Genomes and Genes
Summary: The SALINE water of OCEANS AND SEAS that provides habitat for marine organisms.
Publications359 found, 100 shown here
- Microbial diversity in the deep sea and the underexplored "rare biosphere"Mitchell L Sogin
Josephine Bay Paul Center, Marine Biological Laboratory at Woods Hole, 7 MBL Street, Woods Hole, MA 02543, USA
Proc Natl Acad Sci U S A 103:12115-20. 2006..should be much greater than the published estimates of a few thousand distinct kinds of microbes per liter of seawater. By adopting a massively parallel tag sequencing strategy, we show that bacterial communities of deep water ..
- Coral reefs under rapid climate change and ocean acidificationO Hoegh-Guldberg
Centre for Marine Studies, University of Queensland, St Lucia, 4072 Queensland, Australia
Science 318:1737-42. 2007..As the International Year of the Reef 2008 begins, scaled-up management intervention and decisive action on global emissions are required if the loss of coral-dominated ecosystems is to be avoided...
- Isolation of an autotrophic ammonia-oxidizing marine archaeonMartin Könneke
Department of Civil and Environmental Engineering, University of Washington, Seattle, Washington 98195, USA
Nature 437:543-6. 2005..The autotrophic metabolism of this isolate, and its close phylogenetic relationship to environmental marine crenarchaeal sequences, suggests that nitrifying marine Crenarchaeota may be important to global carbon and nitrogen cycles...
- Anthropogenic ocean acidification over the twenty-first century and its impact on calcifying organismsJames C Orr
Laboratoire des Sciences du Climat et de l Environnement, UMR CEA CNRS, CEA Saclay, F 91191 Gif sur Yvette, France
Nature 437:681-6. 2005..Our findings indicate that conditions detrimental to high-latitude ecosystems could develop within decades, not centuries as suggested previously...
- Viruses in the seaCurtis A Suttle
Department of Chemistry, University of California, Berkeley and the Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
Nature 437:356-61. 2005..Our understanding of the effect of viruses on global systems and processes continues to unfold, overthrowing the idea that viruses and virus-mediated processes are sidebars to global processes...
- Community genomics among stratified microbial assemblages in the ocean's interiorEdward F DeLong
Massachusetts Institute of Technology, Cambridge, MA 02139, USA
Science 311:496-503. 2006..Comparative genomic analyses of stratified microbial communities have the potential to provide significant insight into higher-order community organization and dynamics...
- Environmental genome shotgun sequencing of the Sargasso SeaJ Craig Venter
Institute for Biological Energy Alternatives, 1901 Research Boulevard, Rockville, MD 20850, USA
Science 304:66-74. 2004..shotgun sequencing" to microbial populations collected en masse on tangential flow and impact filters from seawater samples collected from the Sargasso Sea near Bermuda. A total of 1...
- Marine viruses--major players in the global ecosystemCurtis A Suttle
University of British Columbia, Departments of Earth and Ocean Sciences, Botany, and Microbiology and Immunology, 1461 BioSciences, 6270 University Boulevard, Vancouver, British Columbia V6T 1Z4, Canada
Nat Rev Microbiol 5:801-12. 2007..Probing this vast reservoir of genetic and biological diversity continues to yield exciting discoveries...
- Oceanography: anthropogenic carbon and ocean pHKen Caldeira
Energy and Environment Directorate, Lawrence Livermore National Laboratory, 7000 East Avenue, Livermore, California 94550, USA
Nature 425:365. 2003
- Impacts of biodiversity loss on ocean ecosystem servicesBoris Worm
Department of Biology, Dalhousie University, Halifax, NS, Canada B3H 4J1
Science 314:787-90. 2006..Yet available data suggest that at this point, these trends are still reversible...
- Climate warming and disease risks for terrestrial and marine biotaC Drew Harvell
Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, NY 14853, USA
Science 296:2158-62. 2002..To improve our ability to predict epidemics in wild populations, it will be necessary to separate the independent and interactive effects of multiple climate drivers on disease impact...
- Spreading dead zones and consequences for marine ecosystemsRobert J Diaz
Virginia Institute of Marine Science, College of William and Mary, Gloucester Point, VA 23062, USA
Science 321:926-9. 2008..Dead zones have now been reported from more than 400 systems, affecting a total area of more than 245,000 square kilometers, and are probably a key stressor on marine ecosystems...
- The impact of climate change on the world's marine ecosystemsOve Hoegh-Guldberg
Ocean and Coasts Program, Global Change Institute, University of Queensland, St Lucia, QLD 4072, Australia
Science 328:1523-8. 2010..Further change will continue to create enormous challenges and costs for societies worldwide, particularly those in developing countries...
- Depletion, degradation, and recovery potential of estuaries and coastal seasHeike K Lotze
Biology Department, Dalhousie University, 1355 Oxford Street, Halifax, NS, Canada B3H 4J1
Science 312:1806-9. 2006..Our results provide detailed historical baselines and quantitative targets for ecosystem-based management and marine conservation...
- One-third of reef-building corals face elevated extinction risk from climate change and local impactsKent E Carpenter
IUCN International Union for Conservation of Nature Species Programme Species Survival Commission SSC, Biological Sciences, Old Dominion University, Norfolk, VA 23529, USA
Science 321:560-3. 2008..Our results emphasize the widespread plight of coral reefs and the urgent need to enact conservation measures...
- Meta-analysis reveals negative yet variable effects of ocean acidification on marine organismsKristy J Kroeker
Stanford University, Hopkins Marine Station, Pacific Grove, CA 93950, USA
Ecol Lett 13:1419-34. 2010..Our analyses suggest that the biological effects of ocean acidification are generally large and negative, but the variation in sensitivity amongst organisms has important implications for ecosystem responses...
- Ubiquity and diversity of ammonia-oxidizing archaea in water columns and sediments of the oceanChristopher A Francis
Department of Geological and Environmental Sciences, Stanford University, Stanford, CA 94305, USA
Proc Natl Acad Sci U S A 102:14683-8. 2005..Considering the abundance of nonextremophilic archaea in the ocean, our results suggest that AOA may play a significant, but previously unrecognized, role in the global nitrogen cycle...
