skip to main content

Sequence Set Browser

 

ABEE00000000.2 Parvimonas micra ATCC 33270

Master
# of Contigs: 17
# of Proteins: 1,678
# of Scaffolds/Chrs: 16
Total length: 1,703,772 bp
BioProject: PRJNA18169
BioSample: SAMN00627099
Keywords: WGS
Annotation: Contigs
Organism: Parvimonas micra ATCC 33270show lineagehide lineage
Biosource:
/mol_type = genomic
/strain = ATCC 33270
/synonym = Peptostreptococcus micros ATCC 33270
WGS: ABEE02000001:ABEE02000017
Scaffolds: DS483504:DS483519
16 scaffolds, total length is 1,703,872 bases
Reference:
Draft genome sequence of Peptostreptococcus micros (ATCC 33270) : Unpublished – show 7 authorshide authors
Sudarsanam,P., Ley,R., Guruge,J., Turnbaugh,P.J., Mahowald,M., Liep,D., Gordon,J.
Submission:
Submitted (12-JUL-2007) Genome Sequencing Center, Washington University School of Medicine, 4444 Forest Park, St. Louis, MO 63108, USA – show 7 authorshide authors
Fulton,L., Clifton,S., Fulton,B., Xu,J., Minx,P., Mardis,E.R., Wilson,R.K.
Submission:
Submitted (07-SEP-2007) Genome Sequencing Center, Washington University School of Medicine, 4444 Forest Park, St. Louis, MO 63108, USA – show 12 authorshide authors
Fulton,L., Clifton,S., Fulton,B., Xu,J., Minx,P., Pepin,K.H., Johnson,M., Thiruvilangam,P., Bhonagiri,V., Nash,W.E., Mardis,E.R., Wilson,R.K.

On Sep 10, 2007 this sequence version replaced gi:152940663.

The Parvimonas micra ATCC 33270 whole genome shotgun (WGS) project has the project accession ABEE00000000. This version of the project (02) has the accession number ABEE02000000, and consists of sequences ABEE02000001-ABEE02000017.

Parvimonas micra (originally identified as Peptostreptococcus micros, GenBank Accession Number for 16S rRNA gene: AF542231) is a member of the division Firmicutes. In one comprehensive 16S rDNA sequence-based enumeration of the colonic microbiota of three healthy adult humans it represents, on average, 0.042% of all 16S rDNA sequences and 0.083% of the sequences in its division (Eckburg et. al. (2005)). The sequenced strain was obtained from ATCC (ATCC 33270). We have collected 15X 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 October 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.

Contigs
Proteins
Download
GenBank:ABEE02.1.gbff.gz 1.2 Mb
FASTA:ABEE02.1.fsa_nt.gz 494.5 kb
ASN.1:ABEE02.1.bbs.gz 931.5 kb