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Overview

StatusReference proteome
Proteinsi <p>Number of protein entries associated with this proteome: UniProtKB entries for regular proteomes or UniParc entries for redundant proteomes (<a href="/help/proteome%5Fredundancy">more...</a>)</p> 1,487
Gene counti <p>This is the total number of unique genes found in the proteome set, algorithmically computed. For each gene, a single representative protein sequence is chosen from the proteome. Where possible, reviewed (Swiss-Prot) protein sequences are chosen as the representatives.</p> - Download one protein sequence per gene (FASTA)
Proteome IDi <p>The proteome identifier (UPID) is the unique identifier assigned to the set of proteins that constitute the <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a>. It consists of the characters 'UP' followed by 9 digits, is stable across releases and can therefore be used to cite a UniProt proteome.<p><a href='/help/proteome_id' target='_top'>More...</a></p>UP000001636
Taxonomy1029718 - Arthromitus sp. (strain SFB-mouse-Japan)
StrainSFB-mouse-Japan
Last modifiedJanuary 15, 2020
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="https://www.ensembl.org/Help/Faq?id=216">more...</a>)</p> GCA_000270205.1 from ENA/EMBL full
Pan proteomei <p>A pan proteome is the full set of proteins thought to be expressed by a group of highly related organisms (e.g. multiple strains of the same bacterial species).<p><a href='/help/pan_proteomes' target='_top'>More...</a></p> This proteome is part of the Arthromitus sp. (strain SFB-mouse-Japan) pan proteome (fasta)
BuscoC:89.8%[S:89.8%,D:0%],F:2.4%,M:7.9%,n:254
CompletenessStandard

Segmented filamentous bacteria (SFBs), which are clostridia-related Gram-positive bacteria, are non-culturable inhabitants of the terminal ilea of the mammalian intestine well known for their unique morphology and tight attachment to intestinal epithelial cells. Their characteristic prevalence at weaning periods and unique morphology of being tightly attached to the epithelial cells around Peyer's patches strongly suggest their involvement in the post-natal maturation of the gut immune system, especially the induction of Th17 lymphocytes (proinflammatory T helper lymphocytes). This mouse SFB genome comprises a single circular chromosome which lacks genes for the biosynthesis of almost all amino acids, vitamins/cofactors and nucleotides, but contains a full set of genes for sporulation/germination and, unexpectedly, for chemotaxis/flagella-based motility. These findings suggest a hitherto unsuspected triphasic lifestyle of the SFB, which comprises two types of vegetative (swimming and epicellular parasitic) phases and a dormant (spore) phase. SFBs encode four types of flagellin, three of which are recognized by Toll-like receptor 5 and could elicit the innate immune response (adapted from PMID 21791478).

Componentsi <p>Genomic components encoding the proteome</p>

Component nameGenome Accession(s)
Component representationProteins
Chromosome1487

Publications

  1. "The lifestyle of the segmented filamentous bacterium: a non-culturable gut-associated immunostimulating microbe inferred by whole-genome sequencing."
    Kuwahara T., Ogura Y., Oshima K., Kurokawa K., Ooka T., Hirakawa H., Itoh T., Nakayama-Imaohji H., Ichimura M., Itoh K., Ishifune C., Maekawa Y., Yasutomo K., Hattori M., Hayashi T.
    DNA Res. 18:291-303(2011) [PubMed] [Europe PMC] [Abstract]
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