skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific

Journal Article · · PLoS Biology (Online)
 [1];  [1];  [1];  [2];  [1];  [1];  [3];  [3];  [1];  [4];  [1];  [1];  [1];  [1];  [1];  [1];  [1];  [1];  [1];  [1] more »;  [1];  [2];  [1];  [1];  [5];  [5];  [5];  [5];  [6];  [7];  [7];  [8];  [9];  [10];  [11];  [1];  [12];  [1];  [1];  [1] « less
  1. J. Craig Venter Institute, Inc., Rockville, MD (United States)
  2. J. Craig Venter Institute, Inc., Rockville, MD (United States); University of Southern California, Avalon, CA (United States)
  3. J. Craig Venter Institute, Inc., Rockville, MD (United States); University of California, Davis, CA (United States)
  4. J. Craig Venter Institute, Inc., Rockville, MD (United States); Your Genome, Your World, Rockville, MD (United States)
  5. Universidad Nacional Autonoma de Mexico, Mexico City (Mexico)
  6. University of Hawaii, Honolulu, HI (United States)
  7. Bedford Institute of Oceanography, Dartmouth, NS (Canada)
  8. Smithsonian Tropical Research Institute, Balboa, Ancon (Republic of Panama)
  9. Universidad de Concepcion, Concepcion (Chile)
  10. Universidad de Costa Rica, San Pedro (Costa Rica)
  11. Rutgers University, New Brunswick, NJ (United States)
  12. J. Craig Venter Institute, Inc., Rockville, MD (United States); University of Southern California, Los Angeles, CA (United States)
+ Show Author Affiliations

The world’s oceans contain a complex mixture of micro-organisms that are for the most part, uncharacterized both genetically and biochemically. We report here a metagenomic study of the marine planktonic microbiota in which surface (mostly marine) water samples were analyzed as part of the Sorcerer II Global Ocean Sampling expedition. These samples, collected across a several-thousand km transect from the North Atlantic through the Panama Canal and ending in the South Pacific yielded an extensive dataset consisting of 7.7 million sequencing reads (6.3 billion bp). Though a few major microbial clades dominate the planktonic marine niche, the dataset contains great diversity with 85% of the assembled sequence and 57% of the unassembled data being unique at a 98% sequence identity cutoff. Using the metadata associated with each sample and sequencing library, we developed new comparative genomic and assembly methods. One comparative genomic method, termed ‘‘fragment recruitment,’’ addressed questions of genome structure, evolution, and taxonomic or phylogenetic diversity, as well as the biochemical diversity of genes and gene families. A second method, termed ‘‘extreme assembly,’’ made possible the assembly and reconstruction of large segments of abundant but clearly nonclonal organisms. Within all abundant populations analyzed, we found extensive intra-ribotype diversity in several forms: (1) extensive sequence variation within orthologous regions throughout a given genome; despite coverage of individual ribotypes approaching 500-fold, most individual sequencing reads are unique; (2) numerous changes in gene content some with direct adaptive implications; and (3) hypervariable genomic islands that are too variable to assemble. The intra-ribotype diversity is organized into genetically isolated populations that have overlapping but independent distributions, implying distinct environmental preference. We present novel methods for measuring the genomic similarity between metagenomic samples and show how they may be grouped into several community types. Specific functional adaptations can be identified both within individual ribotypes and across the entire community, including proteorhodopsin spectral tuning and the presence or absence of the phosphate-binding gene PstS.

Research Organization:
J. Craig Venter Institute, Inc., Rockville, MD (United States); University of Southern California, Avalon, CA (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER); Gordon and Betty Moore Foundation; J. Craig Venter Science Foundation
Grant/Contract Number:
FG02-02ER63453
OSTI ID:
1627154
Journal Information:
PLoS Biology (Online), Vol. 5, Issue 3; ISSN 1545-7885
Publisher:
Public Library of ScienceCopyright Statement
Country of Publication:
United States
Language:
English

References (82)

Microbial diversity in the deep sea and the underexplored "rare biosphere" journal July 2006
Genome analysis of three novel lytic Vibrio coralliilyticus phages isolated from seawater, Okinawa, Japan journal October 2017
Diversification and spectral tuning in marine proteorhodopsins journal April 2003
The photosynthetic apparatus of Prochlorococcus: Insights through comparative genomics journal January 2001
Visualizing large hierarchical clusters in hyperbolic space journal July 2000
Physiology and molecular phylogeny of coexisting Prochlorococcus ecotypes journal June 1998
Coupling 16S-ITS rDNA clone libraries and automated ribosomal intergenic spacer analysis to show marine microbial diversity: development and application to a time series journal September 2005
Cyanobacterial photosynthesis in the oceans: the origins and significance of divergent light-harvesting strategies journal March 2002
PipMaker---A Web Server for Aligning Two Genomic DNA Sequences journal April 2000
Molecular archaeology of the Escherichia coli genome journal August 1998
Basic local alignment search tool journal October 1990
Stable propagation of cosmid sized human DNA inserts in an F factor based vector journal January 1992
Novel major archaebacterial group from marine plankton journal March 1992
Comparative Genome Sequencing for Discovery of Novel Polymorphisms in Bacillus anthracis journal May 2002
Comparative Metagenomics of Microbial Communities journal April 2005
Temporal and spatial stability of bacterioplankton biomass and productivity in an atoll lagoon journal January 1996
Temporal and spatial scales of variation in bacterioplankton assemblages of oligotrophic surface waters journal April 2006
Fine-scale phylogenetic architecture of a complex bacterial community journal July 2004
Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli journal December 2002
Genome Streamlining in a Cosmopolitan Oceanic Bacterium journal August 2005
Abundance and diversity of prymnesiophytes in the picoplankton coμmunity from the equatorial Pacific Ocean inferred from 18S rDNA sequences journal January 2000
Automated Approach for Ribosomal Intergenic Spacer Analysis of Microbial Diversity and Its Application to Freshwater Bacterial Communities journal October 1999
A fast bit-vector algorithm for approximate string matching based on dynamic programming journal May 1999
The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families journal March 2007
Upwelling off the Gulfs of Panama and Papagayo in the tropical Pacific during March 1985 journal January 1988
Vertical fluxes of carbon, nitrogen, and phosphorus in the North Pacific Subtropical Gyre near Hawaii journal July 1997
Why plankton communities have no equilibrium: solutions to the paradox journal January 2003
The TIGRFAMs database of protein families journal January 2003
DNA sequencing with chain-terminating inhibitors journal December 1977
MUSCLE: multiple sequence alignment with high accuracy and high throughput journal March 2004
The Uncultured Microbial Majority journal October 2003
