Tara Oceans: towards global ocean ecosystems biology
暂无分享,去创建一个
G. Cochrane | P. Bork | S. Sunagawa | J. Raes | E. Boss | O. Jaillon | P. Wincker | H. Ogata | P. Hingamp | M. Follows | S. Speich | S. Acinas | N. Grimsley | G. Gorsky | L. Stemmann | S. Pesant | M. Sieracki | L. Guidi | C. Bowler | D. Iudicone | F. Not | E. Karsenti | C. de Vargas | N. Poulton | D. Eveillard | C. Sardet | S. Kandels | F. Lombard | M. Babin | M. Lescot | Matthew B. Sullivan | L. Karp‐Boss | Chris Bowler | Chris Bowler | Silvia G. Marcel Peer Emmanuel Chris Guy Colomban Michael Acinas Babin Bork Boss Bowler Cochrane de | Gabriel Gorsky | Peer Bork | Hiroyuki Ogata | Shinichi Sunagawa
[1] P. Buttigieg,et al. Atlantic Ocean Research Alliance - Marine Microbiome Roadmap , 2020 .
[2] V. Marx. When microbiologists plunge into the ocean , 2020, Nature Methods.
[3] C. Bowler,et al. Phytoplankton in the Tara Ocean. , 2020, Annual review of marine science.
[4] B. Andreopoulos,et al. Phage-specific metabolic reprogramming of virocells , 2020, The ISME Journal.
[5] S. Sunagawa,et al. Expanding Tara Oceans Protocols for Underway, Ecosystemic Sampling of the Ocean-Atmosphere Interface During Tara Pacific Expedition (2016–2018) , 2019, Front. Mar. Sci..
[6] C. Pedrós-Alió,et al. Ecological and functional capabilities of an uncultured Kordia sp. , 2019, Systematic and applied microbiology.
[7] Luis Pedro Coelho,et al. Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome , 2019, Cell.
[8] Luis Pedro Coelho,et al. Global Trends in Marine Plankton Diversity across Kingdoms of Life , 2019, Cell.
[9] T. Heger,et al. Assessing the Diversity and Distribution of Apicomplexans in Host and Free-Living Environments Using High-Throughput Amplicon Data and a Phylogenetically Informed Reference Framework , 2019, Front. Microbiol..
[10] S. Doney,et al. Observational Needs Supporting Marine Ecosystems Modeling and Forecasting: From the Global Ocean to Regional and Coastal Systems , 2019, Front. Mar. Sci..
[11] S. Sunagawa,et al. The Tara Pacific expedition—A pan-ecosystemic approach of the “-omics” complexity of coral reef holobionts across the Pacific Ocean , 2019, PLoS Biology.
[12] H. Ogata,et al. The Earth Is Small for “Leviathans”: Long Distance Dispersal of Giant Viruses across Aquatic Environments , 2019, Microbes and environments.
[13] Canh Hao Nguyen,et al. Viruses of the eukaryotic plankton are predicted to increase carbon export efficiency in the global sunlit ocean , 2019 .
[14] E. Pelletier,et al. Meta-Omics Reveals Genetic Flexibility of Diatom Nitrogen Transporters in Response to Environmental Changes , 2019, Molecular biology and evolution.
[15] Y. Inagaki,et al. Single-cell genomics unveiled a cryptic cyanobacterial lineage with a worldwide distribution hidden by a dinoflagellate host , 2019, Proceedings of the National Academy of Sciences.
[16] J. Huisman,et al. Scientists’ warning to humanity: microorganisms and climate change , 2019, Nature Reviews Microbiology.
[17] Evelien M. Adriaenssens,et al. Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks , 2019, Nature Biotechnology.
[18] G. Cochrane,et al. Marine DNA Viral Macro- and Microdiversity from Pole to Pole , 2019, Cell.
[19] L. Artigas,et al. Globally Consistent Quantitative Observations of Planktonic Ecosystems , 2019, Front. Mar. Sci..
