水螅中不同进化起源的多种非经典电子分叉[FeFe]-氢酶。

IF 5 2区 生物学 Q1 MICROBIOLOGY
mSystems Pub Date : 2024-09-17 Epub Date: 2024-08-27 DOI:10.1128/msystems.00999-24
Xiaowei Zheng, Li Huang
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引用次数: 0

摘要

Hydrogenedentota是一个分布于全球的细菌门级分支,但人们对其了解甚少。在这里,我们建立了一个全面的水生细菌(Hydrogenedentota)基因组目录,共包括 7 个支系(或科)179 个基因组,并探索了这些生物的代谢潜力和进化历史。我们发现,单个基因组(尤其是属于第6支系的基因组)往往编码多种氢酶,而第2支系的基因组则例外,很少编码氢酶。值得注意的是,Hydrogenedentota 的大多数成员都含有一种 A3 组[FeFe]-氢化酶(BfuABC),除了底物级磷酸化和与电子传递相关的磷酸化途径外,该酶还具有非规范的电子分叉机制,以保护能量。此外,我们还发现,水生植物中的 BfuABC 可分为五个亚型。系统进化分析揭示了水螅BfuABC同源物进化的五条独立路线。我们推测,这五种亚型的 BfuABC 可能是通过单独的水平基因转移事件从杆菌属(同义词为坚固菌)获得的。这些数据揭示了分叉[FeFe]-氢化酶的多样性和进化,并为了解水螅门适应各种生境的生存策略提供了启示:水螅门广泛分布于各种环境中。重要意义:水螅门广泛分布于各种环境中,但其生理学、生态学和进化史仍不为人知,这主要是由于基因组的有限可用性和缺乏该门的培养代表。我们的研究结果增加了人们对这些生物的遗传和代谢多样性的了解,并揭示了它们多种多样的能量守恒策略,特别是那些涉及非经典机制的电子分叉的策略,这可能是它们广泛分布的原因。此外,Hydrogenedentota中编码BfuABC的基因簇的组织和系统发育关系为研究A3类电子分叉[FeFe]-氢酶的进化史提供了有价值的线索。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Diverse non-canonical electron bifurcating [FeFe]-hydrogenases of separate evolutionary origins in Hydrogenedentota.

Hydrogenedentota, a globally distributed bacterial phylum-level lineage, is poorly understood. Here, we established a comprehensive genomic catalog of Hydrogenedentota, including a total of seven clades (or families) with 179 genomes, and explored the metabolic potential and evolutionary history of these organisms. We show that a single genome, especially those belonging to Clade 6, often encodes multiple hydrogenases with genomes in Clade 2, which rarely encode hydrogenases being the exception. Notably, most members of Hydrogenedentota contain a group A3 [FeFe]-hydrogenase (BfuABC) with a non-canonical electron bifurcation mechanism, in addition to substrate-level phosphorylation and electron transport-linked phosphorylation pathways, in energy conservation. Furthermore, we show that BfuABC from Hydrogenedentota fall into five sub-types. Phylogenetic analysis reveals five independent routes for the evolution of BfuABC homologs in Hydrogenedentota. We speculate that the five sub-types of BfuABC might be acquired from Bacillota (synonym Firmicutes) through separate horizontal gene transfer events. These data shed light on the diversity and evolution of bifurcating [FeFe]-hydrogenases and provide insight into the strategy of Hydrogenedentota to adapt to survival in various habitats.

Importance: The phylum Hydrogenedentota is widely distributed in various environments. However, their physiology, ecology, and evolutionary history remain unknown, primarily due to the limited availability of the genomes and the lack of cultured representatives of the phylum. Our results have increased the knowledge of the genetic and metabolic diversity of these organisms and shed light on their diverse energy conservation strategies, especially those involving electron bifurcation with a non-canonical mechanism, which are likely responsible for their wide distribution. Besides, the organization and phylogenetic relationships of gene clusters coding for BfuABC in Hydrogenedentota provide valuable clues to the evolutionary history of group A3 electron bifurcating [FeFe]-hydrogenases.

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来源期刊
mSystems
mSystems Biochemistry, Genetics and Molecular Biology-Biochemistry
CiteScore
10.50
自引率
3.10%
发文量
308
审稿时长
13 weeks
期刊介绍: mSystems™ will publish preeminent work that stems from applying technologies for high-throughput analyses to achieve insights into the metabolic and regulatory systems at the scale of both the single cell and microbial communities. The scope of mSystems™ encompasses all important biological and biochemical findings drawn from analyses of large data sets, as well as new computational approaches for deriving these insights. mSystems™ will welcome submissions from researchers who focus on the microbiome, genomics, metagenomics, transcriptomics, metabolomics, proteomics, glycomics, bioinformatics, and computational microbiology. mSystems™ will provide streamlined decisions, while carrying on ASM''s tradition of rigorous peer review.
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