USAP-DC

{"dp_type": "Dataset", "free_text": "Cold Adaptation"}

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Postlethwait.", "east": 180.0, "geometry": ["POINT(0 -89.999)"], "keywords": "Antarctica; Cold Adaptation; Cryonotothenioid; Dragonfish; Eleginopsioidea; Fish; Genetic Analysis; Hemoglobin; Icefish; Notothenioid; Notothenioid Fishes; Plunderfish; Sub-Antarctic", "locations": "Antarctica; Sub-Antarctic", "north": -37.0, "nsf_funding_programs": "Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems", "persons": "Desvignes, Thomas; Postlethwait, John", "project_titles": "Evolution of hemoglobin genes in notothenioid fishes", "projects": [{"proj_uid": "p0010417", "repository": "USAP-DC", "title": "Evolution of hemoglobin genes in notothenioid fishes"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -90.0, "title": "Rates of hemoglobin evolution among genes and across notothenioid species.", "uid": "601729", "west": -180.0}, {"awards": "1543383 Postlethwait, John; 1947040 Postlethwait, John; 2232891 Postlethwait, John", "bounds_geometry": ["POLYGON((-180 -37,-144 -37,-108 -37,-72 -37,-36 -37,0 -37,36 -37,72 -37,108 -37,144 -37,180 -37,180 -42.3,180 -47.6,180 -52.9,180 -58.2,180 -63.5,180 -68.8,180 -74.1,180 -79.4,180 -84.69999999999999,180 -90,144 -90,108 -90,72 -90,36 -90,0 -90,-36 -90,-72 -90,-108 -90,-144 -90,-180 -90,-180 -84.7,-180 -79.4,-180 -74.1,-180 -68.8,-180 -63.5,-180 -58.2,-180 -52.9,-180 -47.6,-180 -42.300000000000004,-180 -37))"], "date_created": "Fri, 08 Sep 2023 00:00:00 GMT", "description": "Phylogenetic tree of Notothenioid species used in analyses and results of the HyPhy MEME tests for sites evolving under episodic diversifying selection in notothenioid hemoglobin genes in the research article \u201cCold-driven hemoglobin evolution in Antarctic notothenioid fishes prior to hemoglobin gene loss in white-blooded icefishes\u201d by Thomas Desvignes, Iliana Bista, Karina Herrera, Audrey Landes, John H. Postlethwait.", "east": 180.0, "geometry": ["POINT(0 -89.999)"], "keywords": "Antarctica; Cold Adaptation; Cryonotothenioid; Dragonfish; Eleginopsioidea; Fish; Genetic Analysis; Hemoglobin; Icefish; Notothenioid; Notothenioid Fishes; Plunderfish; Sub-Antarctic", "locations": "Antarctica; Sub-Antarctic", "north": -37.0, "nsf_funding_programs": "Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems", "persons": "Desvignes, Thomas; Postlethwait, John", "project_titles": "Evolution of hemoglobin genes in notothenioid fishes", "projects": [{"proj_uid": "p0010417", "repository": "USAP-DC", "title": "Evolution of hemoglobin genes in notothenioid fishes"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -90.0, "title": "MEME tests of sites evolving under episodic diversifying selection in notothenioid hemoglobin genes.", "uid": "601730", "west": -180.0}, {"awards": "1543383 Postlethwait, John; 1947040 Postlethwait, John; 2232891 Postlethwait, John", "bounds_geometry": ["POLYGON((-180 -37,-144 -37,-108 -37,-72 -37,-36 -37,0 -37,36 -37,72 -37,108 -37,144 -37,180 -37,180 -42.3,180 -47.6,180 -52.9,180 -58.2,180 -63.5,180 -68.8,180 -74.1,180 -79.4,180 -84.69999999999999,180 -90,144 -90,108 -90,72 -90,36 -90,0 -90,-36 -90,-72 -90,-108 -90,-144 -90,-180 -90,-180 -84.7,-180 -79.4,-180 -74.1,-180 -68.8,-180 -63.5,-180 -58.2,-180 -52.9,-180 -47.6,-180 -42.300000000000004,-180 -37))"], "date_created": "Fri, 08 Sep 2023 00:00:00 GMT", "description": "Phylogenetic tree of Notothenioid species used in analyses and results of the HyPhy RELAX tests for pervasive changes in strength of natural selection on hemoglobin genes in the research article \u201cCold-driven hemoglobin evolution in Antarctic notothenioid fishes prior to hemoglobin gene loss in white-blooded icefishes\u201d by Thomas Desvignes, Iliana Bista, Karina Herrera, Audrey Landes, John H. Postlethwait.", "east": 180.0, "geometry": ["POINT(0 -89.999)"], "keywords": "Antarctica; Cold Adaptation; Cryonotothenioid; Dragonfish; Eleginopsioidea; Fish; Genetic Analysis; Hemoglobin; Icefish; Notothenioid; Notothenioid Fishes; Plunderfish; Sub-Antarctic", "locations": "Antarctica; Sub-Antarctic", "north": -37.0, "nsf_funding_programs": "Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems", "persons": "Desvignes, Thomas; Postlethwait, John", "project_titles": "Evolution of hemoglobin genes in notothenioid fishes", "projects": [{"proj_uid": "p0010417", "repository": "USAP-DC", "title": "Evolution of hemoglobin