The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota (Q38817542)

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scientific article published on 8 August 2016

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English	The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota	scientific article published on 8 August 2016

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scholarly article

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The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota (English)

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6 September 2017

corrigendum / erratum

Erratum: Corrigendum: The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota

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Bärbel Stecher

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Bärbel Stecher

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Ilias Lagkouvardos

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Ilias Lagkouvardos

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Thomas Clavel

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Jens Walter

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Bärbel U Foesel

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Bärbel U Foesel

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Jörg Overmann

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Rüdiger Pukall

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Rüdiger Pukall

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Mathias W Hornef

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Mathias W Hornef

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author name string

Birte Abt

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Neeraj Kumar

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Anne Bresciani

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Inés Martínez

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Sarah Just

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Caroline Ziegler

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Sandrine Brugiroux

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Debora Garzetti

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Mareike Wenning

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Thi P N Bui

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Jun Wang

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Floor Hugenholtz

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Caroline M Plugge

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Daniel A Peterson

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John F Baines

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Karsten Kristiansen

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Henrik B Nielsen

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publication date

8 August 2016

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Nature Microbiology

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1

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16131

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10

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https://scigraph.springernature.com/pub.10.1038/nmicrobiol.2016.131

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The anaerobic bacterial flora of the mouse cecum

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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Optimized Illumina PCR-free library preparation for bacterial whole genome sequencing and analysis of factors influencing de novo assembly

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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A proposed genus boundary for the prokaryotes based on genomic insights

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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Prokka: rapid prokaryotic genome annotation

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Molecular microbial diversity of an anaerobic digestor as determined by small-subunit rDNA sequence analysis

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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UPARSE: highly accurate OTU sequences from microbial amplicon reads

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Characterization of the inhabitancy of mouse intestinal bacteria (MIB) in rodents and humans by real-time PCR with group-specific primers

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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Isolation of bacteria from mouse caecal samples and description of Bacteroides sartorii sp. nov.

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Analysis of 16S libraries of mouse gastrointestinal microflora reveals a large new group of mouse intestinal bacteria.

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Fast and accurate phylogeny reconstruction algorithms based on the minimum-evolution principle

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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Use of anaerobic glove boxes for the cultivation of strictly anaerobic bacteria

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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MEGA6: Molecular Evolutionary Genetics Analysis version 6.0

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Phylogeny, culturing, and metagenomics of the human gut microbiota

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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BacDive – The Bacterial Diversity Metadatabase in 2016

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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Formation of a clear zone on tannin-treated brain heart infusion agar by a Streptococcus sp. isolated from feces of koalas.

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Extensive strain-level copy-number variation across human gut microbiome species

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Heterogeneity of the gut microbiome in mice: guidelines for optimizing experimental design

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Taxonomic use of DNA G+C content and DNA-DNA hybridization in the genomic age.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Responses in colonic microbial community and gene expression of pigs to a long-term high resistant starch diet

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Draft genome sequences of the altered schaedler flora, a defined bacterial community from gnotobiotic mice

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Gut metabolites and bacterial community networks during a pilot intervention study with flaxseeds in healthy adult men.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Integrating metagenomic and amplicon databases to resolve the phylogenetic and ecological diversity of the Chlamydiae

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Single derivatization method for routine analysis of bacterial whole-cell fatty acid methyl esters, including hydroxy acids.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Bacteria from diverse habitats colonize and compete in the mouse gut.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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inferred from PubMed ID database lookup

Isolation of bacteria from the ileal mucosa of TNFdeltaARE mice and description of Enterorhabdus mucosicola gen. nov., sp. nov.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Whole-genome prokaryotic phylogeny

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The mouse gut microbiome revisited: From complex diversity to model ecosystems.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

ASSOCIATION OF GERMFREE MICE WITH BACTERIA ISOLATED FROM NORMAL MICE

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The evolution of host specialization in the vertebrate gut symbiont Lactobacillus reuteri

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Genome sequence-based species delimitation with confidence intervals and improved distance functions

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A comprehensive repertoire of prokaryotic species identified in human beings

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

RNAmmer: consistent and rapid annotation of ribosomal RNA genes

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Diet-induced metabolic improvements in a hamster model of hypercholesterolemia are strongly linked to alterations of the gut microbiota

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

How informative is the mouse for human gut microbiota research?

