Major imprint of surface plankton on deep ocean prokaryotic structure and activity
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May 2020 |
Mesoscale eddies: hotspots of prokaryotic activity and differential community structure in the ocean
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April 2010 |
Contribution of Bicarbonate Assimilation to Carbon Pool Dynamics in the Deep Mediterranean Sea and Cultivation of Actively Nitrifying and CO2-Fixing Bathypelagic Prokaryotic Consortia
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January 2018 |
A new method for non-parametric multivariate analysis of variance
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February 2001 |
Microbial oceanography of the dark ocean's pelagic realm
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June 2009 |
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
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August 2017 |
Oxidation of Inorganic Sulfur Compounds by Obligately Organotrophic Bacteria
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November 2003 |
KEGG: Kyoto Encyclopedia of Genes and Genomes
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January 2000 |
Atmospheric carbon monoxide oxidation is a widespread mechanism supporting microbial survival
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July 2019 |
Citreicella thiooxidans gen. nov., sp. nov., a novel lithoheterotrophic sulfur-oxidizing bacterium from the Black Sea
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October 2005 |
Major role of bacteria in biogeochemical fluxes in the ocean's interior
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March 1988 |
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
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September 1997 |
Seasonal copepod lipid pump promotes carbon sequestration in the deep North Atlantic
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September 2015 |
Identifying the missing steps of the autotrophic 3-hydroxypropionate CO2 fixation cycle in Chloroflexus aurantiacus
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December 2009 |
Episodic organic carbon fluxes from surface ocean to abyssal depths during long-term monitoring in NE Pacific
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November 2018 |
MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities
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January 2015 |
Physiological, Ecological, and Phylogenetic Characterization of Stappia , a Marine CO-Oxidizing Bacterial Genus
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February 2007 |
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
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May 2015 |
UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches
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November 2014 |
Influence of nutrients and currents on the genomic composition of microbes across an upwelling mosaic
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January 2012 |
The role of subduction and gravitational sinking in particle export, carbon sequestration, and the remineralization length scale in the California Current Ecosystem: Subduction and sinking particle export in the CCE
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July 2017 |
Particle-association lifestyle is a phylogenetically conserved trait in bathypelagic prokaryotes
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November 2015 |
Fast and sensitive protein alignment using DIAMOND
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November 2014 |
The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy
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November 2012 |
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
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January 2013 |
Evidence for hydrogen oxidation and metabolic plasticity in widespread deep-sea sulfur-oxidizing bacteria
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December 2012 |
Metagenomic Evidence for H2 Oxidation and H2 Production by Serpentinite-Hosted Subsurface Microbial Communities
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January 2012 |
Phylogenetic Analysis of Particle-Attached and Free-Living Bacterial Communities in the Columbia River, Its Estuary, and the Adjacent Coastal Ocean
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July 1999 |
Ketobacter alkanivorans gen. nov., sp. nov., an n-alkane-degrading bacterium isolated from seawater
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July 2018 |
Prokka: rapid prokaryotic genome annotation
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March 2014 |
The biomass distribution on Earth
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May 2018 |
Role for urea in nitrification by polar marine Archaea
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October 2012 |
Changing perspectives in marine nitrogen fixation
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May 2020 |
Sinking particles promote vertical connectivity in the ocean microbiome
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July 2018 |
The NCBI Taxonomy database
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December 2011 |
Nitrogenase Gene Amplicons from Global Marine Surface Waters Are Dominated by Genes of Non-Cyanobacteria
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April 2011 |
Organic matter processing by microbial communities throughout the Atlantic water column as revealed by metaproteomics
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December 2017 |
Beyond the Calvin Cycle: Autotrophic Carbon Fixation in the Ocean
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January 2011 |
Community Genomics Among Stratified Microbial Assemblages in the Ocean's Interior
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January 2006 |
Distribution and activity of Bacteria and Archaea in the deep water masses of the North Atlantic
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September 2006 |
Structure and function of the global ocean microbiome
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May 2015 |
Archaeal nitrification in the ocean
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August 2006 |
Isolation and Characterization of Novosphingobium sp. Strain MT1, a Dominant Polychlorophenol-Degrading Strain in a Groundwater Bioremediation System
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January 2002 |
Life with Carbon Monoxide
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January 2004 |
Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities: Using
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September 2013 |
Not All Particles Are Equal: The Selective Enrichment of Particle-Associated Bacteria from the Mediterranean Sea
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June 2016 |
Global diversity and biogeography of deep-sea pelagic prokaryotes
