Host genetics and the rumen microbiome jointly associate with methane emissions in dairy cows

Gareth Frank Difford*, Damian Rafal Plichta, Peter Løvendahl, Jan Lassen, Samantha Joan Noel, Ole Højberg, André-Denis G. Wright, Zhigang Zhu, Lise Kristensen, Henrik Bjørn Nielsen, Bernt Guldbrandtsen, Goutam Sahana, Tosso Leeb

*Corresponding author for this work

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    Abstract

    Cattle and other ruminants produce large quantities of methane (~110 million metric tonnes per annum), which is a potent greenhouse gas affecting global climate change. Methane (CH4) is a natural by-product of gastro-enteric microbial fermentation of feedstuffs in the rumen and contributes to 6% of total CH4 emissions from anthropogenic-related sources. The extent to which the host genome and rumen microbiome influence CH4 emission is not yet well known. This study confirms individual variation in CH4 production was influenced by individual host (cow) genotype, as well as the host's rumen microbiome composition. Abundance of a small proportion of bacteria and archaea taxa were influenced to a limited extent by the host's genotype and certain taxa were associated with CH4 emissions. However, the cumulative effect of all bacteria and archaea on CH4 production was 13%, the host genetics (heritability) was 21% and the two are largely independent. This study demonstrates variation in CH4 emission is likely not modulated through cow genetic effects on the rumen microbiome. Therefore, the rumen microbiome and cow genome could be targeted independently, by breeding low methane-emitting cows and in parallel, by investigating possible strategies that target changes in the rumen microbiome to reduce CH4 emissions in the cattle industry.
    Original languageEnglish
    Article numbere1007580
    JournalPLOS Genetics
    Volume14
    Issue number10
    Number of pages22
    ISSN1553-7390
    DOIs
    Publication statusPublished - 2018

    Cite this

    Difford, G. F., Plichta, D. R., Løvendahl, P., Lassen, J., Noel, S. J., Højberg, O., ... Leeb, T. (2018). Host genetics and the rumen microbiome jointly associate with methane emissions in dairy cows. PLOS Genetics, 14(10), [e1007580]. https://doi.org/10.1371/journal.pgen.1007580
    Difford, Gareth Frank ; Plichta, Damian Rafal ; Løvendahl, Peter ; Lassen, Jan ; Noel, Samantha Joan ; Højberg, Ole ; Wright, André-Denis G. ; Zhu, Zhigang ; Kristensen, Lise ; Nielsen, Henrik Bjørn ; Guldbrandtsen, Bernt ; Sahana, Goutam ; Leeb, Tosso. / Host genetics and the rumen microbiome jointly associate with methane emissions in dairy cows. In: PLOS Genetics. 2018 ; Vol. 14, No. 10.
    @article{c2e5a020aeb043bfb4db8f9ad5b841ff,
    title = "Host genetics and the rumen microbiome jointly associate with methane emissions in dairy cows",
    abstract = "Cattle and other ruminants produce large quantities of methane (~110 million metric tonnes per annum), which is a potent greenhouse gas affecting global climate change. Methane (CH4) is a natural by-product of gastro-enteric microbial fermentation of feedstuffs in the rumen and contributes to 6{\%} of total CH4 emissions from anthropogenic-related sources. The extent to which the host genome and rumen microbiome influence CH4 emission is not yet well known. This study confirms individual variation in CH4 production was influenced by individual host (cow) genotype, as well as the host's rumen microbiome composition. Abundance of a small proportion of bacteria and archaea taxa were influenced to a limited extent by the host's genotype and certain taxa were associated with CH4 emissions. However, the cumulative effect of all bacteria and archaea on CH4 production was 13{\%}, the host genetics (heritability) was 21{\%} and the two are largely independent. This study demonstrates variation in CH4 emission is likely not modulated through cow genetic effects on the rumen microbiome. Therefore, the rumen microbiome and cow genome could be targeted independently, by breeding low methane-emitting cows and in parallel, by investigating possible strategies that target changes in the rumen microbiome to reduce CH4 emissions in the cattle industry.",
    author = "Difford, {Gareth Frank} and Plichta, {Damian Rafal} and Peter L{\o}vendahl and Jan Lassen and Noel, {Samantha Joan} and Ole H{\o}jberg and Wright, {Andr{\'e}-Denis G.} and Zhigang Zhu and Lise Kristensen and Nielsen, {Henrik Bj{\o}rn} and Bernt Guldbrandtsen and Goutam Sahana and Tosso Leeb",
    year = "2018",
    doi = "10.1371/journal.pgen.1007580",
    language = "English",
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    Difford, GF, Plichta, DR, Løvendahl, P, Lassen, J, Noel, SJ, Højberg, O, Wright, A-DG, Zhu, Z, Kristensen, L, Nielsen, HB, Guldbrandtsen, B, Sahana, G & Leeb, T 2018, 'Host genetics and the rumen microbiome jointly associate with methane emissions in dairy cows', PLOS Genetics, vol. 14, no. 10, e1007580. https://doi.org/10.1371/journal.pgen.1007580

