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Genomic inference of the metabolism and evolution of the archaeal phylum Aigarchaeota

Author

Listed:
  • Zheng-Shuang Hua

    (Sun Yat-Sen University)

  • Yan-Ni Qu

    (Sun Yat-Sen University)

  • Qiyun Zhu

    (University of California San Diego)

  • En-Min Zhou

    (Sun Yat-Sen University)

  • Yan-Ling Qi

    (Sun Yat-Sen University)

  • Yi-Rui Yin

    (Sun Yat-Sen University)

  • Yang-Zhi Rao

    (Sun Yat-Sen University)

  • Ye Tian

    (Sun Yat-Sen University)

  • Yu-Xian Li

    (Sun Yat-Sen University)

  • Lan Liu

    (Sun Yat-Sen University)

  • Cindy J. Castelle

    (University of California, Berkeley)

  • Brian P. Hedlund

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

  • Wen-Sheng Shu

    (South China Normal University)

  • Rob Knight

    (University of California San Diego
    University of California San Diego
    University of California San Diego)

  • Wen-Jun Li

    (Sun Yat-Sen University
    Henan Normal University)

Abstract

Microbes of the phylum Aigarchaeota are widely distributed in geothermal environments, but their physiological and ecological roles are poorly understood. Here we analyze six Aigarchaeota metagenomic bins from two circumneutral hot springs in Tengchong, China, to reveal that they are either strict or facultative anaerobes, and most are chemolithotrophs that can perform sulfide oxidation. Applying comparative genomics to the Thaumarchaeota and Aigarchaeota, we find that they both originated from thermal habitats, sharing 1154 genes with their common ancestor. Horizontal gene transfer played a crucial role in shaping genetic diversity of Aigarchaeota and led to functional partitioning and ecological divergence among sympatric microbes, as several key functional innovations were endowed by Bacteria, including dissimilatory sulfite reduction and possibly carbon monoxide oxidation. Our study expands our knowledge of the possible ecological roles of the Aigarchaeota and clarifies their evolutionary relationship to their sister lineage Thaumarchaeota.

Suggested Citation

  • Zheng-Shuang Hua & Yan-Ni Qu & Qiyun Zhu & En-Min Zhou & Yan-Ling Qi & Yi-Rui Yin & Yang-Zhi Rao & Ye Tian & Yu-Xian Li & Lan Liu & Cindy J. Castelle & Brian P. Hedlund & Wen-Sheng Shu & Rob Knight & , 2018. "Genomic inference of the metabolism and evolution of the archaeal phylum Aigarchaeota," Nature Communications, Nature, vol. 9(1), pages 1-11, December.
  • Handle: RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-05284-4
    DOI: 10.1038/s41467-018-05284-4
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    Cited by:

    1. Steffen Buessecker & Marike Palmer & Dengxun Lai & Joshua Dimapilis & Xavier Mayali & Damon Mosier & Jian-Yu Jiao & Daniel R. Colman & Lisa M. Keller & Emily St. John & Michelle Miranda & Cristina Gon, 2022. "An essential role for tungsten in the ecology and evolution of a previously uncultivated lineage of anaerobic, thermophilic Archaea," Nature Communications, Nature, vol. 13(1), pages 1-13, 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.
    3. Paul O. Sheridan & Yiyu Meng & Tom A. Williams & Cécile Gubry-Rangin, 2023. "Genomics of soil depth niche partitioning in the Thaumarchaeota family Gagatemarchaeaceae," Nature Communications, Nature, vol. 14(1), pages 1-14, December.

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