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August 2015 |
Major role of nitrite-oxidizing bacteria in dark ocean carbon fixation
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November 2017 |
Nitrogen fixation within the water column associated with two hypoxic basins in the Southern California Bight
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April 2011 |
Isolation of an autotrophic ammonia-oxidizing marine archaeon
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September 2005 |
Characteristics of diazotrophs in surface to abyssopelagic waters of the Sargasso Sea
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January 2007 |
An assessment of the use of sediment traps for estimating upper ocean particle fluxes
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May 2007 |
Interactive Tree Of Life (iTOL) v4: recent updates and new developments
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April 2019 |
KofamKOALA: KEGG Ortholog assignment based on profile HMM and adaptive score threshold
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November 2019 |
Contribution of crenarchaeal autotrophic ammonia oxidizers to the dark primary production in Tyrrhenian deep waters (Central Mediterranean Sea)
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January 2011 |
Structure of cytochrome c nitrite reductase
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July 1999 |
Potential for Chemolithoautotrophy Among Ubiquitous Bacteria Lineages in the Dark Ocean
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September 2011 |
FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix
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April 2009 |
Microbial control of the dark end of the biological pump
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August 2013 |
Ballast, sinking velocity, and apparent diffusivity within marine snow and zooplankton fecal pellets: Implications for substrate turnover by attached bacteria
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journal
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September 2008 |
Diversity of total and active free-living vs. particle-attached bacteria in the euphotic zone of the NW Mediterranean Sea
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journal
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October 2009 |
Unifying the global phylogeny and environmental distribution of ammonia-oxidising archaea based on amoA genes
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April 2018 |
The complete genome sequence and analysis of a plasmid-bearing myxobacterial strain Myxococcus fulvus 124B02 (M 206081)
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journal
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January 2016 |
SAR202 Genomes from the Dark Ocean Predict Pathways for the Oxidation of Recalcitrant Dissolved Organic Matter
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April 2017 |
The enigmatic SAR202 cluster up close: shedding light on a globally distributed dark ocean lineage involved in sulfur cycling
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December 2017 |
Size-fraction partitioning of community gene transcription and nitrogen metabolism in a marine oxygen minimum zone
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journal
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April 2015 |
Diverse diazotrophs are present on sinking particles in the North Pacific Subtropical Gyre
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journal
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August 2018 |
Distinct form I, II, III, and IV Rubisco proteins from the three kingdoms of life provide clues about Rubisco evolution and structure/function relationships
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journal
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June 2007 |
Contribution of Archaea to Total Prokaryotic Production in the Deep Atlantic Ocean
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journal
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May 2005 |
Prokaryotic extracellular enzymatic activity in relation to biomass production and respiration in the meso- and bathypelagic waters of the (sub)tropical Atlantic
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August 2009 |
Dissolved Organic Carbon Support of Respiration in the Dark Ocean
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journal
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December 2002 |
Novosphingobium indicum sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium isolated from a deep-sea environment
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journal
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July 2009 |
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
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journal
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May 2006 |
Eukaryotic large nucleo-cytoplasmic DNA viruses: Clusters of orthologous genes and reconstruction of viral genome evolution
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journal
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January 2009 |
Multi-faceted particle pumps drive carbon sequestration in the ocean
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journal
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April 2019 |
Seafaring in the 21St Century: The Malaspina 2010 Circumnavigation Expedition
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January 2015 |
Global genetic capacity for mixotrophy in marine picocyanobacteria
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May 2016 |
CO Dehydrogenase Genes Found in Metagenomic Fosmid Clones from the Deep Mediterranean Sea
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October 2009 |
Patterns and ecological drivers of ocean viral communities
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journal
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May 2015 |
Global niche of marine anaerobic metabolisms expanded by particle microenvironments
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journal
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March 2018 |
Eddy-driven subduction exports particulate organic carbon from the spring bloom
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journal
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March 2015 |
Major contribution of autotrophy to microbial carbon cycling in the deep North Atlantic’s interior
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journal
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August 2010 |
Zooplankton fecal pellets, marine snow and sinking phytoplankton blooms
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journal
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January 2002 |
Metagenomics of the Deep Mediterranean, a Warm Bathypelagic Habitat
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journal
