Complete genome of a new Firmicutes species belonging to the dominant human colonic microbiota (“Ruminococcus bicirculans”) reveals two chromosomes and a selective capacity to utilize plant glucans

Udo Wegmann, Petra Louis, Alexander Goesmann, Bernard Henrissat, Sylvia H Duncan, Harry J Flint

Research output: Contribution to journalArticle

23 Citations (Scopus)

Abstract

The recently isolated bacterial strain 80/3 represents one of the most abundant 16S rRNA phylotypes detected in the healthy human large intestine and belongs to the Ruminococcaceae family of Firmicutes. The completed genome sequence reported here is the first for a member of this important family of bacteria from the human colon. The genome comprises two large chromosomes of 2.24 and 0.73 Mbp, leading us to propose the name Ruminococcus bicirculans for this new species. Analysis of the carbohydrate active enzyme complement suggests an ability to utilize certain hemicelluloses, especially β-glucans and xyloglucan, for growth that was confirmed experimentally. The enzymatic machinery enabling the degradation of cellulose and xylan by related cellulolytic ruminococci is however lacking in this species. While the genome indicated the capacity to synthesize purines, pyrimidines and all 20 amino acids, only genes for the synthesis of nicotinate, NAD+, NADP+ and coenzyme A were detected among the essential vitamins and co-factors, resulting in multiple growth requirements. In vivo, these growth factors must be supplied from the diet, host or other gut microorganisms. Other features of ecological interest include two type IV pilins, multiple extracytoplasmic function-sigma factors, a urease and a bile salt hydrolase.
Original languageEnglish
Pages (from-to)2879-2890
Number of pages12
JournalEnvironmental Microbiology
Volume16
Issue number9
Early online date6 Aug 2013
DOIs
Publication statusPublished - Sep 2014

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Ruminococcus
Firmicutes
Glucans
Microbiota
glucans
chromosome
genome
Chromosomes
choloylglycine hydrolase
Genome
new species
chromosomes
Fimbriae Proteins
sigma factors
Sigma Factor
Xylans
Pyrimidines
Purines
xyloglucans
Aptitude

Cite this

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title = "Complete genome of a new Firmicutes species belonging to the dominant human colonic microbiota (“Ruminococcus bicirculans”) reveals two chromosomes and a selective capacity to utilize plant glucans",
abstract = "The recently isolated bacterial strain 80/3 represents one of the most abundant 16S rRNA phylotypes detected in the healthy human large intestine and belongs to the Ruminococcaceae family of Firmicutes. The completed genome sequence reported here is the first for a member of this important family of bacteria from the human colon. The genome comprises two large chromosomes of 2.24 and 0.73 Mbp, leading us to propose the name Ruminococcus bicirculans for this new species. Analysis of the carbohydrate active enzyme complement suggests an ability to utilize certain hemicelluloses, especially β-glucans and xyloglucan, for growth that was confirmed experimentally. The enzymatic machinery enabling the degradation of cellulose and xylan by related cellulolytic ruminococci is however lacking in this species. While the genome indicated the capacity to synthesize purines, pyrimidines and all 20 amino acids, only genes for the synthesis of nicotinate, NAD+, NADP+ and coenzyme A were detected among the essential vitamins and co-factors, resulting in multiple growth requirements. In vivo, these growth factors must be supplied from the diet, host or other gut microorganisms. Other features of ecological interest include two type IV pilins, multiple extracytoplasmic function-sigma factors, a urease and a bile salt hydrolase.",
author = "Udo Wegmann and Petra Louis and Alexander Goesmann and Bernard Henrissat and Duncan, {Sylvia H} and Flint, {Harry J}",
note = "Funded by Biotechnology and Biological Sciences Research Council (BBSRC). Grant Number: BB/J004529/1 Scottish Government RESAS funding (Food, Land and People programme)",
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AU - Louis, Petra

AU - Goesmann, Alexander

AU - Henrissat, Bernard

AU - Duncan, Sylvia H

AU - Flint, Harry J

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