- Regional decline of coral cover in the Indo-Pacific: timing, extent, and subregional comparisonsJohn F Bruno
Department of Marine Sciences, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America
PLoS ONE 2:e711. 2007..However, little is known about the timing, rate or spatial variability of the loss of reef-building corals, especially in the Indo-Pacific, which contains 75% of the world's coral reefs...
- Global patterns of bacterial beta-diversity in seafloor and seawater ecosystemsLucie Zinger
Microbial habitat group, Max Planck Institute for Marine Microbiology, Bremen, Germany
PLoS ONE 6:e24570. 2011..Marine microbial communities have been essential contributors to global biomass, nutrient cycling, and biodiversity since the early history of Earth, but so far their community distribution patterns remain unknown in most marine ecosystems...
- The taxonomic and functional diversity of microbes at a temperate coastal site: a 'multi-omic' study of seasonal and diel temporal variationJack A Gilbert
Plymouth Marine Laboratory, Plymouth, United Kingdom
PLoS ONE 5:e15545. 2010..Further, the presence of a substantial proportion of orphan sequences underscores the need to determine the gene products of sequences with currently unknown function...
- Ammonia oxidation kinetics determine niche separation of nitrifying Archaea and BacteriaWillm Martens-Habbena
Department of Civil and Environmental Engineering, University of Washington, Seattle, Washington 98105, USA
Nature 461:976-9. 2009..Together these findings support the hypothesis that nitrification is more prevalent in the marine nitrogen cycle than accounted for in current biogeochemical models...
- High-frequency dynamics of ocean pH: a multi-ecosystem comparisonGretchen E Hofmann
Department of Ecology, Evolution and Marine Biology, University of California Santa Barbara, Santa Barbara California, United States of America
PLoS ONE 6:e28983. 2011..between environmental history of pH exposure and physiological resilience of marine organisms to fluctuations in seawater CO(2)...
- Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaeaC B Walker
Department of Civil and Environmental Engineering, University of Washington, Seattle, WA 98195, USA
Proc Natl Acad Sci U S A 107:8818-23. 2010..maritimus gene content and organization within marine metagenomes indicates that the unique physiology of these specialized oligophiles may play a significant role in the biogeochemical cycles of carbon and nitrogen...
- Marine microbial diversity: can it be determined?Carlos Pedrós-Alió
Institut de Ciencies del Mar, CMIMA CSIC, P Marítim de la Barceloneta 37 42, 08003 Barcelona, Spain
Trends Microbiol 14:257-63. 2006..Such taxa are seldom retrieved by molecular techniques but many can be grown in culture, which explains the dictum 'everything is everywhere'...
- Volcanic carbon dioxide vents show ecosystem effects of ocean acidificationJason M Hall-Spencer
Marine Institute, Marine Biology and Ecology Research Centre, University of Plymouth, Plymouth PL4 8AA, UK
Nature 454:96-9. 2008..30% increase in the concentration of H(+) in ocean surface waters since the early 1900s and may lead to a drop in seawater pH of up to 0.5 units by 2100 (refs 2, 3)...
- Deep sequencing reveals exceptional diversity and modes of transmission for bacterial sponge symbiontsNicole S Webster
Australian Institute of Marine Science, PMB 3, Townsville Mail Centre, Qld 4810, Australia
Environ Microbiol 12:2070-82. 2010..including 'Poribacteria', were also found at very low abundance among the 135,000 tags retrieved from surrounding seawater. Thus, members of the rare seawater biosphere may serve as seed organisms for widely occurring symbiont ..
- Genomic analysis of uncultured marine viral communitiesMya Breitbart
Department of Biology, San Diego State University, San Diego, CA 92182 4614, USA
Proc Natl Acad Sci U S A 99:14250-5. 2002..Overall, diversity of the viral communities was extremely high. The results also showed that it would be possible to sequence the entire genome of an uncultured marine viral community...
- Potential for chemolithoautotrophy among ubiquitous bacteria lineages in the dark oceanBrandon K Swan
Bigelow Laboratory for Ocean Sciences, 180 McKown Point Road, Post Office Box 475, West Boothbay Harbor, ME 04575, USA
Science 333:1296-300. 2011..Our study suggests potential chemolithoautotrophy in several uncultured Proteobacteria lineages that are ubiquitous in the dark oxygenated ocean and provides new perspective on carbon cycling in the ocean's largest habitat...
- Heterotrophic plasticity and resilience in bleached coralsAndréa G Grottoli
Department of Geological Sciences, Ohio State University, Columbus, Ohio 43210, USA
Nature 440:1186-9. 2006Mass coral bleaching events caused by elevated seawater temperatures have resulted in extensive coral mortality throughout the tropics over the past few decades...
- An Earth-system perspective of the global nitrogen cycleNicolas Gruber
Environmental Physics Group, Institute of Biogeochemistry and Pollutant Dynamics, ETH Zurich, Universitatstrasse 16, 8092 Zurich, Switzerland
Nature 451:293-6. 2008
- Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richnessPatrick D Schloss
Department of Plant Pathology, University of Wisconsin Madison, 1630 Linden Dr, Madison, WI 53706, USA
Appl Environ Microbiol 71:1501-6. 2005..We anticipate that an equivalent extent of sampling for soil would require sampling more than 10,000 sequences, almost 100 times the size of typical sequence collections obtained from soil...
- Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloomHanno Teeling
Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359 Bremen, Germany
Science 336:608-11. 2012..This reveals how planktonic species, despite their seemingly homogeneous habitat, can evade extinction by direct competition...
- Accelerating loss of seagrasses across the globe threatens coastal ecosystemsMichelle Waycott
School of Marine and Tropical Biology, James Cook University, Townsville, Queensland 4811, Australia
Proc Natl Acad Sci U S A 106:12377-81. 2009..9% yr(-1) before 1940 to 7% yr(-1) since 1990. Seagrass loss rates are comparable to those reported for mangroves, coral reefs, and tropical rainforests and place seagrass meadows among the most threatened ecosystems on earth...
