List of works - Shinichi Sunagawa

Enterotypes of the human gut microbiome

scientific article

Richness of human gut microbiome correlates with metabolic markers

scientific article (publication date: 29 August 2013)

Ocean plankton. Structure and function of the global ocean microbiome

scientific article published on May 2015

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

scientific article (publication date: 17 November 2015)

Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

scientific article published on 2 December 2015

An integrated catalog of reference genes in the human gut microbiome

scientific article

Ocean plankton. Eukaryotic plankton diversity in the sunlit ocean

scientific article published on May 2015

Human gut microbes impact host serum metabolome and insulin sensitivity

scientific article

Genomic variation landscape of the human gut microbiome

scientific article

Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes

scientific article published on 6 July 2014

Potential of fecal microbiota for early-stage detection of colorectal cancer

scientific article

Metagenomic species profiling using universal phylogenetic marker genes

scientific article

Ocean plankton. Patterns and ecological drivers of ocean viral communities

scientific article published on May 2015

Bacterial diversity and White Plague Disease-associated community changes in the Caribbean coral Montastraea faveolata

scientific article

Ecogenomics and potential biogeochemical impacts of globally abundant ocean viruses

scientific article

Ocean plankton. Determinants of community structure in the global plankton interactome

scientific article published on May 2015

Country-specific antibiotic use practices impact the human gut resistome

scientific article published on 08 April 2013

Durable coexistence of donor and recipient strains after fecal microbiota transplantation.

scientific article

Salt-responsive gut commensal modulates TH17 axis and disease

scientific article published on 15 November 2017

Threatened corals provide underexplored microbial habitats

scientific article

Accurate and universal delineation of prokaryotic species

scientific article published on July 28, 2013

Differential gene expression during thermal stress and bleaching in the Caribbean coral Montastraea faveolata

scientific article

Plankton networks driving carbon export in the oligotrophic ocean

scientific article

Towards standards for human fecal sample processing in metagenomic studies.

scientific article

Symbiodinium transcriptomes: genome insights into the dinoflagellate symbionts of reef-building corals

scientific article

MOCAT: a metagenomics assembly and gene prediction toolkit

scientific article

Enterotypes in the landscape of gut microbial community composition.

scientific article published on 18 December 2017

Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities

scientific article published on 18 September 2013

Colorectal Cancer and the Human Gut Microbiome: Reproducibility with Whole-Genome Shotgun Sequencing.

scientific article

Structure and function of the global topsoil microbiome

scientific article published in Nature

Assessment of metagenomic assembly using simulated next generation sequencing data

scientific article

Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes

scientific article

Generation and analysis of transcriptomic resources for a model system on the rise: the sea anemone Aiptasia pallida and its dinoflagellate endosymbiont

scientific article

Classification and quantification of bacteriophage taxa in human gut metagenomes

scientific article

The host transcriptome remains unaltered during the establishment of coral-algal symbioses

scientific article

Temporal and technical variability of human gut metagenomes

scientific article published on 8 April 2015

Inter-individual differences in the gene content of human gut bacterial species

scientific article published on 21 April 2015

Coral host transcriptomic states are correlated with Symbiodinium genotypes

scientific article published on 8 February 2010

Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer

scientific article published on 01 April 2019

MOCAT2: a metagenomic assembly, annotation and profiling framework

scientific article

Marine DNA Viral Macro- and Microdiversity from Pole to Pole

Rapid evolution of coral proteins responsible for interaction with the environment

scientific article

Transcriptomic responses to heat stress and bleaching in the elkhorn coral Acropora palmata

article

Ocean plankton. Environmental characteristics of Agulhas rings affect interocean plankton transport

scientific article

Minimum Information about an Uncultivated Virus Genome (MIUViG)

scientific article published on 17 December 2018

Identification and gene expression analysis of a taxonomically restricted cysteine-rich protein family in reef-building corals

scientific article

Coral transcriptome and bacterial community profiles reveal distinct Yellow Band Disease states in Orbicella faveolata.

scientific article

A global ocean atlas of eukaryotic genes.

scientific article published on 25 January 2018

Evolutionary analysis of orthologous cDNA sequences from cultured and symbiotic dinoflagellate symbionts of reef-building corals (Dinophyceae: Symbiodinium).

scientific article

Metagenomic insights into the human gut resistome and the forces that shape it

scientific article published on January 29, 2014

List of works by Shinichi Sunagawa

Enterotypes of the human gut microbiome

Richness of human gut microbiome correlates with metabolic markers

Ocean plankton. Structure and function of the global ocean microbiome

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

An integrated catalog of reference genes in the human gut microbiome

Ocean plankton. Eukaryotic plankton diversity in the sunlit ocean

Human gut microbes impact host serum metabolome and insulin sensitivity

Genomic variation landscape of the human gut microbiome

Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes

Potential of fecal microbiota for early-stage detection of colorectal cancer

Metagenomic species profiling using universal phylogenetic marker genes

Ocean plankton. Patterns and ecological drivers of ocean viral communities

Bacterial diversity and White Plague Disease-associated community changes in the Caribbean coral Montastraea faveolata

Ecogenomics and potential biogeochemical impacts of globally abundant ocean viruses

Ocean plankton. Determinants of community structure in the global plankton interactome

Country-specific antibiotic use practices impact the human gut resistome

Durable coexistence of donor and recipient strains after fecal microbiota transplantation.

Salt-responsive gut commensal modulates TH17 axis and disease

Threatened corals provide underexplored microbial habitats

Accurate and universal delineation of prokaryotic species

Differential gene expression during thermal stress and bleaching in the Caribbean coral Montastraea faveolata

Plankton networks driving carbon export in the oligotrophic ocean

Towards standards for human fecal sample processing in metagenomic studies.

Symbiodinium transcriptomes: genome insights into the dinoflagellate symbionts of reef-building corals

MOCAT: a metagenomics assembly and gene prediction toolkit

Enterotypes in the landscape of gut microbial community composition.

Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities

Colorectal Cancer and the Human Gut Microbiome: Reproducibility with Whole-Genome Shotgun Sequencing.

Structure and function of the global topsoil microbiome

Assessment of metagenomic assembly using simulated next generation sequencing data

Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes

Generation and analysis of transcriptomic resources for a model system on the rise: the sea anemone Aiptasia pallida and its dinoflagellate endosymbiont

Classification and quantification of bacteriophage taxa in human gut metagenomes

The host transcriptome remains unaltered during the establishment of coral-algal symbioses

Temporal and technical variability of human gut metagenomes

Inter-individual differences in the gene content of human gut bacterial species

Coral host transcriptomic states are correlated with Symbiodinium genotypes

Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer

MOCAT2: a metagenomic assembly, annotation and profiling framework

Marine DNA Viral Macro- and Microdiversity from Pole to Pole

Rapid evolution of coral proteins responsible for interaction with the environment

Transcriptomic responses to heat stress and bleaching in the elkhorn coral Acropora palmata

Ocean plankton. Environmental characteristics of Agulhas rings affect interocean plankton transport

Minimum Information about an Uncultivated Virus Genome (MIUViG)

Identification and gene expression analysis of a taxonomically restricted cysteine-rich protein family in reef-building corals

Coral transcriptome and bacterial community profiles reveal distinct Yellow Band Disease states in Orbicella faveolata.

A global ocean atlas of eukaryotic genes.

Evolutionary analysis of orthologous cDNA sequences from cultured and symbiotic dinoflagellate symbionts of reef-building corals (Dinophyceae: Symbiodinium).

Metagenomic insights into the human gut resistome and the forces that shape it