Genomic analysis of three Bifidobacterium species isolated from the calf gastrointestinal tract

Kelly, William J.; Cookson, Adrian L.; Altermann, Eric; Lambie, Suzanne C.; Perry, Rechelle; Teh, Koon Hoong; Otter, Don E.; Shapiro, Nicole; Woyke, Tanja; Leahy, Sinead C.

doi:10.1038/srep30768

Title: Genomic analysis of three Bifidobacterium species isolated from the calf gastrointestinal tract

Journal Article · Fri Jul 29 00:00:00 EDT 2016 · Scientific Reports

DOI: https://doi.org/10.1038/srep30768 · OSTI ID:1379531

Kelly, William J. ^[1]; Cookson, Adrian L. ^[1]; Altermann, Eric ^[1]; Lambie, Suzanne C. ^[1]; Perry, Rechelle ^[1]; Teh, Koon Hoong ^[1]; Otter, Don E. ^[1]; Shapiro, Nicole ^[2]; Woyke, Tanja ^[2]; Leahy, Sinead C. ^[1]

Grasslands Research Centre, Palmerston North (New Zealand)
USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)

Ruminant animals contribute significantly to the global value of agriculture and rely on a complex microbial community for efficient digestion. However, little is known of how this microbial-host relationship develops and is maintained. To begin to address this, we have determined the ability of three Bifidobacterium species isolated from the faeces of newborn calves to grow on carbohydrates typical of a newborn ruminant diet. Genome sequences have been determined for these bacteria with analysis of the genomes providing insights into the host association and identification of several genes that may mediate interactions with the ruminant gastrointestinal tract. The present study provides a starting point from which we can define the role of potential beneficial microbes in the nutrition of young ruminants and begin to influence the interactions between the microbiota and the host. The differences observed in genomic content hint at niche partitioning among the bifidobacterial species analysed and the different strategies they employ to successfully adapt to this habitat.

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Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1379531

Journal Information:: Scientific Reports, Journal Name: Scientific Reports Journal Issue: 1 Vol. 6; ISSN 2045-2322

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04 Andersen, Joakim Mark; Barrangou, Rodolphe; Abou Hachem, Maher BMC Genomics, Vol. 14, Issue 1 https://doi.org/10.1186/1471-2164-14-312	journal	January 2013
Genetic analysis and morphological identification of pilus-like structures in members of the genus Bifidobacterium Foroni, Elena; Serafini, Fausta; Amidani, Davide Microbial Cell Factories, Vol. 10, Issue Suppl 1 https://doi.org/10.1186/1475-2859-10-S1-S16	journal	January 2011
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The Genome Sequence of the Rumen Methanogen Methanobrevibacter ruminantium Reveals New Possibilities for Controlling Ruminant Methane Emissions Leahy, Sinead C.; Kelly, William J.; Altermann, Eric PLoS ONE, Vol. 5, Issue 1 https://doi.org/10.1371/journal.pone.0008926	journal	January 2010
The ESX System in Bacillus subtilis Mediates Protein Secretion Huppert, Laura A.; Ramsdell, Talia L.; Chase, Michael R. PLoS ONE, Vol. 9, Issue 5 https://doi.org/10.1371/journal.pone.0096267	journal	May 2014
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Bifidobacterial Enzymes Involved in the Metabolism of Human Milk Oligosaccharides Kitaoka, Motomitsu Advances in Nutrition, Vol. 3, Issue 3 https://doi.org/10.3945/an.111.001420	journal	May 2012

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Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains Arboleya, Silvia; Bottacini, Francesca; O’Connell-Motherway, Mary BMC Genomics, Vol. 19, Issue 1 https://doi.org/10.1186/s12864-017-4388-9	journal	January 2018
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Xylo- and arabinoxylooligosaccharides from wheat bran by endoxylanases, utilisation by probiotic bacteria, and structural studies of the enzymes Mathew, Sindhu; Aronsson, Anna; Karlsson, Eva Nordberg Applied Microbiology and Biotechnology, Vol. 102, Issue 7 https://doi.org/10.1007/s00253-018-8823-x	journal	February 2018
Bile salt hydrolase activity is present in nonintestinal lactic acid bacteria at an intermediate level Ru, Xiao; Zhang, Chuang-Chuang; Yuan, Ya-Hong Applied Microbiology and Biotechnology, Vol. 103, Issue 2 https://doi.org/10.1007/s00253-018-9492-5	journal	November 2018
Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains Arboleya, Silvia; Bottacini, Francesca; O’Connell-Motherway, Mary BMC Genomics, Vol. 19, Issue 1 https://doi.org/10.1186/s12864-017-4388-9	journal	January 2018
Characterization and Exploitation of CRISPR Loci in Bifidobacterium longum Hidalgo-Cantabrana, Claudio; Crawley, Alexandra B.; Sanchez, Borja Frontiers in Microbiology, Vol. 8 https://doi.org/10.3389/fmicb.2017.01851	journal	September 2017

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