- Microbial ecology of the dark ocean above, at, and below the seafloorBeth N Orcutt
Department of Biological Sciences, University of Southern California, 3616 Trousdale Blvd, Los Angeles, CA 90089, USA
Microbiol Mol Biol Rev 75:361-422. 2011..We also focus on patterns of microbial diversity in the dark ocean and on processes and communities that are characteristic of the different habitats...
- Marine viruses and their biogeochemical and ecological effectsJ A Fuhrman
Department of Biological Sciences, Wrigley Institute for Environmental Studies, University of Southern California, Los Angeles 90089 0371, USA
Nature 399:541-8. 1999..Newly developed fluorescence and molecular techniques leave the field poised to make significant advances towards evaluating and quantifying such effects...
- Archaeal nitrification in the oceanCornelia Wuchter
Department of Marine Biogeochemistry and Toxicology, Royal Netherlands Institute for Sea Research NIOZ, P O Box 59, 1790 AB, Den Burg, The Netherlands
Proc Natl Acad Sci U S A 103:12317-22. 2006..Our data thus suggest a major role for Archaea in oceanic nitrification...
- Impact of anthropogenic CO2 on the CaCO3 system in the oceansRichard A Feely
Pacific Marine Environmental Laboratory, National Oceanic and Atmospheric Administration, Seattle, WA 98115 6349, USA
Science 305:362-6. 2004..The total water column CaCO3 dissolution rate for the global oceans is approximately 0.5 +/- 0.2 petagrams of CaCO3-C per year, which is approximately 45 to 65% of the export production of CaCO3...
- Climate change and distribution shifts in marine fishesAllison L Perry
Centre for Ecology, Evolution and Conservation, School of Biological Sciences, University of East Anglia, Norwich NR4 7TJ, UK
Science 308:1912-5. 2005..Further temperature rises are likely to have profound impacts on commercial fisheries through continued shifts in distribution and alterations in community interactions...
- Microbial community structure of Arctic multiyear sea ice and surface seawater by 454 sequencing of the 16S RNA geneJeff S Bowman
University of Washington, School of Oceanography and Astrobiology Program, Seattle, WA, USA
ISME J 6:11-20. 2012..Members of Coraliomargarita, a recently described genus of the class Opitutae, were present in sufficient numbers to suggest niche occupation within MYI...
- Food supply and seawater pCO2 impact calcification and internal shell dissolution in the blue mussel Mytilus edulisFrank Melzner
Biological Oceanography, Leibniz Institute of Marine Sciences IFM GEOMAR, Kiel, Germany
PLoS ONE 6:e24223. 2011..While previous research efforts have mainly focused on external dissolution of shells in seawater under saturated with respect to calcium carbonate, the internal shell interface might be more vulnerable to ..
- Microbial ecology of expanding oxygen minimum zonesJody J Wright
Department of Microbiology and Immunology, University of British Columbia, Life Sciences Institute, 2552 2350 Health Sciences Mall, Vancouver, British Columbia V6T 1Z3, Canada
Nat Rev Microbiol 10:381-94. 2012....
- Detection of a diverse marine fish fauna using environmental DNA from seawater samplesPhilip Francis Thomsen
Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade, Copenhagen, Denmark
PLoS ONE 7:e41732. 2012..Here, we investigate the potential of using metabarcoding of environmental DNA (eDNA) obtained directly from seawater samples to account for marine fish biodiversity...
- The seasonal structure of microbial communities in the Western English ChannelJack A Gilbert
Plymouth Marine Laboratory, Prospect Place, Plymouth, PL1 3DH, UK
Environ Microbiol 11:3132-9. 2009..There is also evidence for seasonal succession, primarily reflecting changes among dominant taxa. These changes in structure were significantly correlated to a combination of temperature, phosphate and silicate concentrations...
- Niche partitioning among Prochlorococcus ecotypes along ocean-scale environmental gradientsZackary I Johnson
Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, 15 Vassar Street 48 419, Cambridge, MA 02139, USA
Science 311:1737-40. 2006..Light, nutrients, and competitor abundances also appeared to play a role in shaping different distributions...
- Metagenomic signatures of the Peru Margin subseafloor biosphere show a genetically distinct environmentJennifer F Biddle
Astrobiology Research Center, Pennsylvania State University, University Park, PA 16802, USA
Proc Natl Acad Sci U S A 105:10583-8. 2008..These findings show that the marine subsurface is a distinct microbial habitat and is different from environments studied by metagenomics, especially because of the predominance of uncultivated archaeal groups...
- Genetic diversity and connectivity of deep-sea hydrothermal vent metapopulationsRobert C Vrijenhoek
Monterey Bay Aquarium Research Institute, Moss Landing, CA 95039, USA
Mol Ecol 19:4391-411. 2010..Understanding the diversity and connectivity of vent metapopulations provides essential information for designing deep-sea preserves in regions that are under consideration for submarine mining of precious metals...
- Comparative metagenomic analysis of a microbial community residing at a depth of 4,000 meters at station ALOHA in the North Pacific subtropical gyreKonstantinos T Konstantinidis
Department of Civil and Environmental Engineering and Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
Appl Environ Microbiol 75:5345-55. 2009....
- Metagenome of a versatile chemolithoautotroph from expanding oceanic dead zonesDavid A Walsh
Department of Microbiology and Immunology, University of British Columbia, Vancouver, BC V6T 1Z4, Canada
Science 326:578-82. 2009..Our analysis provides a genomic foundation for understanding the ecological and biogeochemical role of pelagic SUP05 in oxygen-deficient oceanic waters and its potential sensitivity to environmental changes...
- Prochlorococcus, a marine photosynthetic prokaryote of global significanceF Partensky
Station Biologique, CNRS, INSU et Université Pierre et Marie Curie, F 29680 Roscoff
Microbiol Mol Biol Rev 63:106-27. 1999..The present review critically assesses the basic knowledge acquired about Prochlorococcus both in the ocean and in the laboratory...
- Functional metagenomic profiling of nine biomesElizabeth A Dinsdale
Department of Biology, San Diego State University, San Diego, California 92182, USA
Nature 452:629-32. 2008....