Use of 16S Ribosomal DNA for Delineation of Marine Bacterioplankton Species journal July 2002
Metagenomic Analysis of the Human Distal Gut Microbiome journal June 2006
Genomic Islands and the Ecology and Evolution of Prochlorococcus journal March 2006
Why is water blue? journal August 1993
Report of the Ad Hoc Committee on Reconciliation of Approaches to Bacterial Systematics journal October 1987
Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA. journal January 1997
Three Prochlorococcus Cyanophage Genomes: Signature Features and Ecological Interpretations journal April 2005
Size composition of particulate organic matter in the lagoon of Tikehau atoll (Tuamotu archipelago) journal September 1989
Characterization of RS29, a blue-green proteorhodopsin variant from the Red Sea journal January 2004
Phylogenetic diversity of subsurface marine microbial communities from the Atlantic and Pacific Oceans. journal January 1993
Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation journal August 2003
The Paradox of the Plankton journal May 1961
Prokaryotes: The unseen majority journal June 1998
Darwinian adaptation of proteorhodopsin to different light intensities in the marine environment journal October 2004
A Molecular View of Microbial Diversity and the Biosphere journal May 1997
The diversity–stability debate journal May 2000
Cultivation of the ubiquitous SAR11 marine bacterioplankton clade journal August 2002
Genomic Analysis Reveals Chromosomal Variation in Natural Populations of the Uncultured Psychrophilic ArchaeonCenarchaeum symbiosum journal October 1998
Dynamics of community structure and phosphate status of picocyanobacterial populations in the Gulf of Aqaba, Red Sea journal January 2005
ARB: a software environment for sequence data journal February 2004
Marine bacterial microdiversity as revealed by internal transcribed spacer analysis journal January 2005
Light stimulates growth of proteorhodopsin-containing marine Flavobacteria journal January 2007
Taxonomic Note: A Place for DNA-DNA Reassociation and 16S rRNA Sequence Analysis in the Present Species Definition in Bacteriology journal October 1994
An Ordination of the Upland Forest Communities of Southern Wisconsin journal February 1957
Photophysiology of the marine cyanobacterium Prochlorococcus: Ecotypic differences among cultured isolates journal May 1999
Genetic diversity in Sargasso Sea bacterioplankton journal May 1990
Proteorhodopsin lateral gene transfer between marine planktonic Bacteria and Archaea journal February 2006
Environmental Genome Shotgun Sequencing of the Sargasso Sea journal April 2004
From genes to ecosystems: the ocean's new frontier journal November 2004
Ecotypic variation in phosphorus-acquisition mechanisms within marine picocyanobacteria journal January 2005
The Genome Sequence of the Malaria Mosquito Anopheles gambiae journal October 2002
Proteorhodopsin in living color: diversity of spectral properties within living bacterial cells journal December 2003
Phylogenetic analysis and experimental approaches to study color vision in vertebrates book January 2000
Bacterial Rhodopsin: Evidence for a New Type of Phototrophy in the Sea journal September 2000
A Whole-Genome Assembly of Drosophila journal March 2000
Comparative Genomic Analysis of Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic Provinces journal January 2002
PHACCS, an online tool for estimating the structure and diversity of uncultured viral communities using metagenomic information journal January 2005
Proteorhodopsin genes are distributed among divergent marine bacterial taxa journal October 2003
Phosphate acquisition genes in Prochlorococcus ecotypes: Evidence for genome-wide adaptation journal August 2006
Application of molecular techniques to addressing the role of P as a key effector in marine ecosystems journal January 1999
Niche Partitioning Among Prochlorococcus Ecotypes Along Ocean-Scale Environmental Gradients journal March 2006
Community Genomics Among Stratified Microbial Assemblages in the Ocean's Interior journal January 2006
Genomic mapping by fingerprinting random clones: A mathematical analysis journal April 1988
The response of the coastal ocean to strong offshore winds: With application to circulations in the Gulfs of Tehuantepec and Papagayo journal February 1989
Microdiversity of uncultured marine prokaryotes: the SAR11 cluster and the marine Archaea of Group I journal July 2000
Different SAR86 subgroups harbour divergent proteorhodopsins journal September 2004
Four years of DNA barcoding: Current advances and prospects journal September 2008
Uses of inorganic hypochlorite (bleach) in health-care facilities. journal October 1997
The Molecular Basis of Infectious Diseases: Pathogenicity Islands and Other Mobile Genetic Elements journal November 2003
Genotypic Diversity Within a Natural Coastal Bacterioplankton Population journal February 2005
Notes by a naturalist on the "Challenger", being an account of various observations made during the voyage of H.M.S. "Challenger" around the world, in the years 1872-1876, under the commands of Capt. Sir G. S. Nares and Capt. F. T. Thomson book January 1879

Cited By (390)

Tropical Aquatic Archaea Show Environment-Specific Community Composition journal September 2013
Raw Sewage Harbors Diverse Viral Populations journal October 2011
Advancements toward a systems level understanding of the human oral microbiome journal July 2014
Shifts in the Microbial Community Composition of Gulf Coast Beaches Following Beach Oiling journal September 2013
Bioinformatics-Driven Big Data Analytics in Microbial Research book January 2015
Diversity and Spatial Distribution of Chromophytic Phytoplankton in the Bay of Bengal Revealed by RuBisCO Genes (rbcL) journal July 2019
Metagenomics of the Deep Mediterranean, a Warm Bathypelagic Habitat journal September 2007
In silico assessment of primers for eDNA studies using PrimerTree and application to characterize the biodiversity surrounding the Cuyahoga River posted_content March 2016
Assessing vertebrate biodiversity in a kelp forest ecosystem using environmental DNA journal December 2015
Cultivation and genomics of the first freshwater SAR11 (LD12) isolate journal March 2018
Role of the phosphatase PhoX in the phosphorus metabolism of the marine bacterium Ruegeria pomeroyi DSS-3: Role of the phosphatase PhoX journal April 2011
Unlocking the potential of metagenomics through replicated experimental design journal June 2012
Oceanographic boundaries constrain microbial diversity gradients in the South Pacific Ocean journal August 2018
Occurrence of Far-Red Light Photoacclimation (FaRLiP) in Diverse Cyanobacteria journal December 2014
Distribution of Prochlorococcus Ecotypes in the Red Sea Basin Based on Analyses of rpoC1 Sequences journal June 2016
Bcheck: a wrapper tool for detecting RNase P RNA genes journal January 2010
Bacterial SBP56 identified as a Cu-dependent methanethiol oxidase widely distributed in the biosphere journal October 2017
Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes journal April 2013
DNA Sequencing as a Tool to Monitor Marine Ecological Status journal May 2017
Potential impact of stress activated retrotransposons on genome evolution in a marine diatom journal January 2009