genes in notothenioid fishes"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -90.0, "title": "RELAX tests for pervasive changes in strength of natural selection on hemoglobin genes in notothenioids.", "uid": "601731", "west": -180.0}, {"awards": "1947040 Postlethwait, John; 2232891 Postlethwait, John; 1543383 Postlethwait, John", "bounds_geometry": ["POLYGON((-180 -37,-144 -37,-108 -37,-72 -37,-36 -37,0 -37,36 -37,72 -37,108 -37,144 -37,180 -37,180 -42.3,180 -47.6,180 -52.9,180 -58.2,180 -63.5,180 -68.8,180 -74.1,180 -79.4,180 -84.69999999999999,180 -90,144 -90,108 -90,72 -90,36 -90,0 -90,-36 -90,-72 -90,-108 -90,-144 -90,-180 -90,-180 -84.7,-180 -79.4,-180 -74.1,-180 -68.8,-180 -63.5,-180 -58.2,-180 -52.9,-180 -47.6,-180 -42.300000000000004,-180 -37))"], "date_created": "Thu, 24 Aug 2023 00:00:00 GMT", "description": "All input and output files of the phylogenetic trees of hemoglobin proteins in Notothenioids from the study \"Cold-driven hemoglobin evolution in Antarctic notothenioid fishes prior to hemoglobin gene loss in white-blooded icefishes\" by Thomas Desvignes, Iliana Bista, Karina Herrera, Audrey Landes, and John H. Postlethwait.", "east": 180.0, "geometry": ["POINT(0 -89.999)"], "keywords": "Antarctica; Cold Adaptation; Cryonotothenioid; Dragonfish; Eleginopsioidea; Fish; Gene; Hemoglobin; Icefish; Notothenioid; Plunderfish; Sub-Antarctic", "locations": "Antarctica; Sub-Antarctic", "north": -37.0, "nsf_funding_programs": "Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems", "persons": "Desvignes, Thomas; Postlethwait, John", "project_titles": "Evolution of hemoglobin genes in notothenioid fishes", "projects": [{"proj_uid": "p0010417", "repository": "USAP-DC", "title": "Evolution of hemoglobin genes in notothenioid fishes"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -90.0, "title": "Phylogenetic trees of hemoglobin proteins in notothenioids from the study \"Cold-driven hemoglobin evolution in Antarctic notothenioid fishes prior to hemoglobin gene loss in white-blooded icefishes\"", "uid": "601722", "west": -180.0}, {"awards": "2232891 Postlethwait, John; 1543383 Postlethwait, John; 1947040 Postlethwait, John", "bounds_geometry": ["POLYGON((-180 -37,-144 -37,-108 -37,-72 -37,-36 -37,0 -37,36 -37,72 -37,108 -37,144 -37,180 -37,180 -42.3,180 -47.6,180 -52.9,180 -58.2,180 -63.5,180 -68.8,180 -74.1,180 -79.4,180 -84.69999999999999,180 -90,144 -90,108 -90,72 -90,36 -90,0 -90,-36 -90,-72 -90,-108 -90,-144 -90,-180 -90,-180 -84.7,-180 -79.4,-180 -74.1,-180 -68.8,-180 -63.5,-180 -58.2,-180 -52.9,-180 -47.6,-180 -42.300000000000004,-180 -37))"], "date_created": "Thu, 24 Aug 2023 00:00:00 GMT", "description": "Phylogenetic tree of 36 notothenioid species and five outgroup used throughout the study \"Cold-driven hemoglobin evolution in Antarctic notothenioid fishes prior to hemoglobin gene loss in white-blooded icefishes\" by Thomas Desvignes, Iliana Bista, Karina Herrera, Audrey Landes, John H. Postlethwait.", "east": 180.0, "geometry": ["POINT(0 -89.999)"], "keywords": "Antarctica; Cold Adaptation; Cryonotothenioid; Dragonfish; Eleginopsioidea; Fish; Gene; Hemoglobin; Icefish; Notothenioid; Plunderfish; Sub-Antarctic", "locations": "Antarctica; Sub-Antarctic", "north": -37.0, "nsf_funding_programs": "Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems", "persons": "Desvignes, Thomas; Postlethwait, John", "project_titles": "Evolution of hemoglobin genes in notothenioid fishes", "projects": [{"proj_uid": "p0010417", "repository": "USAP-DC", "title": "Evolution of hemoglobin genes in notothenioid fishes"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -90.0, "title": "Notothenioid species tree used in the study \"Cold-driven hemoglobin evolution in Antarctic notothenioid fishes prior to hemoglobin gene loss in white-blooded icefishes\"", "uid": "601721", "west": -180.0}, {"awards": "1341485 Woods, H. Arthur; 1341476 Moran, Amy", "bounds_geometry": ["POINT(166.67 -77.85)"], "date_created": "Fri, 07 Dec 2018 00:00:00 GMT", "description": "This dataset contains morphometric (mass, surface area, cuticle thickness, cuticle morphometrics) and physiological (oxygen consumption) data for Antarctic pycnognonids collected in McMurdo Sound, Antarctica .", "east": 166.67, "geometry": ["POINT(166.67 -77.85)"], "keywords": "Antarctica; Biomechanics; Biota; Cold Adaptation; McMurdo Sound; Metabolism; Oceans; Oxygen; Pycnogonida; Southern Ocean", "locations": "McMurdo