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Due to a server migration, the UniProt 'ID mapping', 'Peptide search' and 'community bibliography submission' tools will not be available on the 19th April 2021 during the morning (EST).

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> 5,712
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>UP000002704
Taxonomy205922 - Pseudomonas fluorescens (strain Pf0-1)
StrainPf0-1
Last modifiedJanuary 29, 2021
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="https://www.ensembl.org/Help/Faq?id=216">more...</a>)</p> GCA_000012445.1 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 Pseudomonas fluorescens (strain F113) 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:100%[S:99.9%,D:0.1%],F:0%,M:0%,n:782 pseudomonadales_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> Standard

Pseudomonas fluorescens is a is a physiologically diverse species of opportunistic bacteria that colonizes soil, water and plant surface environments. Some isolates, such as SBW25 and Pf-5, are beneficial to plant health and nutrition. It produces a soluble, greenish fluorescent pigment, particularly under conditions of low iron availability. It is a obligate aerobe, except for some strains that can utilize NO3 as an electron acceptor in place of O2. It is motile by means of multiple polar flagella. It has simple nutritional requirements and grows well in mineral salts media supplemented with any of a large number of carbon sources. Pseudomonas fluorescens strains are being studied for use in applications that require release and survival of bacteria in the soil such as bioremediation of various organic compounds, and biocontrol of pathogens in agriculture. A number of strains suppress plant diseases by protecting the seeds and roots from fungal infection. Competitive exclusion of pathogens as the result of rapid colonization of the rhizosphere by Pseudomonas fluorescens may also be an important factor in disease control.

Pseudomonas fluorescens (strain Pf0-1) was isolated from in 1987 from loam soil in Sherborn, Massachusetts, USA. Comparisons of the 3 available strains (as of June 2009, SBW25, Pf-5 and Pf0-1) indicate they share only 61% of their genes, most of which cluster near the origin of replication. In fact, the three P. fluorescens strains could be different species. 125 SBW25 genes have been shown to be upregulated in the presence of plants; 83 have orthologs in Pf0-1 and 73 have orthologs in Pf-5.

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

Component nameGenome Accession(s)
Component representationProteins
Chromosome5712
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Main funding by: National Institutes of Health

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