Ecology of uncultured Prochlorococcus clades revealed through single-cell genomics and biogeographic analysis journal August 2012
Improved Environmental Genomes via Integration of Metagenomic and Single-Cell Assemblies journal February 2016
Distribution and Functions of TonB-Dependent Transporters in Marine Bacteria and Environments: Implications for Dissolved Organic Matter Utilization journal July 2012
Bacterial diversity, community structure and potential growth rates along an estuarine salinity gradient journal August 2012
Classification and quantification of bacteriophage taxa in human gut metagenomes journal March 2014
Catabolism of dimethylsulphoniopropionate: microorganisms, enzymes and genes journal October 2011
Microviridae Goes Temperate: Microvirus-Related Proviruses Reside in the Genomes of Bacteroidetes journal May 2011
Integrated metatranscriptomic and metagenomic analyses of stratified microbial assemblages in the open ocean journal December 2010
Meeting Report: Metagenomics, Metadata and Meta-analysis; (M3) Special Interest Group at ISMB 2009 journal December 2009
Evolution in action: habitat transition from sediment to the pelagial leads to genome streamlining in Methylophilaceae journal July 2019
Detection of Large Numbers of Novel Sequences in the Metatranscriptomes of Complex Marine Microbial Communities journal August 2008
Mash: fast genome and metagenome distance estimation using MinHash journal June 2016
Enigmatic, ultrasmall, uncultivated Archaea journal April 2010
Summer Abundance and Distribution of Proteorhodopsin Genes in the Western Arctic Ocean journal October 2016
High resolution time series reveals cohesive but short-lived communities in coastal plankton journal January 2018
Distribution of Roseobacter RCA and SAR11 lineages and distinct bacterial communities from the subtropics to the Southern Ocean journal August 2009
In silico assessment of primers for eDNA studies using PrimerTree and application to characterize the biodiversity surrounding the Cuyahoga River journal March 2016
Integrated biogeography of planktonic and sedimentary bacterial communities in the Yangtze River journal January 2018
Bioactive Endophytes Warrant Intensified Exploration and Conservation journal August 2008
Distribution patterns of the abundance of major bacterial and archaeal groups in Patagonian lakes journal December 2015
Global marine bacterial diversity peaks at high latitudes in winter journal March 2013
The virophage as a unique parasite of the giant mimivirus journal August 2008
Analysis and comparison of very large metagenomes with fast clustering and functional annotation journal October 2009
Strand-specific community RNA-seq reveals prevalent and dynamic antisense transcription in human gut microbiota journal September 2015
An introduction to the analysis of shotgun metagenomic data journal June 2014
Genome characteristics of a generalist marine bacterial lineage journal January 2010
High-resolution SAR11 ecotype dynamics at the Bermuda Atlantic Time-series Study site by phylogenetic placement of pyrosequences journal March 2013
Genome Mining for Radical SAM Protein Determinants Reveals Multiple Sactibiotic-Like Gene Clusters journal July 2011
Antimicrobial activities of a promising glycolipid biosurfactant from a novel marine Staphylococcus saprophyticus SBPS 15 journal August 2016
Bacterial pathogenomics journal October 2007
Author Correction: Improved genome recovery and integrated cell-size analyses of individual uncultured microbial cells and viral particles journal December 2017
A statistical toolbox for metagenomics: assessing functional diversity in microbial communities journal January 2008
An Unprecedented Combination of Serine and Cysteine Nucleophiles in a Split Intein with an Atypical Split Site journal November 2015
Dynamics of the SAR11 bacterioplankton lineage in relation to environmental conditions in the oligotrophic North Pacific subtropical gyre journal September 2009
Compositional differences in particle-associated and free-living microbial assemblages from an extreme deep-ocean environment: Microbial diversity in the Puerto Rico Trench journal November 2010
The dddP gene, encoding a novel enzyme that converts dimethylsulfoniopropionate into dimethyl sulfide, is widespread in ocean metagenomes and marine bacteria and also occurs in some Ascomycete fungi journal June 2009
The 3rd DBCLS BioHackathon: improving life science data integration with Semantic Web technologies journal January 2013
The Socionatural Engineering of Reductionist Metaphors: A Political Ecology of Synthetic Biology journal January 2013
Identifying contamination with advanced visualization and analysis practices: metagenomic approaches for eukaryotic genome assemblies journal January 2016
Marine viruses — major players in the global ecosystem journal October 2007
Microbial diversity and the genetic nature of microbial species journal May 2008
Methanesulfonate (MSA) Catabolic Genes from Marine and Estuarine Bacteria journal May 2015
Interactions in the microbiome: communities of organisms and communities of genes journal January 2014
Breaking a paradigm: cosmopolitan and abundant freshwater actinobacteria are low GC: Freshwater actinobacteria are low GC journal August 2011
The Bacterial Species Challenge: Making Sense of Genetic and Ecological Diversity journal February 2009
Metagenomics reveals that detoxification systems are underrepresented in marine bacterial communities journal January 2014
Bacterial diversity associated with the Brazilian endemic reef coral Mussismilia braziliensis journal April 2009
Genomic diversity landscape of the honey bee gut microbiota journal January 2019
Photosynthetic functions of Synechococcus in the ocean microbiomes of diverse salinity and seasons journal January 2018
Assembling the Marine Metagenome, One Cell at a Time journal April 2009
Structure and function of the global ocean microbiome journal May 2015
Evaluation of marine zooplankton community structure through environmental DNA metabarcoding journal January 2018
Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage journal December 2011
Quantitative analysis of a deeply sequenced marine microbial metatranscriptome journal September 2010
Nature's toolkit for microbial rhodopsin ion pumps journal April 2014
Microbial Population Structures in the Deep Marine Biosphere journal October 2007
Portal protein diversity and phage ecology: Portal protein diversity and phage ecology journal July 2008
A Novel Benthic Phage Infecting Shewanella with Strong Replication Ability journal November 2019
Combined Analyses of the ITS Loci and the Corresponding 16S rRNA Genes Reveal High Micro- and Macrodiversity of SAR11 Populations in the Red Sea journal November 2012
Biogeography of pelagic bacterioplankton across an antagonistic temperature-salinity gradient in the Red Sea: BIOGEOGRAPHY OF PELAGIC BACTERIA IN THE RED SEA journal December 2011
Proteorhodopsin variability and distribution in the North Pacific Subtropical Gyre journal February 2018
Bacterial Dimethylsulfoniopropionate Degradation Genes in the Oligotrophic North Pacific Subtropical Gyre journal April 2012