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September 2007 |
Ecogenomics and potential biogeochemical impacts of globally abundant ocean viruses
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journal
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September 2016 |
CAP3: A DNA Sequence Assembly Program
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journal
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September 1999 |
A new phylum of Archaea represented by a nanosized hyperthermophilic symbiont
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journal
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May 2002 |
MEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices
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journal
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June 2016 |
Search and clustering orders of magnitude faster than BLAST
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journal
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August 2010 |
Significance of non-sinking particulate organic carbon and dark CO 2 fixation to heterotrophic carbon demand in the mesopelagic northeast Atlantic: DARK CO 2 FIXATION AND C DEMAND
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journal
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May 2010 |
Respiration in the open ocean
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journal
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November 2002 |
Expanded microbial genome coverage and improved protein family annotation in the COG database
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journal
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November 2014 |
Transcriptional control, translation and function of the products of the five open reading frames of the Escherichia coli nir operon
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journal
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October 1992 |
Decoupling function and taxonomy in the global ocean microbiome
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journal
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September 2016 |
290 metagenome-assembled genomes from the Mediterranean Sea: a resource for marine microbiology
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journal
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January 2017 |
The Pfam protein families database in 2019
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journal
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October 2018 |
Diversity of Myxobacteria—We Only See the Tip of the Iceberg
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journal
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August 2018 |
Novosphingobium nitrogenifigens sp. nov., a polyhydroxyalkanoate-accumulating diazotroph isolated from a New Zealand pulp and paper wastewater
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journal
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November 2007 |
The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific
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journal
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March 2007 |
Accelerated Profile HMM Searches
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journal
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October 2011 |
Large variability of bathypelagic microbial eukaryotic communities across the world’s oceans
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journal
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October 2015 |
Fast gapped-read alignment with Bowtie 2
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journal
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March 2012 |
Functional assignment of multiple catabolic pathways for d-apiose
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journal
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June 2018 |
Heterotrophic Thaumarchaea with Small Genomes Are Widespread in the Dark Ocean
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journal
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June 2020 |
Lateral Gene Transfer Shapes the Distribution of RuBisCO among Candidate Phyla Radiation Bacteria and DPANN Archaea
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journal
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December 2018 |
Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes
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journal
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April 2013 |
Complete Genome of the Starch-Degrading Myxobacteria Sandaracinus amylolyticus DSM 53668 T
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journal
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June 2016 |
Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal Omega
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journal
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January 2011 |
High bicarbonate assimilation in the dark by Arctic bacteria
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journal
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June 2010 |
Chasing after Non-cyanobacterial Nitrogen Fixation in Marine Pelagic Environments
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journal
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September 2017 |
How microbes survive in the open ocean
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journal
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August 2017 |
Ubiquitous healthy diatoms in the deep sea confirm deep carbon injection by the biological pump
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journal
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July 2015 |
Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome
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journal
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November 2019 |
The reconstruction of 2,631 draft metagenome-assembled genomes from the global oceans
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journal
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January 2018 |
Substantial energy input to the mesopelagic ecosystem from the seasonal mixed-layer pump
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journal
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September 2016 |
Nitrogen-fixing populations of Planctomycetes and Proteobacteria are abundant in surface ocean metagenomes
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journal
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June 2018 |
The Sequence Alignment/Map format and SAMtools
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journal
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June 2009 |
Bacterial species may exist, metagenomics reveal: Bacterial species may exist
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journal
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December 2011 |