 -66,-180 -63,-180 -60))"], "date_created": "Tue, 01 Jan 2013 00:00:00 GMT", "description": "The mechanisms enabling bacteria to be metabolically active at very low temperatures are of considerable importance to polar microbial ecology, astrobiology, climate and cryopreservation. This research program has two main objectives. The first is to investigate metabolic activities and gene expression of polar marine psychrophilic bacteria when confronted with freezing conditions at temperatures above the eutectic of seawater (\u003c54C) to unveil cold adaptation mechanisms with relevance to wintertime sea-ice ecology. The second objective is to discern if psychrophilic processes of leucine incorporation into proteins, shown to occur to -196C, amount to metabolic activity providing for the survival of cells or are merely biochemical reactions still possible in flash-frozen samples without any effect on survival. We will examine extracellular and intracellular processes of psychrophilic activity above and below the eutectic by (i) determining the temperature range of metabolic activities such as DNA synthesis, carbon utilization, respiration and ATP generation using radioactive tracer technology, including a control at liquid helium temperature (-268.9C), (ii) analyzing gene expression in ice using whole genome and microarray analyses and iii) examining the role of exopolymeric substances (EPS) and ice micro-physics for the observed activity using an in-situ microscopy technique. Results of the proposed research can be expected to aid in the determination of cellular and genetic strategies that allow cells to maintain activity at extremely low temperatures within an icy matrix and/or to resume activity again when more growth-permissive conditions are encountered. The research is an interdisciplinary collaboration involving three different institutions with participants in Oceanography, Genomics, and Geophysical Sciences. The proposed activity will support the beginning professional career of a female researcher and will serve as the basis for several undergraduate student laboratory projects.", "east": 180.0, "geometry": ["POINT(0 -89.999)"], "keywords": "Antarctica; Biota; Microbiology; Oceans; Sea Ice; Southern Ocean", "locations": "Southern Ocean; Antarctica", "north": -60.0, "nsf_funding_programs": null, "persons": "Junge, Karen", "project_titles": "Metabolic Activities and Gene Expression of Marine Psychrophiles in Cold Ice", "projects": [{"proj_uid": "p0000673", "repository": "USAP-DC", "title": "Metabolic Activities and Gene Expression of Marine Psychrophiles in Cold Ice"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -90.0, "title": "Metabolic Activities and Gene Expression of Marine Psychrophiles in Cold Ice", "uid": "600083", "west": -180.0}, {"awards": "0632389 Murray, Alison", "bounds_geometry": ["POLYGON((-65.3827 -64.4213,-65.13333 -64.4213,-64.88396 -64.4213,-64.63459 -64.4213,-64.38522 -64.4213,-64.13585 -64.4213,-63.88648 -64.4213,-63.63711 -64.4213,-63.38774 -64.4213,-63.13837 -64.4213,-62.889 -64.4213,-62.889 -64.47176,-62.889 -64.52222,-62.889 -64.57268,-62.889 -64.62314,-62.889 -64.6736,-62.889 -64.72406,-62.889 -64.77452,-62.889 -64.82498,-62.889 -64.87544,-62.889 -64.9259,-63.13837 -64.9259,-63.38774 -64.9259,-63.63711 -64.9259,-63.88648 -64.9259,-64.13585 -64.9259,-64.38522 -64.9259,-64.63459 -64.9259,-64.88396 -64.9259,-65.13333 -64.9259,-65.3827 -64.9259,-65.3827 -64.87544,-65.3827 -64.82498,-65.3827 -64.77452,-65.3827 -64.72406,-65.3827 -64.6736,-65.3827 -64.62314,-65.3827 -64.57268,-65.3827 -64.52222,-65.3827 -64.47176,-65.3827 -64.4213))"], "date_created": "Sat, 01 Jan 2011 00:00:00 GMT", "description": "The Western Antarctic Peninsula is experiencing one of the most rapid rates of climate warming on Earth, with an increase of 5degrees C in the mean winter temperature in 50 years. Impacts on upper trophic levels are evident, though there have been few, if any studies that have considered the impacts on bacterioplankton in the Southern Ocean. This proposal will characterize the winter bacterioplankton genome, transcriptome, and proteome and discover those features (community composition, genes up-regulated, and proteins expressed) that are essential to winter bacterioplankton survival and livelihood. We have assembled a polar ocean ecology and genomics network including strategic partnerships with Palmer LTER, the British Antarctic Survey\u0027s ocean metagenome program, US and Canadian scientists studying the Arctic Ocean genome, an Australian colleague who specialized in archaeal proteomics, and French colleagues studying Sub-Antarctic and Coastal Adelie Land marine bacterioplankton. The primary objectives of this program are: 1 Describe the differences in diversity and genomic content between austral winter and summer bacterioplankton communities. 