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Comparison of the Complete Genome Sequences of Bifidobacterium animalis subsp. lactis DSM 10140 and Bl04

Comparison of the Complete Genome Sequences of Bifidobacterium animalis subsp. lactis DSM 10140 and Bl04,10.1128/JB.00155-09,Journal of Bacteriology,R

Comparison of the Complete Genome Sequences of Bifidobacterium animalis subsp. lactis DSM 10140 and Bl04   (Citations: 15)
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Bifidobacteria are important members of the human gut flora, especially in infants. Comparative genomic analysis of two Bifidobacterium animalis subsp. lactis strains revealed evolution by internal deletion of consec- utive spacer-repeat units within a novel clustered regularly interspaced short palindromic repeat locus, which represented the largest differential content between the two genomes. Additionally, 47 single nucleotide polymorphisms were identified, consisting primarily of nonsynonymous mutations, indicating positive selection and/or recent divergence. A particular nonsynonymous mutation in a putative glucose transporter was linked to a negative phenotypic effect on the ability of the variant to catabolize glucose, consistent with a modification in the predicted protein transmembrane topology. Comparative genome sequence analysis of three Bifidobac- terium species provided a core genome set of 1,117 orthologs complemented by a pan-genome of 2,445 genes. The genome sequences of the intestinal bacterium B. animalis subsp. lactis provide insights into rapid genome evolution and the genetic basis for adaptation to the human gut environment, notably with regard to catabolism of dietary carbohydrates, resistance to bile and acid, and interaction with the intestinal epithelium. The high degree of genome conservation observed between the two strains in terms of size, organization, and sequence is indicative of a genomically monomorphic subspecies and explains the inability to differentiate the strains by standard techniques such as pulsed-field gel electrophoresis.
Journal: Journal of Bacteriology - J BACTERIOL , vol. 191, no. 13, pp. 4144-4151, 2009
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    • ...lactis (DSM10140, AD011, Bl-04 and Bb12) [5, 30, 53], B. bifidum PRL2010 [136], B. dentium Bd1 [152] and the unpublished genome of B. breve UCC2003 strain have been completely sequenced and annotated (Table 3). An additional 12 bifidobacterial genome drafts are currently present in the database of the National Center for Biotechnology Information (NCBI) [131]...
    • ...The gene content of a bifidobacterial genome seems to reflect its adaptation to the human GIT environment, as is evident from the presence of genes that encode a variety of carbohydrate-modifying enzymes, such as glycosyl hydrolases, sugar ABC transporters, and PEP-PTS (PEP— phosphoenolpyruvate; PTS—phosphotransferase system) components, all of which are required for the metabolism of plant- and host-derived carbohydrates [5, 53, 63, 124]...
    • ...lactis, whose genome is significantly smaller than that of B. longum, has a lower number of genes involved in the utilization of carbon sources, does not encode PEP-PTS systems and contains only two genes specifying carbohydrate-specific ATP-binding proteins typical of ABC transporters [5]...
    • ...lactis strains and B. breve UCC2003, on the other hand, do not appear to encode the genes that allow HMO degradation, but instead are able to degrade complex plant-derived oligosaccharides, a clear indication of niche-specific adaptation [5, 87, 98, 113]...

    Karina Pokusaevaet al. Carbohydrate metabolism in Bifidobacteria

    • ... lactis have also recently been reporte...

    Alan Walker. Milk and two oligosaccharides

    • ...These inducible stress responses are characterized by the transient induction of genes that encode general and specific stress proteins (e.g., chaperones and ATP-dependent proteases) and corresponding regulatory proteins [3, 16, 21, 32, 34, 46, 47]...
    • ...lactis BL-04 Industrial probiotic strain [3]...
    • ...DSM 10140 Industrial probiotic and type strain [3] RH-1 Industrial probiotic strain...
    • ...DSM 10140, B. lactis BL-04, B. longum NCC2705, and B. infantis ATCC 15697 showed they each lacked genes for the classical oxidative stress response enzymes superoxide dismutase, catalase, and a true peroxidase [3, 38]...
    • ...Interestingly, comparison of the whole genome sequence of B. lactis BL-04 and B. lactis DSM 10140 shows that they are almost identical [3]...

    T. S. Oberget al. Intrinsic and inducible resistance to hydrogen peroxide in Bifidobacte...

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