[20] Matthew B. Sullivan,et al. Long-read viral metagenomics captures abundant and microdiverse viral populations and their niche-defining genomic islands , 2019 .
[21] O. Jaillon,et al. Single cell genomics yields a wide diversity of small planktonic protists across major ocean ecosystems , 2019, Scientific Reports.
[22] Peter Hegemann,et al. MerMAIDs: a family of metagenomically discovered marine anion-conducting and intensely desensitizing channelrhodopsins , 2019, Nature Communications.
[23] Luis Pedro Coelho,et al. Microbial abundance, activity and population genomic profiling with mOTUs2 , 2019, Nature Communications.
[24] Luis Pedro Coelho,et al. Community‐Level Responses to Iron Availability in Open Ocean Plankton Ecosystems , 2019, Global Biogeochemical Cycles.
[25] O. Jaillon,et al. Discovering millions of plankton genomic markers from the Atlantic Ocean and the Mediterranean Sea , 2019, Molecular ecology resources.
[26] Victoria J. Coles,et al. Modelling the complexity of plankton communities exploiting omics potential: From present challenges to an integrative pipeline , 2019, Current Opinion in Systems Biology.
[27] Natalia N. Ivanova,et al. Minimum Information about an Uncultivated Virus Genome (MIUViG) , 2018, Nature Biotechnology.
[28] Francisco M. Cornejo-Castillo,et al. UCYN‐A3, a newly characterized open ocean sublineage of the symbiotic N2‐fixing cyanobacterium Candidatus Atelocyanobacterium thalassa , 2018, Environmental microbiology.
[29] P. Wincker,et al. Worldwide Occurrence and Activity of the Reef-Building Coral Symbiont Symbiodinium in the Open Ocean , 2018, Current Biology.
[30] T. Hackl,et al. Marine microbial metagenomes sampled across space and time , 2018, Scientific Data.
[31] H. Ogata,et al. Degenerate PCR Primers to Reveal the Diversity of Giant Viruses in Coastal Waters , 2018, Viruses.
[32] Mark V Brown,et al. Oceanographic boundaries constrain microbial diversity gradients in the South Pacific Ocean , 2018, Proceedings of the National Academy of Sciences.
[33] Tom O. Delmont,et al. Nitrogen-fixing populations of Planctomycetes and Proteobacteria are abundant in surface ocean metagenomes , 2018, Nature Microbiology.
[34] Itai Sharon,et al. A distinct abundant group of microbial rhodopsins discovered using functional metagenomics , 2018, Nature.
[35] Pier Luigi Buttigieg,et al. Marine microbes in 4D-using time series observation to assess the dynamics of the ocean microbiome and its links to ocean health. , 2018, Current opinion in microbiology.
[36] H. Ogata,et al. Taxon Richness of “Megaviridae” Exceeds those of Bacteria and Archaea in the Ocean , 2018, Microbes and environments.
[37] R. Milo,et al. The biomass distribution on Earth , 2018, Proceedings of the National Academy of Sciences.
[38] Lionel Guy,et al. Deep mitochondrial origin outside the sampled alphaproteobacteria , 2018, Nature.
[39] G. Beaugrand,et al. Marine biodiversity and the chessboard of life , 2018, PloS one.
[40] Christopher M. Brown,et al. Coccolithovirus facilitation of carbon export in the North Atlantic , 2018, Nature Microbiology.
[41] B. Quéguiner,et al. Nanoplanktonic diatoms are globally overlooked but play a role in spring blooms and carbon export , 2018, Nature Communications.
[42] Gregory K. Farrant,et al. Light color acclimation is a key process in the global ocean distribution of Synechococcus cyanobacteria , 2018, Proceedings of the National Academy of Sciences.
[43] H. Ogata,et al. Locality and diel cycling of viral production revealed by a 24 h time course cross-omics analysis in a coastal region of Japan , 2018, The ISME Journal.
[44] P. Bork,et al. A global ocean atlas of eukaryotic genes , 2018, Nature Communications.