Genomes of diverse isolates of the marine cyanobacterium Prochlorococcus journal September 2014
Single-cell identification in microbial communities by improved fluorescence in situ hybridization techniques journal May 2008
Environmental characteristics of Agulhas rings affect interocean plankton transport journal May 2015
Validation of high throughput sequencing and microbial forensics applications journal January 2014
Proteorhodopsins: an array of physiological roles? journal May 2008
Implications of streamlining theory for microbial ecology journal April 2014
Increases in the abundance of microbial genes encoding halotolerance and photosynthesis along a sediment salinity gradient journal January 2012
A call for an international network of genomic observatories (GOs) journal July 2012
A distinct abundant group of microbial rhodopsins discovered using functional metagenomics journal June 2018
It's all relative: ranking the diversity of aquatic bacterial communities journal September 2008
Metagenomic profiles of free-living archaea, bacteria and small eukaryotes in coastal areas of Sichang island, Thailand journal December 2012
The Structure of RdDddP from Roseobacter denitrificans Reveals That DMSP Lyases in the DddP-Family Are Metalloenzymes journal July 2014
Composition, uniqueness and variability of the epiphytic bacterial community of the green alga Ulva australis journal November 2010
The Human Virome Protein Cluster Database (HVPC): A Human Viral Metagenomic Database for Diversity and Function Annotation journal May 2018
Metagenomic insights into particles and their associated microbiota in a coastal margin ecosystem journal September 2014
Stoichio-Metagenomics of Ocean Waters: A Molecular Evolution Approach to Trace the Dynamics of Nitrogen Conservation in Natural Communities journal July 2018
Effects of High Hydrostatic Pressure on Coastal Bacterial Community Abundance and Diversity journal October 2014
Proteorhodopsin Phototrophy Promotes Survival of Marine Bacteria during Starvation journal April 2010
New Insights into the Diversity of Marine Picoeukaryotes journal September 2009
Bacteriophage behavioral ecology: How phages alter their bacterial host’s habits journal May 2014
TerraGenome: a consortium for the sequencing of a soil metagenome journal April 2009
Functional genomic signatures of sponge bacteria reveal unique and shared features of symbiosis journal June 2010
Transitions in bacterial communities along the 2000 km salinity gradient of the Baltic Sea journal April 2011
Stimulation of growth by proteorhodopsin phototrophy involves regulation of central metabolic pathways in marine planktonic bacteria journal August 2014
MetaCRAM: an integrated pipeline for metagenomic taxonomy identification and compression journal February 2016
The ecological coherence of high bacterial taxonomic ranks journal June 2010
From Galactic archeology to soil metagenomics – surfing on massive data streams journal December 2009
Microbial rhodopsins are major contributors to the solar energy captured in the sea journal August 2019
The influence of invasive jellyfish blooms on the aquatic microbiome in a coastal lagoon (Varano, SE Italy) detected by an Illumina-based deep sequencing strategy journal November 2014
Diversity and antagonistic potential of marine microbes collected from south-west coast of India journal December 2015
Natural Hot Spots for Gain of Multiple Resistances: Arsenic and Antibiotic Resistances in Heterotrophic, Aerobic Bacteria from Marine Hydrothermal Vent Fields journal January 2015
Metagenomics uncovers a new group of low GC and ultra-small marine Actinobacteria journal August 2013
A supervised learning approach for taxonomic classification of core-photosystem-II genes and transcripts in the marine environment journal January 2009
FR-HIT, a very fast program to recruit metagenomic reads to homologous reference genomes journal April 2011
Bacterial competition: surviving and thriving in the microbial jungle journal November 2009
Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies journal August 2012
Molecular tools in rhizosphere microbiology—from single-cell to whole-community analysis journal March 2009
The seasonal structure of microbial communities in the Western English Channel journal December 2009
Marine bacterial, archaeal and protistan association networks reveal ecological linkages journal March 2011
Development of phoH as a Novel Signature Gene for Assessing Marine Phage Diversity journal September 2011
Coastal Synechococcus metagenome reveals major roles for horizontal gene transfer and plasmids in population diversity journal February 2009
The genome and structural proteome of an ocean siphovirus: a new window into the cyanobacterial ‘mobilome’ journal November 2009
Stalking the Fourth Domain in Metagenomic Data: Searching for, Discovering, and Interpreting Novel, Deep Branches in Marker Gene Phylogenetic Trees journal March 2011
Compareads: comparing huge metagenomic experiments journal December 2012
VIROME: a standard operating procedure for analysis of viral metagenome sequences journal July 2012
A guide to statistical analysis in microbial ecology: a community-focused, living review of multivariate data analyses journal November 2014
Hidden in plain sight: The importance of cryptic interactions in marine plankton journal April 2018
Draft Genome Sequence of Uncultured SAR324 Bacterium lautmerah10, Binned from a Red Sea Metagenome journal February 2016
Abundant transposases encoded by the metagenome of a hydrothermal chimney biofilm journal July 2009
Global biogeography of SAR11 marine bacteria journal January 2012
HabiSign: a novel approach for comparison of metagenomes and rapid identification of habitat-specific sequences journal January 2011
A light-driven sodium ion pump in marine bacteria journal April 2013
Metagenomic Analysis of the Indian Ocean Picocyanobacterial Community: Structure, Potential Function and Evolution journal May 2016
A comparison of homologous recombination rates in bacteria and archaea journal October 2008
The effect of variant interference on de novo assembly for viral deep sequencing posted_content January 2019
Clustering metagenomic sequences with interpolated Markov models journal November 2010
Planctomycetes and macroalgae, a striking association journal June 2014
Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline journal July 2007
Environmental rRNA inventories miss over half of protistan diversity journal December 2008
Morphological and genetic factors shape the microbiome of a seabird species (Oceanodroma leucorhoa) more than environmental and social factors journal October 2017
Microbe biogeography tracks water masses in a dynamic oceanic frontal system journal March 2017
The Ocean Gene Atlas: exploring the biogeography of plankton genes online journal May 2018
Computational eco‐systems biology in T ara O ceans: translating data into knowledge journal May 2015
Activity, abundance and diversity of nitrifying archaea and bacteria in the central California Current: Nitrification in the central California Current journal March 2010
Key roles for freshwater Actinobacteria revealed by deep metagenomic sequencing journal November 2014
Patterns of Bacterial and Archaeal Gene Expression through the Lower Amazon River journal August 2017