2. Investigate the winter-time bacterioplankton growth and cellular signals (mRNA and proteins expressed) in order to understand the specific adaptations key to survival. Our results will extend from the Antarctic to the Arctic - as the cold, dark, carbon-limited deep seas linking these two systems have many common features. Education and outreach activities target (i) undergraduate and graduate students, hopefully including minority students recruited through the Diversity in Research in Environmental and Marine Sciences (DREAMS) Program at VIMS; (ii) a broad audience with our education and outreach partnerships with The Cousteau Society and with the Census for Antarctic Marine Life program. Data and links to external databases will be listed on the http://genex2.dri.edu website. Sequence data will be publicly accessible in GenBank and IMG-M databases.", "east": -62.889, "geometry": ["POINT(-64.13585 -64.6736)"], "keywords": "Antarctica; Antarctic Peninsula; Biota; Chemistry:fluid; Chemistry:Fluid; Oceans; Southern Ocean", "locations": "Antarctic Peninsula; Antarctica; Southern Ocean", "north": -64.4213, "nsf_funding_programs": null, "persons": "Grzymski, Joseph; Murray, Alison", "project_titles": "IPY: Bacterioplankton Genomic Adaptations to Antarctic Winter", "projects": [{"proj_uid": "p0000091", "repository": "USAP-DC", "title": "IPY: Bacterioplankton Genomic Adaptations to Antarctic Winter"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -64.9259, "title": "IPY: Bacterioplankton Genomic Adaptations to Antarctic Winter", "uid": "600061", "west": -65.3827}, {"awards": "0808947 Hofmann, Gretchen", "bounds_geometry": ["POLYGON((-160 -70,-159 -70,-158 -70,-157 -70,-156 -70,-155 -70,-154 -70,-153 -70,-152 -70,-151 -70,-150 -70,-150 -70.7,-150 -71.4,-150 -72.1,-150 -72.8,-150 -73.5,-150 -74.2,-150 -74.9,-150 -75.6,-150 -76.3,-150 -77,-151 -77,-152 -77,-153 -77,-154 -77,-155 -77,-156 -77,-157 -77,-158 -77,-159 -77,-160 -77,-160 -76.3,-160 -75.6,-160 -74.9,-160 -74.2,-160 -73.5,-160 -72.8,-160 -72.1,-160 -71.4,-160 -70.7,-160 -70))"], "date_created": "Fri, 01 Jan 2010 00:00:00 GMT", "description": "This Small Grant for Exploratory Research (SGER) will support the rapid acquisition of DNA sequence for the Antarctic pteropod Limacina helicina, a resource that would allow the development of a cDNA microarray to profile gene expression in this critical marine invertebrate in response to ocean acidification. This request would facilitate the collaboration of the PI (Hofmann), a marine molecular ecologist, with co-PI, Prof. Victoria Fabry, an expert in pteropod calcification biology, and a leader in the ocean acidification research community. Finally, the resources developed here would be shared with the polar research community and all DNA sequence data and protocols would be available via web databases. Notably, the genomic tool developed here would most likely be useful for pteropods from Antarctic and Arctic waters. The broader impacts of this project would be the development of genomic tools for a critical Antarctic marine invertebrate that is threatened by ocean acidification. In addition, these resources would be shared with the polar biology research community.", "east": -150.0, "geometry": ["POINT(-155 -73.5)"], "keywords": "Biota; Genomics; Oceans; Southern Ocean", "locations": "Southern Ocean", "north": -70.0, "nsf_funding_programs": null, "persons": "Fabry, Victoria; Hofmann, Gretchen", "project_titles": "Science of Opportunity: A SGER proposal to support the development of genomic resources for Antarctic pteropods", "projects": [{"proj_uid": "p0000213", "repository": "USAP-DC", "title": "Science of Opportunity: A SGER proposal to support the development of genomic resources for Antarctic pteropods"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -77.0, "title": "Science of Opportunity: A SGER proposal to support the development of genomic resources for Antarctic pteropods", "uid": "600088", "west": -160.0}]

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