    Host genetics and the rumen microbiome jointly associate with methane emissions in dairy cows. / Difford, Gareth Frank; Plichta, Damian Rafal; Løvendahl, Peter; Lassen, Jan; Noel, Samantha Joan; Højberg, Ole; Wright, André-Denis G.; Zhu, Zhigang; Kristensen, Lise; Nielsen, Henrik Bjørn; Guldbrandtsen, Bernt; Sahana, Goutam; Leeb, Tosso.

    In: PLOS Genetics, Vol. 14, No. 10, e1007580, 2018.

    Research output: Contribution to journalJournal articleResearchpeer-review

    TY - JOUR

    T1 - Host genetics and the rumen microbiome jointly associate with methane emissions in dairy cows

    AU - Difford, Gareth Frank

    AU - Plichta, Damian Rafal

    AU - Løvendahl, Peter

    AU - Lassen, Jan

    AU - Noel, Samantha Joan

    AU - Højberg, Ole

    AU - Wright, André-Denis G.

    AU - Zhu, Zhigang

    AU - Kristensen, Lise

    AU - Nielsen, Henrik Bjørn

    AU - Guldbrandtsen, Bernt

    AU - Sahana, Goutam

    AU - Leeb, Tosso

    PY - 2018

    Y1 - 2018

    N2 - Cattle and other ruminants produce large quantities of methane (~110 million metric tonnes per annum), which is a potent greenhouse gas affecting global climate change. Methane (CH4) is a natural by-product of gastro-enteric microbial fermentation of feedstuffs in the rumen and contributes to 6% of total CH4 emissions from anthropogenic-related sources. The extent to which the host genome and rumen microbiome influence CH4 emission is not yet well known. This study confirms individual variation in CH4 production was influenced by individual host (cow) genotype, as well as the host's rumen microbiome composition. Abundance of a small proportion of bacteria and archaea taxa were influenced to a limited extent by the host's genotype and certain taxa were associated with CH4 emissions. However, the cumulative effect of all bacteria and archaea on CH4 production was 13%, the host genetics (heritability) was 21% and the two are largely independent. This study demonstrates variation in CH4 emission is likely not modulated through cow genetic effects on the rumen microbiome. Therefore, the rumen microbiome and cow genome could be targeted independently, by breeding low methane-emitting cows and in parallel, by investigating possible strategies that target changes in the rumen microbiome to reduce CH4 emissions in the cattle industry.

    AB - Cattle and other ruminants produce large quantities of methane (~110 million metric tonnes per annum), which is a potent greenhouse gas affecting global climate change. Methane (CH4) is a natural by-product of gastro-enteric microbial fermentation of feedstuffs in the rumen and contributes to 6% of total CH4 emissions from anthropogenic-related sources. The extent to which the host genome and rumen microbiome influence CH4 emission is not yet well known. This study confirms individual variation in CH4 production was influenced by individual host (cow) genotype, as well as the host's rumen microbiome composition. Abundance of a small proportion of bacteria and archaea taxa were influenced to a limited extent by the host's genotype and certain taxa were associated with CH4 emissions. However, the cumulative effect of all bacteria and archaea on CH4 production was 13%, the host genetics (heritability) was 21% and the two are largely independent. This study demonstrates variation in CH4 emission is likely not modulated through cow genetic effects on the rumen microbiome. Therefore, the rumen microbiome and cow genome could be targeted independently, by breeding low methane-emitting cows and in parallel, by investigating possible strategies that target changes in the rumen microbiome to reduce CH4 emissions in the cattle industry.

    U2 - 10.1371/journal.pgen.1007580

    DO - 10.1371/journal.pgen.1007580

    M3 - Journal article

    VL - 14

    JO - P L o S Genetics

    JF - P L o S Genetics

    SN - 1553-7390

    IS - 10

    M1 - e1007580

    ER -

    Difford GF, Plichta DR, Løvendahl P, Lassen J, Noel SJ, Højberg O et al. Host genetics and the rumen microbiome jointly associate with methane emissions in dairy cows. PLOS Genetics. 2018;14(10). e1007580. https://doi.org/10.1371/journal.pgen.1007580