- Climate-driven trends in contemporary ocean productivityMichael J Behrenfeld
Department of Botany and Plant Pathology, Oregon State University, Corvallis, Oregon 97331, USA
Nature 444:752-5. 2006..The observed reductions in ocean productivity during the recent post-1999 warming period provide insight on how future climate change can alter marine food webs...
- Coral bleaching: thermal adaptation in reef coral symbiontsRob Rowan
University of Guam Marine Laboratory, Mangilao, Guam 96923, USA
Nature 430:742. 2004Many corals bleach as a result of increased seawater temperature, which causes them to lose their vital symbiotic algae (Symbiodinium spp...
- Single-cell genomics reveals organismal interactions in uncultivated marine protistsHwan Su Yoon
Bigelow Laboratory for Ocean Sciences, West Boothbay Harbor, ME 04575, USA
Science 332:714-7. 2011Whole-genome shotgun sequence data from three individual cells isolated from seawater, followed by analysis of ribosomal DNA, indicated that the cells represented three divergent clades of picobiliphytes...
- Reefs of the deep: the biology and geology of cold-water coral ecosystemsJ Murray Roberts
Scottish Association for Marine Science, Dunstaffnage Marine Laboratory, Oban, Argyll, PA37 1QA, UK
Science 312:543-7. 2006..Threats to these fragile, long-lived, and rich ecosystems are mounting: The impacts of deep-water trawling are already widespread, and effects of ocean acidification are potentially devastating...
- Multiple marker parallel tag environmental DNA sequencing reveals a highly complex eukaryotic community in marine anoxic waterThorsten Stoeck
Department of Ecology, University of Kaiserslautern, Germany
Mol Ecol 19:21-31. 2010....
- Tanshinone IIA ameliorates seawater exposure-induced lung injury by inhibiting aquaporins (AQP) 1 and AQP5 expression in lungJiahuan Li
Department of Respiration, Tangdu Hospital, Fourth Military Medical University, Xinsi Road, Xi an 710038, PR China
Respir Physiol Neurobiol 176:39-49. 2011..It is still unknown what role of AQPs plays in seawater drowning-induced acute lung injury (ALI) and whether pharmacologic modulation of AQPs could alleviate the ..
- Quantitative distribution of presumptive archaeal and bacterial nitrifiers in Monterey Bay and the North Pacific Subtropical GyreTracy J Mincer
Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, MA 02139, USA
Environ Microbiol 9:1162-75. 2007..Additionally, distributional patterns of planktonic Crenarchaea and Nitrospina species suggest potential metabolic interactions between these groups in the ocean's water column...
- Ecological effects of climate fluctuationsNils Chr Stenseth
Department of Biology, Division of Zoology, University of Oslo, Post Office Box 1050 Blindern, N 0316 Oslo, Norway
Science 297:1292-6. 2002..We review how two of the best-known climate phenomena-the North Atlantic Oscillation and the El Niño-Southern Oscillation-affect ecological patterns and processes in both marine and terrestrial systems...
- Declining coral calcification on the Great Barrier ReefGlenn De'ath
Australian Institute of Marine Science, Townsville, Queensland 4810, Australia
Science 323:116-9. 2009..The causes of the decline remain unknown; however, this study suggests that increasing temperature stress and a declining saturation state of seawater aragonite may be diminishing the ability of GBR corals to deposit calcium carbonate.
- Ocean acidification causes bleaching and productivity loss in coral reef buildersK R N Anthony
Centre for Marine Studies, The University of Queensland, St Lucia 4072 Queensland, Australia
Proc Natl Acad Sci U S A 105:17442-6. 2008..Our findings suggest that sensitive reef-building species such as CCA may be pushed beyond their thresholds for growth and survival within the next few decades whereas corals will show delayed and mixed responses...
- Coupling 16S-ITS rDNA clone libraries and automated ribosomal intergenic spacer analysis to show marine microbial diversity: development and application to a time seriesMark V Brown
Department of Biological Science and Wrigley Institute for Marine Studies, University of Southern California, 3616 Trousdale Parkway, AHF B4, Los Angeles, CA 90089, USA
Environ Microbiol 7:1466-79. 2005..16S-ITS data allowed high-resolution identification of organisms by ITS sequence analysis, and examination of microdiversity...
- Evolution and biogeography of deep-sea vent and seep invertebratesC L Van Dover
Biology Department, College of William and Mary, Williamsburg, VA 23187, USA
Science 295:1253-7. 2002..The recent evolution of many vent and seep invertebrate species (<100 million years ago) suggests that Cenozoic tectonic history and oceanic circulation patterns have been important in defining contemporary biogeographic patterns...
- Growth of Western Australian corals in the anthropoceneTimothy F Cooper
Australian Institute of Marine Science, University of Western Australia Oceans Institute, Crawley, Australia
Science 335:593-6. 2012....
- Molecular and biogeochemical evidence for ammonia oxidation by marine Crenarchaeota in the Gulf of CaliforniaJ Michael Beman
Department of Geological and Environmental Sciences, Stanford University, Stanford, CA, USA
ISME J 2:429-41. 2008..90, P<0.001), and with 16S rRNA gene copies from marine Crenarchaeota (r2=0.85, P<0.005). These findings represent compelling evidence for an archaeal role in oceanic nitrification...
- Hydrogen is an energy source for hydrothermal vent symbiosesJillian M Petersen
Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359 Bremen, Germany
Nature 476:176-80. 2011..We propose that the ability to use hydrogen as an energy source is widespread in hydrothermal vent symbioses, particularly at sites where hydrogen is abundant...
- The oceanic sink for anthropogenic CO2Christopher L Sabine
National Oceanic and Atmospheric Administration NOAA Pacific Marine Environmental Laboratory, 7600 Sand Point Way NE, Seattle, WA 98115, USA
Science 305:367-71. 2004..The current fraction of total anthropogenic CO2 emissions stored in the ocean appears to be about one-third of the long-term potential...
- Tracking hydrocarbon plume transport and biodegradation at Deepwater HorizonRichard Camilli
Applied Ocean Physics and Engineering Department, Woods Hole Oceanographic Institution, Woods Hole, MA 02543, USA
Science 330:201-4. 2010..Dissolved oxygen concentrations suggest that microbial respiration rates within the plume were not appreciably more than 1 micromolar oxygen per day...
