Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.

Overview

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> 4,034
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>UP000001857
Taxonomy388396 - Aliivibrio fischeri (strain MJ11)
StrainMJ11
Last modifiedJuly 23, 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_000020845.1 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 Aliivibrio fischeri (strain ATCC 700601 / ES114) (Vibrio fischeri) pan proteome (fasta)
Buscoi <p>The Benchmarking Universal Single-Copy Ortholog (BUSCO) assessment tool is used, for eukaryotic and bacterial proteomes, to provide quantitative measures of UniProt proteome data completeness in terms of expected gene content. BUSCO scores include percentages of complete (C) single-copy (S) genes, complete (C) duplicated (D) genes, fragmented (F) and missing (F) genes, as well as the total number of orthologous clusters (n) used in the BUSCO assessment.</p> C:99.2%[S:99.1%,D:0.1%],F:0.1%,M:0.7%,n:1445 vibrionales_odb10
Completenessi <p>Complete Proteome Detector (CPD) is an algorithm which employs statistical evaluation of the completeness and quality of proteomes in UniProt, by looking at the sizes of taxonomically close proteomes. Possible values are 'Standard', 'Close to Standard' and 'Outlier'.</p> Close to Standard

Bacteria of the genus Vibrio are common and abundant in microbial communities associated with marine animals where they influence their hosts in important ways, either as coevolved beneficial symbionts or by causing diseases such as coral bleaching. These Vibrio-host interactions appear to play a critical role in the survival and dissemination of these bacteria in the marine environment.

The marine bacterium Vibrio fischeri is a specific symbiont in the light-emitting organs of certain squids and fishes where it produces luminescence through the expression of the lux operon. Luminescence is controlled by acyl-homoserine lactone quorum sensing. Strain MJ11 was collected in Japan.

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

Component nameGenome Accession(s)
Component representationProteins
Chromosome I2589
Chromosome II1250
Plasmid pMJ100195

Publications

  1. "Complete sequence of Vibrio fischeri strain MJ11."
    Mandel M.J., Stabb E.V., Ruby E.G., Ferriera S., Johnson J., Kravitz S., Beeson K., Sutton G., Rogers Y.-H., Friedman R., Frazier M., Venter J.C.
    Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
  2. "A single regulatory gene is sufficient to alter bacterial host range."
    Mandel M.J., Wollenberg M.S., Stabb E.V., Visick K.L., Ruby E.G.
    Nature 458:215-218(2009) [PubMed] [Europe PMC] [Abstract]
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

We'd like to inform you that we have updated our Privacy Notice to comply with Europe’s new General Data Protection Regulation (GDPR) that applies since 25 May 2018.

Do not show this banner again