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  • Journal article
    Sim K, Cox MJ, Wopereis H, Martin R, Knol J, Li MS, Cookson WO, Moffatt MF, Kroll JSet al., 2012,

    Improved Detection of Bifidobacteria with Optimised 16S rRNA-Gene Based Pyrosequencing

    , PLoS One, Vol: 7, Pages: e32543-e32543

    The 16S rRNA gene is conserved across all bacteria and as such is routinely targeted in PCR surveys of bacterial diversity. PCR primer design aims to amplify as many different 16S rRNA gene sequences from as wide a range of organisms as possible, though there are no suitable 100% conserved regions of the gene, leading to bias. In the gastrointestinal tract, bifidobacteria are a key genus, but are often under-represented in 16S rRNA surveys of diversity. We have designed modified, 'bifidobacteria-optimised' universal primers, which we have demonstrated detection of bifidobacterial sequence present in DNA mixtures at 2% abundance, the lowest proportion tested. Optimisation did not compromise the detection of other organisms in infant faecal samples. Separate validation using fluorescence in situ hybridisation (FISH) shows that the proportions of bifidobacteria detected in faecal samples were in agreement with those obtained using 16S rRNA based pyrosequencing. For future studies looking at faecal microbiota, careful selection of primers will be key in order to ensure effective detection of bifidobacteria.
  • Journal article
    Mestdagh R, Dumas M-E, Rezzi S, Kochhar S, Holmes E, Claus SP, Nicholson JKet al., 2012,

    Gut Microbiota Modulate the Metabolism of Brown Adipose Tissue in Mice

    , JOURNAL OF PROTEOME RESEARCH, Vol: 11, Pages: 620-630, ISSN: 1535-3893
  • Journal article
    Dumas M-E, 2011,

    The Microbial-Mammalian Metabolic Axis: Beyond Simple Metabolism

    , CELL METABOLISM, Vol: 13, Pages: 489-490, ISSN: 1550-4131
  • Conference paper
    Molyneaux PL, Mallia P, Duff RM, Moffatt MF, Cookson WO, Johnston SLet al., 2011,

    Investigating The Role Of Rhinovirus Infection In Precipitating Bacterial Infections In COPD Using Culture Independent Molecular Microbiology

    , Publisher: AMER THORACIC SOC, ISSN: 1073-449X
  • Journal article
    Rezzonico E, Mestdagh R, Delley M, Combremont S, Dumas M-E, Holmes E, Nicholson J, Bibiloni Ret al., 2011,

    Bacterial adaptation to the gut environment favors successful colonization Microbial and metabonomic characterization of a simplified microbiota mouse model

    , GUT MICROBES, Vol: 2, Pages: 307-318, ISSN: 1949-0976
  • Journal article
    Hilty M, Burke C, Pedro H, Cardenas P, Bush A, Bossley C, Davies J, Ervine A, Poulter L, Pachter L, Moffatt MF, Cookson WOCet al., 2010,

    Disordered Microbial Communities in Asthmatic Airways

    , PLOS ONE, Vol: 5, ISSN: 1932-6203
  • Journal article
    Dumas ME, Wilder SP, Bihoreau MT, Barton RH, Fearnside JF, Argoud K, D'Amato L, Wallis RH, Blancher C, Keun HC, Baunsgaard D, Scott J, Sidelmann UG, Nicholson JK, Gauguier Det al., 2007,

    Direct quantitative trait locus mapping of mammalian metabolic phenotypes in diabetic and normoglycemic rat models

    , Nat Genet, Vol: 39, Pages: 666-672, ISSN: 1061-4036
  • Journal article
    Dumas M-E, Barton RH, Toye A, Cloarec O, Blancher C, Rothwell A, Fearnside J, Tatoud R, Blanc V, Lindon JC, Mitchell SC, Holmes E, McCarthy MI, Scott J, Gauguier D, Nicholson Jet al., 2006,

    Metabolic profiling reveals a contribution of gut microbiota to fatty liver phenotype in insulin-resistant mice

    , Proc Natl Acad Sci, Vol: 103, Pages: 12511-12516, ISSN: 0027-8424

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