Sound; Antarctica; Southern Ocean", "north": -77.85, "nsf_funding_programs": "Antarctic Organisms and Ecosystems; Antarctic Organisms and Ecosystems", "persons": "Moran, Amy; Woods, H. Arthur; Tobalske, Bret", "project_titles": "Collaborative Research: Body Size, Oxygen, and Vulnerability to Climate Change in Antarctic Pycnogonida", "projects": [{"proj_uid": "p0000007", "repository": "USAP-DC", "title": "Collaborative Research: Body Size, Oxygen, and Vulnerability to Climate Change in Antarctic Pycnogonida"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -77.85, "title": "Physiological and biochemical measurements on Pycnogonida from McMurdo Sound", "uid": "601142", "west": 166.67}, {"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": "0801392 Swanson, Brian", "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": "Fri, 01 Jan 2010 00:00:00 GMT", "description": "The primary objective of this research is to investigate polar marine psychrophilic bacteria for their potential to nucleate ice using a combination of microbiological, molecular biological and atmospheric science approaches in the laboratory. Very little is known about how psychrophiles interact and cope with ice or their adaptations to conditions of extreme cold and salinity. This work will involve a series of laboratory experiments using a novel freeze-tube technique for assaying freezing spectra which will provide quantitative information on: (i) the temperature-dependent freezing rates for heterogeneously frozen droplets containing sea-ice bacteria, (ii) the proportional occurrence of ice-nucleation activity versus anti-freeze activity among sea-ice bacterial isolates and (iii) the temperature-dependent freezing rates of bacteria with ice-nucleation activity grown at a range of temperatures and salinities. The compound(s) responsible for the observed activity will be identified, which is an essential step towards the development of an in-situ bacterial ice-nucleation detection assay that can be applied in the field to Antarctic water and cloud samples. One of the goals of this work is to better understand survival and cold adaptation processes of polar marine bacteria confronted with freezing conditions in sea ice. Since sea ice strongly impacts polar, as well as the global climates, this research is of significant interest because it will also provide data for accessing the importance of bacterial ice nucleation in the formation of sea ice. These measurements of ice-nucleation rates will be the first high-resolution measurements for psychrophilic marine bacteria. Another goal is to better understand the impact of bacterial ice initiation processes in polar clouds by making high-resolution measurements of nucleation rates for cloud bacteria found over Arctic and Antarctic regions. Initial measurements indicate these bacteria nucleate ice at warmer temperatures and the effect in polar regions may be quite important, since ice can strongly impact cloud dynamics, cloud radiative properties, precipitation formation, and cloud chemistry. If these initial measurements are confirmed, the data collected here will be important for improving the understanding of polar cloud processes and models. A third goal is to better understand the molecular basis of marine bacterial ice nucleation by characterizing the ice-nucleation compound and comparing it with those of known plant-derived ice-nucleating bacteria, which are the only ice-nucleating bacteria examined in detail to date. The proposed activity will support the beginning academic career of a post-doctoral researcher and will serve as the basis for several undergraduate student laboratory projects. Results from this research will be widely published in various scientific journals and outreach venues.", "east": 180.0, "geometry": ["POINT(0 -89.999)"], "keywords": "Biota; Microbiology; Oceans; Raman Spectroscopy; Sea Ice; Sea Surface; Southern Ocean", "locations": "Sea Surface; Southern Ocean", "north": -60.0, "nsf_funding_programs": null, "persons": "Swanson, Brian", "project_titles": "Ice Nucleation by Marine Psychrophiles", "projects": [{"proj_uid": "p0000195", "repository": "USAP-DC", "title": "Ice Nucleation by Marine Psychrophiles"}], "repo": "USAP-DC", "repositories": "USAP-DC", "science_programs": null, "south": -90.0, "title": "Ice Nucleation by Marine Psychrophiles", "uid": "600087", "west": -180.0}]

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