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Insights into the ecological roles and evolution of methyl-coenzyme M reductase-containing hot spring Archaea

Author

Listed:
  • Zheng-Shuang Hua

    (Sun Yat-Sen University
    Dartmouth College)

  • Yu-Lin Wang

    (The University of Hong Kong)

  • Paul N. Evans

    (University of Queensland)

  • Yan-Ni Qu

    (Sun Yat-Sen University)

  • Kian Mau Goh

    (Universiti Teknologi Malaysia)

  • Yang-Zhi Rao

    (Sun Yat-Sen University)

  • Yan-Ling Qi

    (Sun Yat-Sen University)

  • Yu-Xian Li

    (Sun Yat-Sen University)

  • Min-Jun Huang

    (Dartmouth College)

  • Jian-Yu Jiao

    (Sun Yat-Sen University)

  • Ya-Ting Chen

    (Sun Yat-Sen University)

  • Yan-Ping Mao

    (The University of Hong Kong
    Shenzhen University)

  • Wen-Sheng Shu

    (South China Normal University)

  • Wael Hozzein

    (King Saud University
    Beni-Suef University)

  • Brian P. Hedlund

    (University of Nevada Las Vegas
    University of Nevada Las Vegas)

  • Gene W. Tyson

    (University of Queensland
    University of Queensland)

  • Tong Zhang

    (The University of Hong Kong)

  • Wen-Jun Li

    (Sun Yat-Sen University
    Key Laboratory of Biogeography and Bioresource in Arid Land, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences)

Abstract

Several recent studies have shown the presence of genes for the key enzyme associated with archaeal methane/alkane metabolism, methyl-coenzyme M reductase (Mcr), in metagenome-assembled genomes (MAGs) divergent to existing archaeal lineages. Here, we study the mcr-containing archaeal MAGs from several hot springs, which reveal further expansion in the diversity of archaeal organisms performing methane/alkane metabolism. Significantly, an MAG basal to organisms from the phylum Thaumarchaeota that contains mcr genes, but not those for ammonia oxidation or aerobic metabolism, is identified. Together, our phylogenetic analyses and ancestral state reconstructions suggest a mostly vertical evolution of mcrABG genes among methanogens and methanotrophs, along with frequent horizontal gene transfer of mcr genes between alkanotrophs. Analysis of all mcr-containing archaeal MAGs/genomes suggests a hydrothermal origin for these microorganisms based on optimal growth temperature predictions. These results also suggest methane/alkane oxidation or methanogenesis at high temperature likely existed in a common archaeal ancestor.

Suggested Citation

  • Zheng-Shuang Hua & Yu-Lin Wang & Paul N. Evans & Yan-Ni Qu & Kian Mau Goh & Yang-Zhi Rao & Yan-Ling Qi & Yu-Xian Li & Min-Jun Huang & Jian-Yu Jiao & Ya-Ting Chen & Yan-Ping Mao & Wen-Sheng Shu & Wael , 2019. "Insights into the ecological roles and evolution of methyl-coenzyme M reductase-containing hot spring Archaea," Nature Communications, Nature, vol. 10(1), pages 1-11, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-12574-y
    DOI: 10.1038/s41467-019-12574-y
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    Cited by:

    1. Bin Ma & Caiyu Lu & Yiling Wang & Jingwen Yu & Kankan Zhao & Ran Xue & Hao Ren & Xiaofei Lv & Ronghui Pan & Jiabao Zhang & Yongguan Zhu & Jianming Xu, 2023. "A genomic catalogue of soil microbiomes boosts mining of biodiversity and genetic resources," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    2. Yan-Ling Qi & Ya-Ting Chen & Yuan-Guo Xie & Yu-Xian Li & Yang-Zhi Rao & Meng-Meng Li & Qi-Jun Xie & Xing-Ru Cao & Lei Chen & Yan-Ni Qu & Zhen-Xuan Yuan & Zhi-Chao Xiao & Lu Lu & Jian-Yu Jiao & Wen-She, 2024. "Analysis of nearly 3000 archaeal genomes from terrestrial geothermal springs sheds light on interconnected biogeochemical processes," Nature Communications, Nature, vol. 15(1), pages 1-16, December.

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