- Annually reoccurring bacterial communities are predictable from ocean conditionsJed A Fuhrman
Department of Biological Sciences and Wrigley Institute for Environmental Studies, University of Southern California, 3616 Trousdale Parkway, Los Angeles, 90089, USA
Proc Natl Acad Sci U S A 103:13104-9. 2006....
- Pyrosequencing reveals highly diverse and species-specific microbial communities in sponges from the Red SeaOn On Lee
KAUST Global Partnership Program, Department of Biology, The Hong Kong University of Science and Technology, Clear Water Bay, Hong Kong
ISME J 5:650-64. 2011....
- Anaerobic ammonium oxidation by anammox bacteria in the Black SeaMarcel M M Kuypers
Max Planck Institute for Marine Microbiology, Department of Biogeochemistry, Celsiusstrasse 1, 28359 Bremen, Germany
Nature 422:608-11. 2003..The widespread occurrence of ammonium consumption in suboxic marine settings indicates that anammox might be important in the oceanic nitrogen cycle...
- Pyrosequencing reveals contrasting seasonal dynamics of taxa within Baltic Sea bacterioplankton communitiesAnders F Andersson
Limnology Department of Ecology and Evolution, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden
ISME J 4:171-81. 2010....
- Unraveling the genomic mosaic of a ubiquitous genus of marine cyanobacteriaAlexis Dufresne
Université Paris 6 and CNRS, UMR 7144, Station Biologique, 29682 Roscoff, France
Genome Biol 9:R90. 2008..Yet, the genetic basis of niche partitioning is still poorly understood in this ecologically important group...
- Microbial structuring of marine ecosystemsFarooq Azam
Scripps Institution of Oceanography, University of California, San Diego, La Jolla, California 92093, USA
Nat Rev Microbiol 5:782-91. 2007..This approach to microbial oceanography is not only helpful, but is in fact indispensable...
- Climate change affects marine fishes through the oxygen limitation of thermal toleranceHans O Portner
Alfred Wegener Institute for Polar and Marine Research, Animal Ecophysiology, Postfach 12 01 61, 27515 Bremerhaven, Germany
Science 315:95-7. 2007..Decrements in aerobic performance in warming seas will thus be the first process to cause extinction or relocation to cooler waters...
- SAR11 clade dominates ocean surface bacterioplankton communitiesRobert M Morris
Department of Microbiology, Oregon State University, Corvallis, Oregon 97331, USA
Nature 420:806-10. 2002The most abundant class of bacterial ribosomal RNA genes detected in seawater DNA by gene cloning belongs to SAR11-an alpha-proteobacterial clade...
- Reduced calcification of marine plankton in response to increased atmospheric CO2U Riebesell
Alfred Wegener Institute for Polar and Marine Research, Bremerhaven, Germany
Nature 407:364-7. 2000..As the process of calcification releases CO2 to the atmosphere, the response observed here could potentially act as a negative feedback on atmospheric CO2 levels...
- Matching phylogeny and metabolism in the uncultured marine bacteria, one cell at a timeRamunas Stepanauskas
Bigelow Laboratory for Ocean Sciences, P O Box 475, West Boothbay Harbor, ME 04575 0475, USA
Proc Natl Acad Sci U S A 104:9052-7. 2007..Compared with metagenomics, the power of our approach lies in the ability to detect metabolic genes in uncultured microorganisms directly, even when the metabolic and phylogenetic markers are located far apart on the chromosome...
- Coral reefs: corals' adaptive response to climate changeAndrew C Baker
Marine Program, Wildlife Conservation Society, Bronx, New York 10460, USA
Nature 430:741. 2004..This adaptive shift in symbiont communities indicates that these devastated reefs could be more resistant to future thermal stress, resulting in significantly longer extinction times for surviving corals than had been previously assumed...
- Live tissue imaging shows reef corals elevate pH under their calcifying tissue relative to seawaterAlexander Venn
Centre Scientifique de Monaco, Monaco, Principality of Monaco
PLoS ONE 6:e20013. 2011The threat posed to coral reefs by changes in seawater pH and carbonate chemistry (ocean acidification) raises the need for a better mechanistic understanding of physiological processes linked to coral calcification...
- Proteorhodopsin phototrophy promotes survival of marine bacteria during starvationLaura Gomez-Consarnau
Marine Microbiology, School of Natural Sciences, Linnaeus University, Kalmar, Sweden
PLoS Biol 8:e1000358. 2010..We demonstrate an increased long-term survival of AND4 when starved in seawater exposed to light rather than held in darkness...
- Microbial community transcriptomes reveal microbes and metabolic pathways associated with dissolved organic matter turnover in the seaJay McCarren
Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
Proc Natl Acad Sci U S A 107:16420-7. 2010..These findings suggest that coordinated, cooperative activities of a variety of bacterial "specialists" may be critical in the cycling of marine DOM, emphasizing the importance of microbial community dynamics in the global carbon cycle...
- A serpentinite-hosted ecosystem: the Lost City hydrothermal fieldDeborah S Kelley
School of Oceanography, University of Washington, Seattle, WA 98195, USA
Science 307:1428-34. 2005..Reactions between seawater and upper mantle peridotite produce methane- and hydrogen-rich fluids, with temperatures ranging from <40 ..
- A persistent oxygen anomaly reveals the fate of spilled methane in the deep Gulf of MexicoJohn D Kessler
Department of Oceanography, Texas A and M University, College Station, TX 77843 3146, USA
Science 331:312-5. 2011....
- Hydrothermal vents and the origin of lifeWilliam Martin
Institut für Botanik III, Heinrich Heine Universitat Dusseldorf, 40225 Dusseldorf, Germany
Nat Rev Microbiol 6:805-14. 2008..Hydrothermal vents thus unite microbiology and geology to breathe new life into research into one of biology's most important questions - what is the origin of life?..