[45] P. Bork,et al. Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans , 2018, Nature Communications.
[46] Eric J Alm,et al. High resolution time series reveals cohesive but short-lived communities in coastal plankton , 2018, Nature Communications.
[47] C. Bowler,et al. The epibiotic life of the cosmopolitan diatom Fragilariopsis doliolus on heterotrophic ciliates in the open ocean , 2018, The ISME Journal.
[48] Luis Pedro Coelho,et al. Quantitative 3D-imaging for cell biology and ecology of environmental microbial eukaryotes , 2017, eLife.
[49] Donovan H. Parks,et al. Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life , 2017, Nature Microbiology.
[50] J. Poulain,et al. New insights into global biogeography, population structure and natural selection from the genome of the epipelagic copepod Oithona , 2017, Molecular ecology.
[51] Francisco M. Cornejo-Castillo,et al. A myovirus encoding both photosystem I and II proteins enhances cyclic electron flow in infected Prochlorococcus cells , 2017, Nature Microbiology.
[52] Takashi Yoshida,et al. ViPTree: the viral proteomic tree server , 2017, Bioinform..
[53] Francisco M. Cornejo-Castillo,et al. Exploring Microdiversity in Novel Kordia sp. (Bacteroidetes) with Proteorhodopsin from the Tropical Indian Ocean via Single Amplified Genomes , 2017, Front. Microbiol..
[54] J. Heidelberg,et al. The Reconstruction of 2,631 Draft Metagenome-Assembled Genomes from the Global Oceans , 2017, bioRxiv.
[55] A. Wichels,et al. Comparative Omics and Trait Analyses of Marine Pseudoalteromonas Phages Advance the Phage OTU Concept , 2017, Front. Microbiol..
[56] J. Antón,et al. Single-virus genomics reveals hidden cosmopolitan and abundant viruses , 2017, Nature Communications.
[57] Matthew B. Sullivan,et al. vConTACT: an iVirus tool to classify double-stranded DNA viruses that infect Archaea and Bacteria , 2017, PeerJ.
[58] J. Poulain,et al. Biogeography and diversity of Collodaria (Radiolaria) in the global ocean , 2017, The ISME Journal.
[59] Paul J. McMurdie,et al. Exact sequence variants should replace operational taxonomic units in marker-gene data analysis , 2017, The ISME Journal.
[60] Susumu Goto,et al. Environmental Viral Genomes Shed New Light on Virus-Host Interactions in the Ocean , 2017, mSphere.
[61] D. Steinberg,et al. Zooplankton and the Ocean Carbon Cycle. , 2017, Annual review of marine science.
[62] Andrew J. Davison,et al. Consensus statement: Virus taxonomy in the age of metagenomics , 2017, Nature Reviews Microbiology.
[63] Niklaus J. Grünwald,et al. Metacoder: An R package for visualization and manipulation of community taxonomic diversity data , 2016, bioRxiv.
[64] E. Pelletier,et al. Survey of the green picoalga Bathycoccus genomes in the global ocean , 2016, Scientific Reports.
[65] P. Wincker,et al. Extreme Diversity of Diplonemid Eukaryotes in the Ocean , 2016, Current Biology.
[66] P. Keeling,et al. Morphological Identification and Single-Cell Genomics of Marine Diplonemids , 2016, Current Biology.
[67] D. Vaulot,et al. Diversity and oceanic distribution of prasinophytes clade VII, the dominant group of green algae in oceanic waters , 2016, The ISME Journal.
[68] Peer Bork,et al. Ecogenomics and potential biogeochemical impacts of globally abundant ocean viruses , 2016, Nature.
[69] M. Doebeli,et al. Decoupling function and taxonomy in the global ocean microbiome , 2016, Science.
[70] R. Korn,et al. The Tara Oceans voyage reveals global diversity and distribution patterns of marine planktonic ciliates , 2016, Scientific Reports.
