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    Illumina MiSeq Phylogenetic Amplicon Sequencing Shows a Large Reduction of an Uncharacterised Succinivibrionaceae and an Increase of the Methanobrevibacter gottschalkii Clade in Feed Restricted Cattle

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    Author
    McCabe, Matthew
    Cormican, Paul
    Keogh, Kate cc
    O'Connor, Aaron
    O'Hara, Eoin
    Palladino, Rafael Alejandro
    Kenny, David A.
    Waters, Sinead M.
    Keyword
    Periodic feed restriction
    Cattle
    compensatory growth
    Illumina MiSeq Phylogenetic Amplicon Sequencing
    Methanobrevibacter gottschalkii clade
    uncharacterised Succinivibrionaceae species
    acetate:propionate ratio
    feed efficiency
    Date
    2015-07-30
    
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    URI
    http://hdl.handle.net/11019/1516
    Citation
    McCabe MS, Cormican P, Keogh K, O’Connor A, O’Hara E, Palladino RA, et al. (2015) Illumina MiSeq Phylogenetic Amplicon Sequencing Shows a Large Reduction of an Uncharacterised Succinivibrionaceae and an Increase of the Methanobrevibacter gottschalkii Clade in Feed Restricted Cattle. PLoS ONE 10(7): e0133234. https://doi.org/10.1371/journal.pone.0133234
    Abstract
    Periodic feed restriction is used in cattle production to reduce feed costs. When normal feed levels are resumed, cattle catch up to a normal weight by an acceleration of normal growth rate, known as compensatory growth, which is not yet fully understood. Illumina Miseq Phylogenetic marker amplicon sequencing of DNA extracted from rumen contents of 55 bulls showed that restriction of feed (70% concentrate, 30% grass silage) for 125 days, to levels that caused a 60% reduction of growth rate, resulted in a large increase of relative abundance of Methanobrevibacter gottschalkii clade (designated as OTU-M7), and a large reduction of an uncharacterised Succinivibrionaceae species (designated as OTU-S3004). There was a strong negative Spearman correlation (ρ = -0.72, P = <1x10-20) between relative abundances of OTU-3004 and OTU-M7 in the liquid rumen fraction. There was also a significant increase in acetate:propionate ratio (A:P) in feed restricted animals that showed a negative Spearman correlation (ρ = -0.69, P = <1x10-20) with the relative abundance of OTU-S3004 in the rumen liquid fraction but not the solid fraction, and a strong positive Spearman correlation with OTU-M7 in the rumen liquid (ρ = 0.74, P = <1x10-20) and solid (ρ = 0.69, P = <1x10-20) fractions. Reduced A:P ratios in the rumen are associated with increased feed efficiency and reduced production of methane which has a global warming potential (GWP 100 years) of 28. Succinivibrionaceae growth in the rumen was previously suggested to reduce methane emissions as some members of this family utilise hydrogen, which is also utilised by methanogens for methanogenesis, to generate succinate which is converted to propionate. Relative abundance of OTU-S3004 showed a positive Spearman correlation with propionate (ρ = 0.41, P = <0.01) but not acetate in the liquid rumen fraction.
    Funder
    Science Foundation Ireland; Teagasc Walsh Fellowship Programme
    Grant Number
    SFI 09/RFP/GEN2447
    ae974a485f413a2113503eed53cd6c53
    https://doi.org/10.1371/journal.pone.0133234
    Scopus Count
    Collections
    Animal & Bioscience

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