Community composition of the Planctomycetes associated with different macroalgae journal May 2014
Microbial community diversity and physical–chemical features of the Southwestern Atlantic Ocean journal September 2014
Expanding the Marine Virosphere Using Metagenomics journal December 2013
Microbial Gene Abundance and Expression Patterns across a River to Ocean Salinity Gradient journal November 2015
Community-wide analysis of microbial genome sequence signatures journal January 2009
Recent Advances and Future Perspectives in Microbial Phototrophy in Antarctic Sea Ice journal October 2012
Novel lineages of Prochlorococcus and Synechococcus in the global oceans journal September 2011
Marine Biofilm Bacteria Evade Eukaryotic Predation by Targeted Chemical Defense journal July 2008
Functional Tradeoffs Underpin Salinity-Driven Divergence in Microbial Community Composition journal February 2014
Targeted recovery of novel phylogenetic diversity from next-generation sequence data journal July 2012
Global patterns in the biogeography of bacterial taxa: Global bacterial biogeography journal August 2010
A Major Clade of Prokaryotes with Ancient Adaptations to Life on Land journal November 2008
Reproducibility of Vibrionaceae population structure in coastal bacterioplankton journal November 2012
Beyond cells – The virome in the human holobiont journal September 2019
Multi-scale structure and geographic drivers of cross-infection within marine bacteria and phages journal November 2012
Coherent dynamics and association networks among lake bacterioplankton taxa journal September 2011
The significance of nitrogen cost minimization in proteomes of marine microorganisms journal June 2011
Achievements and new knowledge unraveled by metagenomic approaches journal September 2009
CompostBin: A DNA Composition-Based Algorithm for Binning Environmental Shotgun Reads book January 2008
Metagenomic analysis of hadopelagic microbial assemblages thriving at the deepest part of Mediterranean Sea, Matapan-Vavilov Deep: Metagenome of hadopelagic microbial community of Mediterranean Sea journal July 2012
Revealing the uncultivated majority: combining DNA stable-isotope probing, multiple displacement amplification and metagenomic analyses of uncultivated Methylocystis in acidic peatlands: Uncultivated Methylocystis in acidic peatlands journal July 2008
Adaptation to sub-optimal hosts is a driver of viral diversification in the ocean journal November 2018
Whole genome comparison of six Crocosphaera watsonii strains with differing phenotypes journal July 2013
Ecogenomics and genome landscapes of marine Pseudoalteromonas phage H105/1 journal July 2010
Explaining microbial population genomics through phage predation journal November 2009
MyOSD 2014: Evaluating Oceanographic Measurements Contributed by Citizen Scientists in Support of Ocean Sampling Day journal March 2016
Comparative Analysis of Functional Metagenomic Annotation and the Mappability of Short Reads journal August 2014
DddY, a periplasmic dimethylsulfoniopropionate lyase found in taxonomically diverse species of Proteobacteria journal January 2011
Genomic analysis of oceanic cyanobacterial myoviruses compared with T4-like myoviruses from diverse hosts and environments: Comparative genomics of T4-like myoviruses journal November 2010
Genomic Makeup of the Marine Flavobacterium Nonlabens (Donghaeana) dokdonensis and Identification of a Novel Class of Rhodopsins journal January 2013
Persistent Core Populations Shape the Microbiome Throughout the Water Column in the North Pacific Subtropical Gyre journal October 2019
Metagenomic survey of methanesulfonic acid (MSA) catabolic genes in an Atlantic Ocean surface water sample and in a partial enrichment journal October 2016
Genome reconstruction and haplotype phasing using chromosome conformation capture methodologies journal December 2019
Genomics and Physiology of a Marine Flavobacterium Encoding a Proteorhodopsin and a Xanthorhodopsin-Like Protein journal March 2013
Integrating metagenomic and amplicon databases to resolve the phylogenetic and ecological diversity of the Chlamydiae journal August 2013
Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre journal June 2009
A latitudinal diversity gradient in planktonic marine bacteria journal May 2008
Genomes of surface isolates of Alteromonas macleodii: the life of a widespread marine opportunistic copiotroph journal September 2012
Seaweed-microbial interactions: key functions of seaweed-associated bacteria journal March 2014
Genome of a SAR116 bacteriophage shows the prevalence of this phage type in the oceans journal June 2013
Artificial and natural duplicates in pyrosequencing reads of metagenomic data journal January 2010
Metagenomic evidence for the presence of phototrophic Gemmatimonadetes bacteria in diverse environments: Phototrophic Gemmatimonadetes in diverse environments journal January 2016
DNA phosphorothioation is widespread and quantized in bacterial genomes journal February 2011
The alkaline phosphatase PhoX is more widely distributed in marine bacteria than the classical PhoA journal February 2009
Characterization of Prochlorococcus clades from iron-depleted oceanic regions journal August 2010
The use of evolutionary approaches to understand single cell genomes journal March 2015
Hidden in plain sight—highly abundant and diverse planktonic freshwater Chloroflexi journal October 2018
The Sorcerer II Global Ocean Sampling Expedition: Metagenomic Characterization of Viruses within Aquatic Microbial Samples journal January 2008
Variability in Microbial Community Composition and Function Between Different Niches Within a Coral Reef journal January 2014
Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity journal November 2009
Genomic adaptation of marine phytoplankton populations regulates phosphate uptake journal January 2020
Assessing diversity and biogeography of aerobic anoxygenic phototrophic bacteria in surface waters of the Atlantic and Pacific Oceans using the Global Ocean Sampling expedition metagenomes journal June 2007
Taxonomic distribution of large DNA viruses in the sea journal January 2008
Streaming histogram sketching for rapid microbiome analytics journal March 2019
Productivity and salinity structuring of the microplankton revealed by comparative freshwater metagenomics: Comparative freshwater metagenomics journal November 2013
Fosmids of novel marine Planctomycetes from the Namibian and Oregon coast upwelling systems and their cross-comparison with planctomycete genomes journal August 2007
Species Delimitation in Taxonomically Difficult Fungi: The Case of Hymenogaster journal January 2011
Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition journal August 2017
Visual and statistical comparison of metagenomes journal June 2009
Proteomic and Transcriptomic Analyses of “Candidatus Pelagibacter ubique” Describe the First PII-Independent Response to Nitrogen Limitation in a Free-Living Alphaproteobacterium journal November 2013
Functional equivalence and evolutionary convergence in complex communities of microbial sponge symbionts journal June 2012
Predictive functional profiles using metagenomic 16S rRNA data: a novel approach to understanding the microbial ecology of aquaculture systems journal January 2018
