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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> 1,980
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="">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>UP000002419
Taxonomy205913 - Bifidobacterium longum (strain DJO10A)
Last modifiedNovember 5, 2020
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="">more...</a>)</p> GCA_000008945.1 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 Bifidobacterium longum (strain NCC 2705) 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:89%[S:88.5%,D:0.6%],F:1.7%,M:9.3%,n:356 actinobacteria_phylum_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

Bifidobacterium longum is an anaerobic, non-halophilic, Gram-positive bacterium that is commonly found in the intestines of humans and most animals and insects. They were first isolated and described over one hundred years ago from human feces and were quickly associated with a healthy gastrointestinal tract (GIT) due to their numerical dominance in breast fed infants compared to bottle fed infants. It is important for establishing and maintaining homeostasis of the intestinal ecosystem to allow for normal digestion. B. longum is characterized by a unique hexose metabolism that occurs via a phosphoketolase pathway often termed the bifid shunt. Fructose-6-phosphate phosphoketolase (F6PPK) is a key enzyme of the bifid shunt and its presence is the most common diagnostic test for this genus, as it is not present in other Gram-positive intestinal bacteria. B. longum is often the dominant species detected in humans and is the only species to regularly harbor plasmids. It is a leading member of the probiotic bacteria due to numerous studies that have provided a growing body of evidence for its role in a myriad of potential health benefits. These include diarrhea prevention in antibiotic treated patients, cholesterol reduction, alleviation of lactose intolerance symptoms, immune stimulation and cancer prevention. The stabilizing effect on GIT microflora is attributed to the capacity of bifidobacterium to produce bacteriocins, which are bacteriostatic agents with a broad spectrum of action, and to their pH-reducing activity. Selection of suitable strains for probiotic purposes is very difficult as inherent characteristics of strains of B. longum that are necessary for its survival and competition in the human large intestine are currently very poorly understood. The use of the sequenced genome in microarray analysis reveals pertinent traits that are important to attain dominance in these complex ecosystems. In Bifidobacterium longum (strain DJO10A), the deletion of genomic regions, often facilitated by mobile elements, allows to adapt to fermentation environments in a very rapid manner (2 genome deletions per 1,000 generations) and the concomitant loss of possible competitive abilities in the gut.

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

Component nameGenome Accession(s)
Component representationProteins
Plasmid pDOJH10L10
Plasmid pDOJH10S3


  1. "Sequence analysis of two cryptic plasmids from Bifidobacterium longum DJO10A and construction of a shuttle cloning vector."
    Lee J.H., O'Sullivan D.J.
    Appl. Environ. Microbiol. 72:527-535(2006) [PubMed] [Europe PMC] [Abstract]
  2. "Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth."
    Lee J.H., Karamychev V.N., Kozyavkin S.A., Mills D., Pavlov A.R., Pavlova N.V., Polouchine N.N., Richardson P.M., Shakhova V.V., Slesarev A.I., Weimer B., O'Sullivan D.J.
    BMC Genomics 9:247-247(2008) [PubMed] [Europe PMC] [Abstract]
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