Comparative Genomic Analysis of Labrenzia aggregata (Alphaproteobacteria) Strains Isolated From the Mariana Trench: Insights Into the Metabolic Potentials and Biogeochemical Functions.
Comparative Genomic Analysis of Labrenzia aggregata (Alphaproteobacteria) Strains Isolated From the Mariana Trench: Insights Into the Metabolic Potentials and Biogeochemical Functions.
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从马里亚纳海沟分离的 Labrenzia aggregata（Alphaproteobacteria）菌株的比较基因组分析：深入了解代谢潜力和生物地球化学功能。
DOI：
10.3389/fmicb.2021.770370
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发表时间：
2021
影响因子：
5.2
通讯作者：
Zhang XH
中科院分区：
文献类型：
--
作者：
Zhong H;Sun H;Liu R;Zhan Y;Huang X;Ju F;Zhang XH
Hadal区是深度超过6 000米的海洋环境，其中大多数由海沟组成。微生物在这样的深度繁荣经历高静水压力和低温。这些微生物对这种极端环境的基因组潜力在很大程度上是未知的。在这里，我们比较了属于Labrenzia aggregata（Alphaproteobacteria）的五种细菌菌株的完整基因组，其中四种来自马里亚纳海沟，深度达9，600米，一种来自东海表层海水，以揭示该物种的基因组潜力。基因组研究表明，所有5株L.聚集体作为氮和硫循环的参与者，包括反硝化，异化硝酸盐还原为铵（DNRA），硫代硫酸盐氧化和二甲基磺基丙酸盐（DMSP）的生物合成和降解。进一步比较发现，5株菌中85%的基因功能相似，其中96.7%的基因编码在染色体上，而差异质粒则主要贡献了与细菌生长调节、抗生素抗性、病毒感染和次生代谢产物生物合成相关的功能特异性基因的数目。进一步分析表明，质粒基因数沿着分离深度的增加而增加，且大多数质粒在5个菌株中是不相似的。这些研究结果提供了一个更好的理解在同一物种的基因组潜力在整个深海水柱和解决的重要性，外部起源的质粒基因puprilate形成的深海环境。
Hadal zones are marine environments deeper than 6,000 m, most of which comprise oceanic trenches. Microbes thriving at such depth experience high hydrostatic pressure and low temperature. The genomic potentials of these microbes to such extreme environments are largely unknown. Here, we compare five complete genomes of bacterial strains belonging to Labrenzia aggregata (Alphaproteobacteria), including four from the Mariana Trench at depths up to 9,600 m and one reference from surface seawater of the East China Sea, to uncover the genomic potentials of this species. Genomic investigation suggests all the five strains of L. aggregata as participants in nitrogen and sulfur cycles, including denitrification, dissimilatory nitrate reduction to ammonium (DNRA), thiosulfate oxidation, and dimethylsulfoniopropionate (DMSP) biosynthesis and degradation. Further comparisons show that, among the five strains, 85% gene functions are similar with 96.7% of them encoded on the chromosomes, whereas the numbers of functional specific genes related to osmoregulation, antibiotic resistance, viral infection, and secondary metabolite biosynthesis are majorly contributed by the differential plasmids. A following analysis suggests the plasmidic gene numbers increase along with isolation depth and most plasmids are dissimilar among the five strains. These findings provide a better understanding of genomic potentials in the same species throughout a deep-sea water column and address the importance of externally originated plasmidic genes putatively shaped by deep-sea environment.
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影响因子：
5.1
作者：
Coates, Christopher J.;Wyman, Michael
通讯作者：
Wyman, Michael
DOI：
10.1093/bioinformatics/bts565
发表时间：
2012-12-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Fu L;Niu B;Zhu Z;Wu S;Li W
通讯作者：
Li W
DOI：
10.1099/ijs.0.052860-0
发表时间：
2014-04-01
影响因子：
2.8
作者：
Bibi, Fehmida;Jeong, Jae Heon;Chung, Young Ryun
通讯作者：
Chung, Young Ryun
影响因子：
2
作者：
Kiene, RP;Linn, LJ;Bruton, JA
通讯作者：
Bruton, JA
影响因子：
10.7
作者：
Katoh K;Standley DM
通讯作者：
Standley DM