- Relative abundance and diversity of ammonia-oxidizing archaea and bacteria in the San Francisco Bay estuaryAnnika C Mosier
Department of Environmental Earth System Science, Stanford University, Stanford, CA 94305, USA
Environ Microbiol 10:3002-16. 2008..Overall, this study significantly enhances our understanding of estuarine ammonia-oxidizing microbial communities and highlights the environmental conditions and niches under which different AOA and beta-AOB phylotypes may thrive...
- Recent changes in phytoplankton communities associated with rapid regional climate change along the western Antarctic PeninsulaMartin Montes-Hugo
Coastal Ocean Observation Lab, Institute of Marine and Coastal Sciences, School of Environmental and Biological Sciences, Rutgers University, New Brunswick, NJ 08901, USA
Science 323:1470-3. 2009..Regional changes in phytoplankton coincide with observed changes in krill (Euphausia superba) and penguin populations...
- The role of microorganisms in coral health, disease and evolutionEugene Rosenberg
Department of Molecular Microbiology, Tel Aviv University, Ramat Aviv, Israel 69978
Nat Rev Microbiol 5:355-62. 2007..Generalization of the coral probiotic hypothesis has led us to propose the hologenome theory of evolution...
- Ecology of the rare microbial biosphere of the Arctic OceanPierre E Galand
Department of Continental Ecology Limnology, Centre d Estudis Avançats de Blanes CSIC, Blanes, Spain
Proc Natl Acad Sci U S A 106:22427-32. 2009..We conclude that the rare biosphere has a biogeography and that its tremendous diversity is most likely subjected to ecological processes such as selection, speciation, and extinction...
- Metagenomic characterization of Chesapeake Bay virioplanktonShellie R Bench
College of Marine and Earth Studies, University of Delaware, Newark, Delaware 19711, USA
Appl Environ Microbiol 73:7629-41. 2007..Furthermore, the low frequency of psbD homologs in the library supports the prediction that Chesapeake Bay cyanophage populations are dominated by Podoviridae...
- Unique archaeal assemblages in the Arctic Ocean unveiled by massively parallel tag sequencingPierre E Galand
Limnology Unit, Department of Continental Ecology, Centre d Estudis Avançats de Blanes CSIC, Blanes, Spain
ISME J 3:860-9. 2009..Our results unveiled for the first time an archaeal community dominated by group III Euryarchaeota and show biogeographical traits for marine Arctic Archaea...
- Activity, abundance and diversity of nitrifying archaea and bacteria in the central California CurrentAlyson E Santoro
Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, MA 02543, USA
Environ Microbiol 12:1989-2006. 2010..Using an isotope mass balance model, we calculate that nitrification could produce between 0.45 and 2.93 micromol m(-2) day(-1) N(2)O in the central California Current, or approximately 1.5-4 times the local N(2)O flux from deep water...
- Distributions of microbial activities in deep subseafloor sedimentsSteven D'Hondt
Ocean Drilling Program Leg 201 Shipboard Scientific Party, NASA Astrobiology Institute, University of Rhode Island Graduate School of Oceanography, South Ferry Road, Narragansett, RI 02882, USA
Science 306:2216-21. 2004..In turn, these sedimentary communities may supply dissolved electron donors and nutrients to the underlying crustal biosphere...
- Phylogenetic relationships of Thiomicrospira species and their identification in deep-sea hydrothermal vent samples by denaturing gradient gel electrophoresis of 16S rDNA fragmentsG Muyzer
Molecular Ecology Unit, Max Planck Institute for Marine Microbiology, Fahrenheitstrasse 1, D 28359 Bremen, Germany
Arch Microbiol 164:165-72. 1995..The third 'phylotype' was identified as a Desulfovibrio, indicating that sulfate-reducing bacteria, as sources of sulfide, may complement sulfur- and sulfide-oxidizing bacteria ecologically in these sulfide-producing hydrothermal vents...
- Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transductionRobert M Morris
Center for Environmental Genomics, University of Washington, Seattle, WA, USA
ISME J 4:673-85. 2010..We also identified viral proteins in every sample and archaeal ammonia monooxygenase proteins in the upwelling region, suggesting that Archaea are important nitrifiers in nutrient-rich surface waters...
- Symbiotic diversity in marine animals: the art of harnessing chemosynthesisNicole Dubilier
Symbiosis Group, Max Planck Institute for Marine Microbiology, Celsiusstr 1, D 28359 Bremen, Germany
Nat Rev Microbiol 6:725-40. 2008..This Review focuses on the diversity of chemosynthetic symbionts and their hosts, and examines the traits that have resulted in their evolutionary success...
- Aquaporin expression dynamics in osmoregulatory tissues of Atlantic salmon during smoltification and seawater acclimationC K Tipsmark
Institute of Biology, University of Southern Denmark, Campusvej 55, DK 5230 Odense M, Denmark
J Exp Biol 213:368-79. 2010..Transfer from freshwater (FW) to seawater (SW) induced elevated levels of intestinal AQP-1a, -1b and -8b mRNA, whereas only AQP-8b was stimulated during ..
- Microbial communities in iron-silica-rich microbial mats at deep-sea hydrothermal fields of the Southern Mariana TroughShingo Kato
Department of Molecular Biology, Tokyo University of Pharmacy and Life Science, Hachioji, Tokyo 192 0392, Japan
Environ Microbiol 11:2094-111. 2009..Our results provide insights into the diversity and abundance of microbial communities within microbial mats in deep-sea hydrothermal fields...
- Prokaryotic genomes and diversity in surface ocean waters: interrogating the global ocean sampling metagenomeErin J Biers
Department of Marine Sciences, University of Georgia, Athens, Georgia 30602, USA
Appl Environ Microbiol 75:2221-9. 2009..8 copies of the 16S rRNA gene, suggesting that these bacteria have relatively streamlined genomes in comparison to those of cultured bacteria and bacteria from other habitats (e.g., soil or acid mine drainage)...
- Transport functions dominate the SAR11 metaproteome at low-nutrient extremes in the Sargasso SeaSarah M Sowell
Molecular and Cellular Biology Program, Oregon State University, Corvallis, OR 97331, USA
ISME J 3:93-105. 2009..Our findings support the view that competition for multiple nutrients in oligotrophic systems is extreme, but nutrient flux is sufficient to sustain microbial community activity...