[71] Francisco M. Cornejo-Castillo,et al. Delineating ecologically significant taxonomic units from global patterns of marine picocyanobacteria , 2016, Proceedings of the National Academy of Sciences.
[72] K. Holmfeldt,et al. Regulation of infection efficiency in a globally abundant marine Bacteriodetes virus , 2016, The ISME Journal.
[73] Ken Youens-Clark,et al. iVirus: facilitating new insights in viral ecology with software and community data sets imbedded in a cyberinfrastructure , 2016, The ISME Journal.
[74] P. Bork,et al. Global genetic capacity for mixotrophy in marine picocyanobacteria , 2016, The ISME Journal.
[75] N. Mayot,et al. In situ imaging reveals the biomass of giant protists in the global ocean , 2016, Nature.
[76] Francisco M. Cornejo-Castillo,et al. Cyanobacterial symbionts diverged in the late Cretaceous towards lineage-specific nitrogen fixation factories in single-celled phytoplankton , 2016, Nature Communications.
[77] Susumu Goto,et al. Linking Virus Genomes with Host Taxonomy , 2016, Viruses.
[78] Stéphane Audic,et al. Insights into global diatom distribution and diversity in the world’s ocean , 2016, Proceedings of the National Academy of Sciences.
[79] J. Poulain,et al. Global patterns of pelagic dinoflagellate diversity across protist size classes unveiled by metabarcoding. , 2016, Environmental microbiology.
[80] Luis Pedro Coelho,et al. Plankton networks driving carbon export in the oligotrophic ocean , 2015, Nature.
[81] D. Richter,et al. The symbiotic life of Symbiodinium in the open ocean within a new species of calcifying ciliate (Tiarina sp.) , 2015, The ISME Journal.
[82] J. Poulain,et al. Deep sequencing of amplified Prasinovirus and host green algal genes from an Indian Ocean transect reveals interacting trophic dependencies and new genotypes. , 2015, Environmental microbiology reports.
[83] J. Claverie,et al. Reverse transcriptase genes are highly abundant and transcriptionally active in marine plankton assemblages , 2015, The ISME Journal.
[84] Stéphane Audic,et al. PhytoREF: a reference database of the plastidial 16S rRNA gene of photosynthetic eukaryotes with curated taxonomy , 2015, Molecular ecology resources.
[85] Francisco M. Cornejo-Castillo,et al. Global distribution and vertical patterns of a prymnesiophyte–cyanobacteria obligate symbiosis , 2015, The ISME Journal.
[86] G. Reygondeau,et al. A new look at ocean carbon remineralization for estimating deepwater sequestration , 2015 .
[87] Rachelle M. Jensen,et al. The ocean sampling day consortium , 2015, GigaScience.
[88] Sophie Clayton,et al. Light-driven synchrony of Prochlorococcus growth and mortality in the subtropical Pacific gyre , 2015, Proceedings of the National Academy of Sciences.
[89] Luis Pedro Coelho,et al. Structure and function of the global ocean microbiome , 2015, Science.
[90] P. Bork,et al. Eukaryotic plankton diversity in the sunlit ocean , 2015, Science.
[91] Peer Bork,et al. Environmental characteristics of Agulhas rings affect interocean plankton transport , 2015, Science.
[92] Peer Bork,et al. Determinants of community structure in the global plankton interactome , 2015, Science.
[93] P. Bork,et al. Patterns and ecological drivers of ocean viral communities , 2015, Science.
[94] P. Bork,et al. Tara Oceans studies plankton at planetary scale , 2015, Science.
[95] Renzo Kottmann,et al. Marine microbial biodiversity, bioinformatics and biotechnology (M2B3) data reporting and service standards , 2015, Standards in genomic sciences.
[96] Peer Bork,et al. Computational eco-systems biology in Tara Oceans: translating data into knowledge , 2015, Molecular systems biology.
[97] Peer Bork,et al. Open science resources for the discovery and analysis of Tara Oceans data , 2015, Scientific Data.
