Genomic insights into versatile lifestyle of three new bacterial candidate phyla
Genomic insights into versatile lifestyle of three new bacterial candidate phyla
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DOI：
10.1007/s11427-021-2037-x
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发表时间：
2022-01
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影响因子：
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通讯作者：
Xinxu Zhang;Zongbao Liu;Wei Xu;Jie Pan;Yuhan Huang;Mingwei Cai;Zhuhua Luo;Meng Li
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文献类型：
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作者：
Xinxu Zhang;Zongbao Liu;Wei Xu;Jie Pan;Yuhan Huang;Mingwei Cai;Zhuhua Luo;Meng Li
对地球生物圈的元基因组学探索使以前未知的具有系统发育和生态意义的细菌谱系得以发现。在这里，我们从YAP海沟的海水中检索到11个元基因组组装基因组(MAG)，隶属于三个新的单系细菌谱系。系统发育分析表明，每一支系都是一个新的候选菌门，分别命名为青海假丝酵母、黑龙江假丝酵母和苍龙假丝酵母。这三个门的基因组代谢重建表明，它们采取了一种多才多艺的生活方式，有可能通过厌氧途径利用各种类型的糖、蛋白质和/或短链脂肪酸。三个门的全球分布图进一步证实了这一点，表明它们更倾向于氧气受限或颗粒附着的生态位，如缺氧沉积环境。值得注意的是，假丝酵母基因组中含有完整的Wood-Ljugdahl途径和硫酸盐还原的基因，这些基因与一些硫酸盐还原细菌中发现的基因相似。进化分析表明，基因获得和丢失事件以及水平基因转移(HGT)在形成这三个新门的基因组和代谢特征方面起着重要作用。这项研究展示了三个新门的生态、新陈代谢和进化的基因组洞察力，拓宽了领域细菌内门水平的多样性。
Metagenomic explorations of the Earth’s biosphere enable the discovery of previously unknown bacterial lineages of phylogenetic and ecological significance. Here, we retrieved 11 metagenomic-assembled genomes (MAGs) affiliated to three new monophyletic bacterial lineages from the seawater of the Yap Trench. Phylogenomic analysis revealed that each lineage is a new bacterial candidate phylum, subsequently namedCandidatusQinglongiota,CandidatusHeilongiota, andCandidatusCanglongiota. Metabolic reconstruction of genomes from the three phyla suggested that they adopt a versatile lifestyle, with the potential to utilize various types of sugars, proteins, and/or short-chain fatty acids through anaerobic pathways. This was further confirmed by a global distribution map of the three phyla, indicating a preference for oxygen-limited or particle-attached niches, such as anoxic sedimentary environments. Of note,CandidatusCanglongiota genomes harbor genes for the complete Wood- Ljungdahl pathway and sulfate reduction that are similar to those identified in some sulfate-reducing bacteria. Evolutionary analysis indicated that gene gain and loss events, and horizontal gene transfer (HGT) play important roles in shaping the genomic and metabolic features of the three new phyla. This study presents the genomic insight into the ecology, metabolism, and evolution of three new phyla, which broadens the phylum-level diversity within the domain Bacteria.