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Abundant and diverse fungal microbiota in the murine intestine

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

QUAST: quality assessment tool for genome assemblies

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Human intestinal microbiota: characterization of a simplified and stable gnotobiotic rat model.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Search and clustering orders of magnitude faster than BLAST

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Bacteroides acidifaciens sp. nov., isolated from the caecum of mice

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Standardised animal models of host microbial mutualism

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

BLAST+: architecture and applications

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

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inferred from PubMed ID database lookup

Kraken: ultrafast metagenomic sequence classification using exact alignments

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Dietary history contributes to enterotype-like clustering and functional metagenomic content in the intestinal microbiome of wild mice.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

When should a DDH experiment be mandatory in microbial taxonomy?

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Gnotobiotic mouse model of phage-bacterial host dynamics in the human gut.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The Sequence Read Archive: explosive growth of sequencing data.

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

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SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Interleukin-1β (IL-1β) promotes susceptibility of Toll-like receptor 5 (TLR5) deficient mice to colitis.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Gut immune maturation depends on colonization with a host-specific microbiota

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

IMG ER: a system for microbial genome annotation expert review and curation

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Culturing of 'unculturable' human microbiota reveals novel taxa and extensive sporulation.

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A catalog of the mouse gut metagenome

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https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Production of butyrate from lysine and the Amadori product fructoselysine by a human gut commensal

1 reference

https://pubmed.ncbi.nlm.nih.gov/27670113

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Streptococcus danieliae sp. nov., a novel bacterium isolated from the caecum of a mouse.

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Parvibacter caecicola gen. nov., sp. nov., a bacterium of the family Coriobacteriaceae isolated from the caecum of a mouse

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Enterorhabdus caecimuris sp. nov., a member of the family Coriobacteriaceae isolated from a mouse model of spontaneous colitis, and emended description of the genus Enterorhabdus Clavel et al. 2009.

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Intestinimonas butyriciproducens gen. nov., sp. nov., a butyrate-producing bacterium from the mouse intestine.

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Murimonas intestini gen. nov., sp. nov., an acetate-producing bacterium of the family Lachnospiraceae isolated from the mouse gut.

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Acetatifactor muris gen. nov., sp. nov., a novel bacterium isolated from the intestine of an obese mouse

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Lactobacillus rodentium sp. nov., from the digestive tract of wild rodents.

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Lactobacillus apodemi sp. nov., a tannase-producing species isolated from wild mouse faeces

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Taxonomic Study of Helically Coiled, Sporeforming Anaerobes Isolated from the Intestines of Humans and Other Animals: Clostridium cocleatum sp. nov. and Clostridium spiroforme sp. nov.

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

MALDI-TOF Mass Spectrometry Applied to Classification and Identification of Bacteria

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Peptidoglycan Structure

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Fatty Acids, Antibiotic Resistance, and Deoxyribonucleic Acid Homology Groups of Bradyrhizobium japonicum

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

In vivo selection to identify bacterial strains with enhanced ecological performance in synbiotic applications.

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Highly parallelized inference of large genome-based phylogenies

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

based on heuristic

inferred from DOI database lookup

Rhizobium rhizolycopersici sp. nov., Isolated from the Rhizosphere Soil of Tomato Plants in China

1 reference

https://api.crossref.org/works/10.1038%2FNMICROBIOL.2016.131

7 January 2021

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10.1038/NMICROBIOL.2016.131

1 reference

Europe PubMed Central

6 September 2017

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Europe PubMed Central

6 September 2017

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