Phage auxiliary metabolic genes and the redirection of cyanobacterial host carbon metabolism journal August 2011
Genomic and proteomic characterization of “ Candidatus Nitrosopelagicus brevis”: An ammonia-oxidizing archaeon from the open ocean journal January 2015
Anthropogenic effects on bacterial diversity and function along a river-to-estuary gradient in Northwest Greece revealed by metagenomics: Diversity patterns along a river-to-estuary gradient journal April 2016
Vertically distinct microbial communities in the Mariana and Kermadec trenches journal April 2018
Catalytic promiscuity in the biosynthesis of cyclic peptide secondary metabolites in planktonic marine cyanobacteria journal May 2010
Biosynthetic origin of natural products isolated from marine microorganism-invertebrate assemblages journal February 2008
Expanding Tara Oceans Protocols for Underway, Ecosystemic Sampling of the Ocean-Atmosphere Interface During Tara Pacific Expedition (2016-2018) text January 2019
Novel pathway for assimilation of dimethylsulphoniopropionate widespread in marine bacteria journal May 2011
Integrated Metagenomic and Metatranscriptomic Analyses of Microbial Communities in the Meso- and Bathypelagic Realm of North Pacific Ocean journal October 2013
Manganese and iron deficiency in Southern Ocean Phaeocystis antarctica populations revealed through taxon-specific protein indicators journal August 2019
Evolution in action: habitat transition from sediment to the pelagial leads to genome streamlining in Methylophilaceae. text January 2019
Phosphite utilization by the marine picocyanobacterium Prochlorococcus MIT9301: Phosphite utilization by Prochlorococcus MIT9301 journal October 2011
Mimivirus reveals Mre11/Rad50 fusion proteins with a sporadic distribution in eukaryotes, bacteria, viruses and plasmids journal September 2011
Distribution and Quantification of Antibiotic Resistant Genes and Bacteria across Agricultural and Non-Agricultural Metagenomes journal November 2012
Distinct distribution pattern of abundance and diversity of aerobic anoxygenic phototrophic bacteria in the global ocean journal December 2007
Scientists’ warning to humanity: microorganisms and climate change journal June 2019
Environment drives high phylogenetic turnover among oceanic bacterial communities journal January 2012
Something from (almost) nothing: the impact of multiple displacement amplification on microbial ecology journal February 2008
Marine microbial metagenomes sampled across space and time journal September 2018
Comparative Genomics Reveals Adaptation by Alteromonas sp. SN2 to Marine Tidal-Flat Conditions: Cold Tolerance and Aromatic Hydrocarbon Metabolism journal April 2012
A novel semi-supervised algorithm for the taxonomic assignment of metagenomic reads journal January 2016
Global abundance of microbial rhodopsins journal October 2012
AHL-driven quorum-sensing circuits: their frequency and function among the Proteobacteria journal February 2008
A guide to statistical analysis in microbial ecology: a community-focused, living review of multivariate data analyses text January 2014
Millimeter‐scale genetic gradients and community‐level molecular convergence in a hypersaline microbial mat journal January 2008
Accurate Genome Relative Abundance Estimation Based on Shotgun Metagenomic Reads journal December 2011
Diversity of urea-degrading microorganisms in open-ocean and estuarine planktonic communities journal December 2009
Biological cycling of volatile organic carbon by phytoplankton and bacterioplankton journal May 2017
Bacterial species may exist, metagenomics reveal: Bacterial species may exist journal December 2011
Not All Particles Are Equal: The Selective Enrichment of Particle-Associated Bacteria from the Mediterranean Sea journal June 2016
Probing the Rare Biosphere of the North-West Mediterranean Sea: An Experiment with High Sequencing Effort journal July 2016
Metagenome Sequence Analysis of Filamentous Microbial Communities Obtained from Geochemically Distinct Geothermal Channels Reveals Specialization of Three Aquificales Lineages journal January 2013
New Abundant Microbial Groups in Aquatic Hypersaline Environments journal October 2011
Newly isolated Nodularia phage influences cyanobacterial community dynamics journal December 2016
Algal taxonomy: a road to nowhere? journal December 2012
Parallel Evolution and Horizontal Gene Transfer of the pst Operon in Firmicutes from Oligotrophic Environments journal March 2011
Proteorhodopsin light-enhanced growth linked to vitamin-B1 acquisition in marine Flavobacteria journal November 2015
Structural and Functional Diversity of the Microbial Kinome journal March 2007
The Ecology of Microbial Communities Associated with Macrocystis pyrifera journal June 2013
Global picophytoplankton niche partitioning predicts overall positive response to ocean warming journal January 2020
Subcellular localization of marine bacterial alkaline phosphatases journal November 2009
Abundant and diverse bacteria involved in DMSP degradation in marine surface waters journal September 2008
Genome sequence of Vibrio diabolicus and identification of the exopolysaccharide HE800 biosynthesis locus journal October 2014
Genomic island variability facilitates Prochlorococcus–virus coexistence journal June 2011
Transposases are the most abundant, most ubiquitous genes in nature journal March 2010
GLOSSary: the GLobal Ocean 16S subunit web accessible resource journal November 2018
Discovery and structural characterization of a novel glycosidase family of marine origin: Discovery of a family of glycosidases of marine origin journal February 2011
The presence of the glycolysis operon in SAR11 genomes is positively correlated with ocean productivity journal February 2010
Marine bacterial communities are resistant to elevated carbon dioxide levels: Marine bacterial communities and elevated CO journal June 2014
The YNP metagenome project: environmental parameters responsible for microbial distribution in the Yellowstone geothermal ecosystem journal January 2013
Comparative metagenomic analyses reveal viral-induced shifts of host metabolism towards nucleotide biosynthesis journal January 2014
Exploring Symbiodinium diversity and host specificity in Acropora corals from geographical extremes of Western Australia with 454 amplicon pyrosequencing journal June 2014
Single-cell enabled comparative genomics of a deep ocean SAR11 bathytype journal January 2014
Expanding the World of Marine Bacterial and Archaeal Clades journal January 2016
From the test tube to the environment - and back: From the test tube to the environment - and back journal January 2013
Meeting Report: “Metagenomics, Metadata and Meta-analysis” (M3) Workshop at the Pacific Symposium on Biocomputing 2010 journal June 2010
Evolutionary analysis of a streamlined lineage of surface ocean Roseobacters journal January 2014
Bacterial flavin-containing monooxygenase is trimethylamine monooxygenase journal October 2011
Release of ecologically relevant metabolites by the cyanobacterium S ynechococcus elongatus  CCMP 1631 : Metabolomics of journal July 2015
Ecogenomics of Deep-Ocean Microbial Bathytypes book March 2017