- Comparative analysis of methane-oxidizing archaea and sulfate-reducing bacteria in anoxic marine sedimentsV J Orphan
Monterey Bay Aquarium Research Institute, 7700 Sandholdt Rd, P O Box 628, Moss Landing, California 95039
Appl Environ Microbiol 67:1922-34. 2001....
- Prokaryotic biodiversity and activity in the deep subseafloor biosphereJohn C Fry
Cardiff School of Biosciences, Cardiff University, Cardiff, UK
FEMS Microbiol Ecol 66:181-96. 2008..Although, heterotrophy is limited by the increasing recalcitrance of organic matter with depth, this may be counteracted by thermal activation of buried organic matter providing additional substrates at depth...
- Nonheme Diiron Centers and the Biological Oxidation of HydrocarbonsStephen J Lippard; Fiscal Year: 2013..Because of their ability to degrade hydrocarbons, BMMs have been applied for the bioremediation of contaminated seawater, polluted soil environments, and impure drinking water...
- Identifying cellular and molecular interactions along the pathway to symbiosisElizabeth A Vallen; Fiscal Year: 2012..The algae are phagocytosed from seawater and appear to evade the host immune response and alter subcellular trafficking to allow their intracellular ..
- EFFECTS OF INHALED FLORIDA RED TIDE BREVETOXINSDaniel G Baden; Fiscal Year: 2011..development;;Facility Core 2 "Field Logistics &Deployment" optimizes environmental monitoring of organism and seawater, deploys air samplers and meterologic gear, and provides logistics for Research Project 4...
- Genetic basis of salt tolerance in Anopheles gambiae s.l.Nora J Besansky; Fiscal Year: 2013..merus can be distinguished from An. gambiae and their F1 hybrids by survival in 50% seawater. We will apply a novel Illumina-based genotyping approach to map recombination breakpoints in individual ..
- Impact of climate on dinoflagellates and ciguatera fish poisoningJOHN GLENN MORRIS; Fiscal Year: 2011..health and economic impact, with recent studies from French Polynesia linking ciguatera incidence with increasing seawater temperatures: as such, ciguatera may serve as a key "sentinel" disease for global warming...
- MECHANISMS OF BONE GROWTH IN FISH HYPEROSTOSISLeslie Kaufman; Fiscal Year: 1992..Aim 4: To test the hypothesis that fishes with FH bone will respond to seawater dilution by drawing upon mineral reserves at hyperostotic loci, while fishes without FH bone will lack this ..
- CHARACTERIZATION OF SEXUAL PHEROMONES IN APLYSIASHERRY PAINTER; Fiscal Year: 1993..will be purified from acidic extracts of the atrial gland, an exocrine organ secreting into the oviduct, and from seawater eluates of recently deposited egg cordons; pheromonal activity will be assessed in T-maze and mating experiments...
- Investigating the role of calcium in bacteriaJODI ENOS BERLAGE; Fiscal Year: 2002..This organism occupies environments that differ substantially in calcium content, for example, seawater compared to the human gastrointestinal tract...
- CAUDAL NEUROPEPTIDES--NVIRONMENTAL REGULATIONDavid Pearson; Fiscal Year: 1990..evidence suggests that several known neurosecretory peptides of the CNC are induced by environmental change from seawater to fresh water as well as at least one previously unknown product...
- INVESTIGATION OF THE BLOCK TO POLYSPERMY IN A. CERATODESCHRISTINA GOODE; Fiscal Year: 2001..or ionophore-induced activation, ascidian eggs release N-acetylglucosaminidase activity in the surrounding seawater which prevent polyspermy...
- MOLECULAR MECHANISMS OF ADAPTATION TO OSMOTIC STRESSMerna Villarejo; Fiscal Year: 1993..the ability to adapt is relevant to the bacterium's survival in the human bladder and colon, sewage systems, and seawater. Adaptive alterations in cellular metabolism and structure are mediated by the products of certain osmotically ..
- ANIMAL FACILITY IMPROVEMENT FOR SMALL RESEARCH PROGRAMSDavid Bodznick; Fiscal Year: 1993..Finally, funds are requested here for purchase of 2 large seawater aquaria to provide' adequate space for maintaining small elasmobranch fishes in healthy condition.
- USE OF CHEMICAL ECOLOGY TO PRODUCE ECTEINASCIDINSJanice Thompson; Fiscal Year: 1992..Replicate colonies will be maintained in flow-through seawater aquaria for 8 weeks under different treatment regimes...
- A NEW MODEL SYSTEM TO STUDY CHLORIDE TRANSPORTKARL KARNAKY; Fiscal Year: 1980..zonulae occludentes) for transepithelial ion permeation; (b) the controversial mechanism of sodium transport in seawater teleosts; (c) the role of Na, K-ATPase in chloride secretion; and (d) the roles of selected hormones in the ..
- MARICULTURE OF APLYSIAEric Kandel; Fiscal Year: 1980..Specifically we plan to develop xenic techniques for carrying large numbers of larvae through metamorphosis and into reproductive maturity and to explore well-defined artificial seawater media and substitute these for natural seawater.
- Identification of GCK-3 signaling pathways in C. elegansKEITH CHOE; Fiscal Year: 2008..I will use a combination of molecular biology, forward and reverse genetic analyses, and patch clamp electrophysiology to identify GCK-3 signaling components. ..
- Portable Analyzer for On-site Monitoring of Worker Exposure to Toxic MetalsCharles Timchalk; Fiscal Year: 2007..Ultimately, the sensor for metal ions will be combined with the sensor for creatinine so that the exposure monitoring can be performed with "spot" urine instead of 24-hr urine. [unreadable] [unreadable] [unreadable]..
- Septate junctional proteins: Proteomic identification and role in diuresisKLAUS BEYENBACH; Fiscal Year: 2008..unreadable] [unreadable] [unreadable]..
- MOLECULAR ANALYSIS OF STAPHYLOCOCCAL EXFOLIATIVE TOXIN ALISA PLANO; Fiscal Year: 2007..We further propose to develop an animal model of staphylococcal impetigo to address the role of the exfoliative toxins in pathogenesis of these bacteria. ..