[98] L. Legendre,et al. Comprehensive Model of Annual Plankton Succession Based on the Whole-Plankton Time Series Approach , 2015, PloS one.
[99] Matthew B. Sullivan,et al. Rising to the challenge: accelerated pace of discovery transforms marine virology , 2015, Nature Reviews Microbiology.
[100] C. Duarte,et al. Seafaring in the 21St Century: The Malaspina 2010 Circumnavigation Expedition , 2015 .
[101] J. Claverie,et al. Life-cycle modification in open oceans accounts for genome variability in a cosmopolitan phytoplankton , 2014, The ISME Journal.
[102] N. Pech,et al. Evolutionary history of Chaetognatha inferred from molecular and morphological data: a case study for body plan simplification , 2014, Frontiers in Zoology.
[103] H. Ogata,et al. Prasinovirus distribution in the Northwest Mediterranean Sea is affected by the environment and particularly by phosphate availability. , 2014, Virology.
[104] J. Fuhrman,et al. Seasonal and interannual variability of the marine bacterioplankton community throughout the water column over ten years , 2014, The ISME Journal.
[105] Francisco M. Cornejo-Castillo,et al. Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities. , 2014, Environmental microbiology.
[106] X. D. D. Madron,et al. Particle size distribution and estimated carbon flux across the Arabian Sea oxygen minimum zone , 2014 .
[107] D. Karl,et al. Microbial oceanography and the Hawaii Ocean Time-series programme , 2014, Nature Reviews Microbiology.
[108] Bonnie L Hurwitz,et al. Depth-stratified functional and taxonomic niche specialization in the ‘core’ and ‘flexible’ Pacific Ocean Virome , 2014, The ISME Journal.
[109] Jens Roat Kultima,et al. An integrated catalog of reference genes in the human gut microbiome , 2014, Nature Biotechnology.
[110] F. Not,et al. Brandtodinium gen. nov. and B. nutricula comb. Nov. (Dinophyceae), a dinoflagellate commonly found in symbiosis with polycystine radiolarians , 2014, Journal of phycology.
[111] J. Poulain,et al. Unveiling of the Diversity of Prasinoviruses (Phycodnaviridae) in Marine Samples by Using High-Throughput Sequencing Analyses of PCR-Amplified DNA Polymerase and Major Capsid Protein Genes , 2014, Applied and Environmental Microbiology.
[112] N. Pech,et al. Correction: Phylogenetic Analysis of Thecosomata Blainville, 1824 (Holoplanktonic Opisthobranchia) Using Morphological and Molecular Data , 2013, PLoS ONE.
[113] S. Hallam,et al. Metabolic reprogramming by viruses in the sunlit and dark ocean , 2013, Genome Biology.
[114] N. Pech,et al. Phylogenetic Analysis of Thecosomata Blainville, 1824 (Holoplanktonic Opisthobranchia) Using Morphological and Molecular Data , 2013, PloS one.
[115] Jean-Michel Claverie,et al. Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes , 2013, The ISME Journal.
[116] Stéphane Audic,et al. The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy , 2012, Nucleic Acids Res..
[117] G. Steward,et al. Are we missing half of the viruses in the ocean? , 2012, The ISME Journal.
[118] Peer Bork,et al. MOCAT: A Metagenomics Assembly and Gene Prediction Toolkit , 2012, PloS one.
[119] Richard Sanders,et al. Global patterns in efficiency of particulate organic carbon export and transfer to the deep ocean , 2012 .
[120] P. Bork,et al. A Holistic Approach to Marine Eco-Systems Biology , 2011, PLoS biology.
[121] Susan M. Huse,et al. The Taxonomic and Functional Diversity of Microbes at a Temperate Coastal Site: A ‘Multi-Omic’ Study of Seasonal and Diel Temporal Variation , 2010, PloS one.
[122] L. Artigas,et al. A global census of marine microbes , 2010 .
[123] M. Clokie,et al. Light-dependent adsorption of photosynthetic cyanophages to Synechococcus sp. WH7803. , 2010, FEMS microbiology letters.
