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ASM16947v1

Organism name:
Ruminococcus gnavus ATCC 29149
Infraspecific name:
Strain: ATCC 29149
BioSample:
SAMN00627102
Submitter:
Washington University Genome Sequencing Center
Date:
2007/05/09
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_000169475.1 (latest)
RefSeq assembly accession:
GCF_000169475.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AAYG02

IDs: 207398 [UID] 207378 [GenBank] 207398 [RefSeq]

See Genome Information for [Ruminococcus] gnavus

There are 3 assemblies for this organism

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History (Show revision history)

Comment

Ruminococcus gnavus (16S GenBank Accession Number: L76597) is a member of the division Firmicutes. It represents 0.085% of the total number of microbial 16S rDNA sequences found in the gut (Eckburg et. al. (2005)) and 0.167% of the genomes ... sequenced within its division. The sequenced strain was obtained from ATCC (ATCC 29149).

We have collected 8.7X coverage in plasmid end reads and 454 reads. We will be performing one round of automated sequence improvement (pre-finishing).

Sequencing/Assembly: The genomic DNA was purified from liquid culture derived from a single bacterial colony. A hybrid sequencing strategy that utilized reads from both 454 GS-20 and ABI 3730xl sequencers was devised and implemented to generate the draft genome sequences. 454 reads were assembled using Newbler (454 Life Sciences) into 454 de novo contigs. These de novo contigs were converted in silico to 800 base paired reads ('superreads') with 400 base overlaps with neighboring superreads. Finally, PCAP (Huang, et al, Genome Research, 13:2164, (2003)) was used to assemble the super-reads and the conventional 3730xl capillary reads.

This sequenced strain is part of a comprehensive, sequence-based survey of members of the normal human gut microbiota. A joint effort of the WU-GSC and the Center for Genome Sciences at Washington University School of Medicine, the purpose of this survey is to provide the general scientific community with a broad view of the gene content of 100 representatives of the major divisions represented in the intestine's microbial community. This information should provide a frame of reference for analyzing metagenomic studies of the human gut microbiome. Further details of this effort are described in a white paper entitled "Extending Our View of Self: the Human Gut Microbiome Initiative (HGMI)" (http://www.genome.gov/Pages/Research/Sequencing/SeqProposals/HGMISeq.pdf). These studies are supported by National Human Genome Research Institute.

For answers to your questions regarding this assembly or project, or any other GSC genome project, please visit our Genome Groups web page (http://genome.wustl.edu/genome_group_index.cgi) and email the designated contact person.

Annotation was added to the contigs in July 2007, and the CDS comments were updated in January 2008.

This is a reference genome for the Human Microbiome Project. This project is co-owned with the Human Microbiome Project DACC.
Product names were updated in August 2012  more

Global statistics

Total sequence length3,501,911
Total assembly gap length0
Number of contigs43
Contig N50162,619
Contig L508
Total number of chromosomes and plasmids0

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This assembly only contains unplaced WGS contigs. The WGS contigs can be viewed in the WGS Browser.

Download the full sequence report