- CYTOMIMETIC ORGANIC CHEMISTRYFREDRIC MENGER; Fiscal Year: 2007....
- The evolution of parasitism in rhizobial bacteriaJOEL SACHS; Fiscal Year: 2007..unreadable] [unreadable] [unreadable]..
- Evaluation of urinary 1-nitropyrene metabolities as a biomarker for exposure to dChristopher Simpson; Fiscal Year: 2007..unreadable] [unreadable] [unreadable] [unreadable]..
- Metal Transfer Reactions between Stable Isotopically Doped Zn ProteinsAndrew Mason; Fiscal Year: 2007..unreadable] [unreadable] [unreadable]..
- MICROBIAL METABOLISM OF REDUCED PHOSPHORUS COMPOUNDSWILLIAM METCALF; Fiscal Year: 2008..unreadable] [unreadable]..
- Motor Systems Supporting Pavlovian ConditioningTerry Crow; Fiscal Year: 2008..These studies will help to elucidate general principles underlying the organization of polysensory neural systems generating behavior and their modification by learning. ..
- Development and validation of a woodsmoke biomarker in urineChristopher Simpson; Fiscal Year: 2008..unreadable] [unreadable] [unreadable]..
- Hemodynamic forces regulate BMPs in coronary arteriesZoltan Ungvari; Fiscal Year: 2009..abstract_text> ..
- Metagenomic analysis of the human viromeEric L Delwart; Fiscal Year: 2010..This metagenomic survey of non-human nucleic acids in humans will therefore begin the task of determining the full range of viral diversity in humans. ..
- Indicators of Recreational Water Contamination and IllnessJohn M Colford; Fiscal Year: 2010..Decisions about beach closures have enormous economic implications. If successful, we will quantify the relationship between health and novel rapid methods for traditional indicators as well as viral indicators. ..
- Molecular Evolution of Eukaryotes: a protistan emphasisMitchell Sogin; Fiscal Year: 2008..unreadable] [unreadable]..
- Solar Water Disinfection: Randomized Intervention TrialJOHN COLFORD; Fiscal Year: 2006..It is run jointly with the Bolivian partners at the Universidad Mayor de San Simon and the Fondazion SODIS that coordinates the Bolivian SODIS program. ..
- MODES OF OPERATION OF THE SODIUM PUMPPaul De Weer; Fiscal Year: 2004....
- Neural Crest:New Perspectives on Lineage/MorphogenesisCharles Kimmel; Fiscal Year: 2003..There will be poster sessions and we expect the total size of the meeting to be about 150. ..
- US-Japan Seminar on Marine Bioorganic ChemistryWILLIAM GERWICK; Fiscal Year: 2003..S. plus 15 participants and 4 observers from Japan together so they can engage in both formal and informal discussions on frontier issues in marine bioorganic and natural products chemistry. ..
- Biological Monitoring of Woodsmoke exposureChristopher Simpson; Fiscal Year: 2003..This proposed study addresses NORA research priorities related to asthma and COPD, exposure assessment methods and control technology/personal protective equipment. ..
- Target Proteins for Linkages in Membranes of Hair CellsGLEN WATSON; Fiscal Year: 2003..This information will likely lead to a better understanding of the molecular basis of certain forms of deafness and balance disorders. ..
- Identifying and Characterizing Histamine TransportersANN STUART; Fiscal Year: 2003..Successful cloning of a mammalian homologue would open the door to localizing this transporter within regions and cell types of the brain and determining whether it is present in other histamine-containing cells of the body. ..
- PHYSIOLOGY OF THE DEVELOPING OLFACTORY EPITHELIUMWILLIAM MICHEL; Fiscal Year: 2002....
- DEVELOPMENT OF CHARACTERIZED NEURONSCharles Kimmel; Fiscal Year: 2002..Transplantation of single identified postmitotic young neurons in the early brain segments will be used to examine the molecular-genetic nature of cellular commitment to segmental identity. ..
- Neurotoxins from Marine Algae and CyanobacteriaWILLIAM GERWICK; Fiscal Year: 2004..Through established collaborations with various industrial partners, and the NOVASCREEN(R) program, development of these neurotoxins as potential therapeutics will occur as appropriate. ..
- RANDOMIZED TRIAL OF TAPWATER TREATMENT IN THE ELDERLYJOHN COLFORD; Fiscal Year: 2004....
- RECEPTER BINDING PROPERTIES OF CANNABINOID METABOLITESGuangdi Wang; Fiscal Year: 2005....
- HUMAN FETAL LIVER GST--HYDROXYNONENAL CONJUGATIONEvan Gallagher; Fiscal Year: 2002..In addition, this project has important implications in terms of the in utero effects of pro-oxidant drugs or chemicals to which pregnant women are exposed. ..
- Genetic Control of Tubulin Function in DevelopmentELIZABETH RAFF; Fiscal Year: 2005..The primary aim is to determine how transient expression of beta3-tubulin during development modulates the microtubule cytoskeleton in the differentiated cell. ..
- Toxiology of Particulate Cr(VI)in Human Lung CellsJohn Wise; Fiscal Year: 2005..abstract_text> ..
- Discovery Craniofacial and Retinal GenesCharles Kimmel; Fiscal Year: 2005..Various favorable attributes of the zebrafish embryo and larva will permit detailed phenotypic studies and rapid characterization of the functions of the genes in facial bone and eye development. ..
- PRESERVATION OF GENETIC LINES IN A NON MAMMALIAN SYSTEMMary Hagedorn; Fiscal Year: 2005..Most importantly, these somatic changes will not affect the germ line, so they are ideal for genomic banking to maintain important genetic stocks for biomedical and endangered fish research. ..
- CONFERENCE ON THE MODULATION OF CHEMOSENSORY SIGNALINGWILLIAM MICHEL; Fiscal Year: 2004..By not restricting the scope of the conference to a single chemosensory modality or model system we hope to foster collaborative interactions among investigators in the field. ..
- Exploring microbial diversity for novel natural productsJULIE OLSON; Fiscal Year: 2004....