[124] P. Bork,et al. A human gut microbial gene catalogue established by metagenomic sequencing , 2010, Nature.
[125] Jorge L. Sarmiento,et al. The impact of remineralization depth on the air–sea carbon balance , 2009 .
[126] Alexander M Shneider. Four stages of a scientific discipline; four types of scientist. , 2009, Trends in biochemical sciences.
[127] D. Rabosky,et al. Diversity dynamics of marine planktonic diatoms across the Cenozoic , 2009, Nature.
[128] P. Bork,et al. Molecular eco-systems biology: towards an understanding of community function , 2008, Nature Reviews Microbiology.
[129] James H Brown,et al. A latitudinal diversity gradient in planktonic marine bacteria , 2008, Proceedings of the National Academy of Sciences.
[130] C. Suttle. Marine viruses — major players in the global ecosystem , 2007, Nature Reviews Microbiology.
[131] Benjamin J. Raphael,et al. The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families , 2007, PLoS biology.
[132] A. Halpern,et al. The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific , 2007, PLoS biology.
[133] Amos Maritan,et al. Dynamical evolution of ecosystems , 2006, Nature.
[134] I. Hewson,et al. Annually reoccurring bacterial communities are predictable from ocean conditions , 2006, Proceedings of the National Academy of Sciences.
[135] Luke R. Thompson,et al. Prevalence and Evolution of Core Photosystem II Genes in Marine Cyanobacterial Viruses and Their Hosts , 2006, PLoS biology.
[136] E. Delong,et al. Community Genomics Among Stratified Microbial Assemblages in the Ocean's Interior , 2006, Science.
[137] S. Giovannoni,et al. Molecular diversity and ecology of microbial plankton , 2005, Nature.
[138] Olga Mangoni,et al. Seasonal patterns in plankton communities in a pluriannual time series at a coastal Mediterranean site (Gulf of Naples): an attempt to discern recurrences and trends , 2004 .
[139] O. White,et al. Environmental Genome Shotgun Sequencing of the Sargasso Sea , 2004, Science.
[140] K. Wommack,et al. Virioplankton: Viruses in Aquatic Ecosystems , 2000, Microbiology and Molecular Biology Reviews.
[141] C. Suttle,et al. Viruses and Nutrient Cycles in the Sea Viruses play critical roles in the structure and function of aquatic food webs , 1999 .
[142] R. Ferrière,et al. Universal Power Laws Govern Intermittent Rarity in Communities of Interacting Species , 1999 .
[143] J. Fuhrman. Marine viruses and their biogeochemical and ecological effects , 1999, Nature.
[144] David M. Karl,et al. A Sea of Change: Biogeochemical Variability in the North Pacific Subtropical Gyre , 1999, Ecosystems.
[145] J. Randerson,et al. Primary production of the biosphere: integrating terrestrial and oceanic components , 1998, Science.
[146] R. Whittaker. Evolution and measurement of species diversity , 1972 .
[147] M. Gehlen,et al. Influence of diatom diversity on the ocean biological carbon pump , 2017, Nature Geoscience.
[148] P. Bork,et al. Tara Oceans. Tara Oceans studies plankton at planetary scale. Introduction. , 2015, Science.
[149] J. Decelle,et al. Photosymbiosis in Marine Planktonic Protists , 2015 .
[150] D. Caron,et al. Marine protistan diversity. , 2012, Annual review of marine science.
[151] William K. W. Li,et al. ICES Phytoplankton and Microbial Plankton Status Report 2009/2010. , 2012 .
[152] Poul Holm,et al. Life in the World's Oceans , 2010 .
[153] M. Clokie,et al. Marine ecosystems: bacterial photosynthesis genes in a virus. , 2003, Nature.
[154] A. Longhurst. Seasonal cycles of pelagic production and consumption , 1995 .
[155] J. G. Field,et al. The Ecological Role of Water-Column Microbes in the Sea* , 1983 .