NZ_AAVP00000000.2 Ruminococcus torques ATCC 27756
On Apr 2, 2007 this sequence version replaced gi:125661039.
The Ruminococcus torques ATCC 27756 whole genome shotgun (WGS) project has the project accession NZ_AAVP00000000. This version of the project (02) has the accession number NZ_AAVP02000000, and consists of sequences AAVP02000001-AAVP02000064.
Ruminococcus torques (GenBank accession number for 16S rRNA gene:D14137) is a member of the division Firmicutes. It represents 0.5% of the total number of microbial 16S rDNA sequences found in a comprehensive enumeration study of the colonic and fecal microbiotas of three healthy adults (Eckburg et. al. Science 308, 1635 (2005)), and 0.9% ofthe sequences sequenced within its division. The sequenced strain was obtained from ATCC (ATCC# 27756). Analysis of this strain is part of a comprehensive, sequence-based survey of bacterial symbionts that inhabit the human intestine. The purpose of this survey, a joint effort of the WU-GSC and the Center for Genome Sciences at Washington University School of Medicine, 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 normal human gut microbiota. 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. 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. 15-20X sequence coverage of 454 reads and 4X sequence coverage of 3730 reads were collected. 454 reads were assembled using Newbler (454 Life Sciences) into 454 de novo contigs. These de novo contigs were converted to 800 bp linked reads ('superreads') with 400 bp overlap with neighboring linked reads, in silico. Finally, PCAP (Huang, et al, Genome Research, 13:2164, (2003)) was used to assemble the super-reads and the conventional 3730 reads. Coding sequences were predicted using GeneMark v3.3 and Glimmer2 v2.13. Intergenic regions not spanned by GeneMark and Glimmer2 were blasted against NCBI's non-redundant (NR) database and predictions generated based on protein alignments. RNA genes were determined using tRNAscan-SE 1.23 or Rfam v0.1. Gene names are generated at the contig level and may not necessarily reflect any known order or orientation between contigs. Annotation was added to the contigs in April 2007 This is a reference genome for the Human Microbiome Project. This project is co-owned with the Human Microbiome Project DACC.