Comparative genomics of two ‘Candidatus Accumulibacter’ clades performing biological phosphorus removal journal July 2013
Ecosystem-specific selection pressures revealed through comparative population genomics journal October 2010
WebMGA: a customizable web server for fast metagenomic sequence analysis journal September 2011
Characterization of bacterioplankton communities and quantification of organic carbon pools off the Galapagos Archipelago under contrasting environmental conditions journal January 2018
The Ocean Gene Atlas: exploring the biogeography of plankton genes online text January 2018
Adaptation of an abundant Roseobacter RCA organism to pelagic systems revealed by genomic and transcriptomic analyses journal August 2014
The rational exploration of microbial diversity journal July 2008
Dynamics of marine bacterial community diversity of the coastal waters of the reefs, inlets, and wastewater outfalls of southeast Florida journal March 2015
MetaG: a graph-based metagenomic gene analysis for big DNA data journal July 2016
The Pacific Ocean Virome (POV): A Marine Viral Metagenomic Dataset and Associated Protein Clusters for Quantitative Viral Ecology journal February 2013
Prokaryotic assemblages and metagenomes in pelagic zones of the South China Sea journal March 2015
INDUS - a composition-based approach for rapid and accurate taxonomic classification of metagenomic sequences journal November 2011
Mammalian Expression of Infrared Fluorescent Proteins Engineered from a Bacterial Phytochrome journal May 2009
Metaproteomic analysis of a winter to spring succession in coastal northwest Atlantic Ocean microbial plankton journal January 2014
Novel N4 Bacteriophages Prevail in the Cold Biosphere journal May 2015
The effect of variant interference on de novo assembly for viral deep sequencing journal June 2020
Remote homology and the functions of metagenomic dark matter journal July 2015
Abundance and functional diversity of riboswitches in microbial communities journal January 2007
Environmental Genomics Reveals a Single-Species Ecosystem Deep Within Earth journal October 2008
Contributions of single-cell genomics to our understanding of planktonic marine archaea journal October 2019
Reconstruction of Ribosomal RNA Genes from Metagenomic Data journal June 2012
Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea, and their metagenomes journal January 2010
A Catalog of Reference Genomes from the Human Microbiome journal May 2010
Ecological dynamics and co-occurrence among marine phytoplankton, bacteria and myoviruses shows microdiversity matters journal April 2017
Shedding new light on viral photosynthesis journal November 2014
Age-Related Differences in the Gastrointestinal Microbiota of Chinstrap Penguins (Pygoscelis antarctica) journal April 2016
Metagenomic analysis of a complex marine planktonic thaumarchaeal community from the Gulf of Maine: Metagenomic analysis of marine planktonic Thaumarchaea journal November 2011
Antibacterial and anticancer activities of orphan biosynthetic gene clusters from Atlantis II Red Sea brine pool journal March 2019
Diverse and dynamic populations of cyanobacterial podoviruses in the Chesapeake Bay unveiled through DNA polymerase gene sequences journal November 2009
Yellowstone Lake Nanoarchaeota journal January 2013
Effects of nutrient enrichment on surface microbial community gene expression in the oligotrophic North Pacific Subtropical Gyre journal September 2018
Aerobic methanotrophic communities at the Red Sea brine-seawater interface journal September 2014
Evolution of Dimethylsulfoniopropionate Metabolism in Marine Phytoplankton and Bacteria journal April 2017
MicRhoDE: a curated database for the analysis of microbial rhodopsin diversity and evolution journal January 2015
Fractured genes: a novel genomic arrangement involving new split inteins and a new homing endonuclease family journal March 2009
Bacterial Biogeography across the Amazon River-Ocean Continuum journal May 2017
Comprehensive Analysis of Prokaryotes in Environmental Water Using DNA Microarray Analysis and Whole Genome Amplification journal October 2013
Seasonal bloom dynamics and ecophysiology of the freshwater sister clade of SAR11 bacteria 'that rule the waves' (LD12) text January 2011
The microbial ocean from genomes to biomes journal May 2009
Novel phage-host interactions and evolution as revealed by a cyanomyovirus isolated from an estuarine environment: An evolutionarily and ecologically new cyanophage journal August 2018
Microbial community structure and its functional implications journal May 2009
Bacterial assemblages of the eastern Atlantic Ocean reveal both vertical and latitudinal biogeographic signatures journal January 2012
Metatranscriptomics reveals unique microbial small RNAs in the ocean’s water column journal May 2009
Metagenomics: Facts and Artifacts, and Computational Challenges journal January 2010
Prokaryotic and viral community of the sulfate‐rich crust from Peñahueca ephemeral lake, an astrobiology analogue journal June 2019
Survey of the green picoalga Bathycoccus genomes in the global ocean journal November 2016
Matching phylogeny and metabolism in the uncultured marine bacteria, one cell at a time journal May 2007
Novel Systems Modeling Methodology in Comparative Microbial Metabolomics: Identifying Key Enzymes and Metabolites Implicated in Autism Spectrum Disorders journal April 2015
Increases in the abundance of microbial genes encoding halotolerance and photosynthesis along a sediment salinity gradient posted_content July 2011
Determination of Whether Quorum Quenching Is a Common Activity in Marine Bacteria by Analysis of Cultivable Bacteria and Metagenomic Sequences journal June 2012
Exploring mixed microbial community functioning: recent advances in metaproteomics journal January 2012
Gene diversity of CYP153A and AlkB alkane hydroxylases in oil-degrading bacteria isolated from the Atlantic Ocean: P450 and alkB diversity in bacteria from Atlantic Ocean journal February 2010
Quantification of HTLV-1 Clonality and TCR Diversity journal June 2014
Natural variation in SAR11 marine bacterioplankton genomes inferred from metagenomic data journal January 2007
EBI metagenomics in 2016 - an expanding and evolving resource for the analysis and archiving of metagenomic data journal November 2015
Diffuse flow environments within basalt- and sediment-based hydrothermal vent ecosystems harbor specialized microbial communities journal January 2013
Exome capture from saliva produces high quality genomic and metagenomic data journal April 2014
Toward Understanding, Managing, and Protecting Microbial Ecosystems journal January 2011
Building on basic metagenomics with complementary technologies journal January 2007
Co-occurrence Analysis of Microbial Taxa in the Atlantic Ocean Reveals High Connectivity in the Free-Living Bacterioplankton journal May 2016
Seasonal Mixing-Driven System in Estuarine–Coastal Zone Triggers an Ecological Shift in Bacterial Assemblages Involved in Phytoplankton-Derived DMSP Degradation journal May 2019
The Taxonomic and Functional Diversity of Microbes at a Temperate Coastal Site: A ‘Multi-Omic’ Study of Seasonal and Diel Temporal Variation journal November 2010
Adaptation to sub-optimal hosts is a driver of viral diversification in the ocean journal February 2018
New insights into marine group III Euryarchaeota, from dark to light journal January 2017
Thaumarchaeal ecotype distributions across the equatorial Pacific Ocean and their potential roles in nitrification and sinking flux attenuation: Thaumarchaea in the equatorial Pacific journal April 2017
Genomes of Two New Ammonia-Oxidizing Archaea Enriched from Deep Marine Sediments journal May 2014
Bacterial pathogens, virulence mechanism and host defence in marine macroalgae: Bacterial pathogens of macroalgae journal October 2013
CloVR-ITS: Automated internal transcribed spacer amplicon sequence analysis pipeline for the characterization of fungal microbiota journal February 2013
Tuning fresh: radiation through rewiring of central metabolism in streamlined bacteria journal January 2016
Occurrence of phosphate acquisition genes in Prochlorococcus cells from different ocean regions journal June 2009
Metagenomic Analysis of Lysogeny in Tampa Bay: Implications for Prophage Gene Expression journal September 2008
Microbes in Earth’s aqueous environments journal January 2010
A Response to Scientific and Societal Needs for Marine Biological Observations journal July 2019
Microbiology in the post-genomic era journal May 2008
Standard filtration practices may significantly distort planktonic microbial diversity estimates journal June 2015
Metagenomic Analysis of 0.2-μm-Passable Microorganisms in Deep-Sea Hydrothermal Fluid journal January 2011
Shifts in bacterial community composition associated with increased carbon cycling in a mosaic of phytoplankton blooms journal July 2015
Marine methylotrophs revealed by stable-isotope probing, multiple displacement amplification and metagenomics: Metagenomics of active marine methyotrophs journal February 2008
Comparative genomics of methylated amine utilization by marine Roseobacter clade bacteria and development of functional gene markers (tmm, gmaS): Methylamine utilization by Roseobacter journal April 2012
MLST revisited: the gene-by-gene approach to bacterial genomics journal September 2013
1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life journal June 2017
HqiA, a novel quorum-quenching enzyme which expands the AHL lactonase family journal April 2017
Metagenomic covariation along densely sampled environmental gradients in the Red Sea journal July 2016
Ecological structuring of bacterial and archaeal taxa in surface ocean waters journal April 2012
Diversity and evolutionary relationships of T7-like podoviruses infecting marine cyanobacteria: Evolutionary relationships of T7-like cyanopodoviruses journal March 2013
Fundamental differences in diversity and genomic population structure between Atlantic and Pacific Prochlorococcus journal May 2017
Widespread Genetic Switches and Toxicity Resistance Proteins for Fluoride journal December 2011
GRASP: Guided Reference-based Assembly of Short Peptides journal November 2014
Influence of a Non-Hospital Medical Care Facility on Antimicrobial Resistance in Wastewater journal March 2015
Community Structure and Function of High-Temperature Chlorophototrophic Microbial Mats Inhabiting Diverse Geothermal Environments journal January 2013
Alignment-free supervised classification of metagenomes by recursive SVM journal January 2013
De-Bruijn graph with MapReduce framework towards metagenomic data classification journal February 2017
The Use of a Chimeric Rhodopsin Vector for the Detection of New Proteorhodopsins Based on Color journal March 2018
Diversity and abundance of phosphonate biosynthetic genes in nature journal December 2013
Improved genome recovery and integrated cell-size analyses of individual uncultured microbial cells and viral particles journal July 2017
Factors Influencing the Diversity of Iron Uptake Systems in Aquatic Microorganisms journal January 2012
The role of planktonic Flavobacteria in processing algal organic matter in coastal East Antarctica revealed using metagenomics and metaproteomics : Metaproteomics of marine Antarctic journal November 2012
Transcriptome dynamics of a broad host-range cyanophage and its hosts journal December 2015
Biogeographic patterns in ocean microbes emerge in a neutral agent-based model journal September 2014
Coordinating Environmental Genomics and Geochemistry Reveals Metabolic Transitions in a Hot Spring Ecosystem journal June 2012
Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities: Using journal September 2013
Accelerated Species Inventory on Madagascar Using Coalescent-Based Models of Species Delineation journal June 2009
Metagenomics journal November 2008
GeneHunt for rapid domain-specific annotation of glycoside hydrolases journal July 2019
High-resolution metagenomics targets specific functional types in complex microbial communities journal August 2008
Iron transporters in marine prokaryotic genomes and metagenomes: Iron transporters in marine prokaryotes journal August 2011
Diversity, ecology, and genomics of the Roseobacter clade: a short overview journal February 2008
Analysis of the Pseudoalteromonas tunicata Genome Reveals Properties of a Surface-Associated Life Style in the Marine Environment journal September 2008
Metagenomic Profiling of Microbial Composition and Antibiotic Resistance Determinants in Puget Sound journal October 2012
Recombination Does Not Hinder Formation or Detection of Ecological Species of Synechococcus Inhabiting a Hot Spring Cyanobacterial Mat journal January 2016
Evolution and Diversity of the Microviridae Viral Family through a Collection of 81 New Complete Genomes Assembled from Virome Reads journal July 2012
NCycDB: a curated integrative database for fast and accurate metagenomic profiling of nitrogen cycling genes journal August 2018
Cultivation of seaweed Gracilaria lemaneiformis enhanced biodiversity in a eukaryotic plankton community as revealed via metagenomic analyses journal February 2018
Marine Biodiversity of Eastern Tropical Pacific Coral Reefs book August 2016
Diversification and niche adaptations of Nitrospina-like bacteria in the polyextreme interfaces of Red Sea brines journal December 2015
The perils of plenty: what are we going to do with all these genes? journal October 2008
Impact of ocean phytoplankton diversity on phosphate uptake journal November 2014
Elemental Composition, Phosphorous Uptake, and Characteristics of Growth of a SAR11 Strain in Batch and Continuous Culture journal August 2019
The Pfam protein families database journal December 2007
SPA: a short peptide assembler for metagenomic data journal February 2013

Similar Records

Assembling the Marine Metagenome, One Cell at a Time
Journal Article · Thu Jun 24 00:00:00 EDT 2010 · PLoS One · OSTI ID:1627154
+11 more
Assembling The Marine Metagenome, One Cell At A Time
Journal Article · Tue Jan 01 00:00:00 EST 2008 · Science · OSTI ID:1627154
+10 more
Niche differentiation among annually recurrent coastal Marine Group II Euryarchaeota
Journal Article · Mon Aug 26 00:00:00 EDT 2019 · The ISME Journal · OSTI ID:1627154
+5 more

Related Subjects

54 ENVIRONMENTAL SCIENCES
Cyberinfrastructure for Advanced Marine Microbial Ecology Research and Analysis
CAMERA
global ocean sampling
National Center for Biotechnology Information