Department of Geomicrobiology, Institute of Microbiology, Faculty of Biology, University of Warsaw, 02-096 Warsaw, Poland.
Department of Environmental Microbiology and Biotechnology, Institute of Microbiology, Faculty of Biology, University of Warsaw, 02-096 Warsaw, Poland.
Int J Mol Sci. 2022 Apr 1;23(7):3947. doi: 10.3390/ijms23073947.
This study investigated the occurrence and diversity of proteobacterial XoxF-type methanol dehydrogenases (MDHs) in the microbial community that inhabits a fossil organic matter- and sedimentary lanthanide (Ln)-rich underground mine environment using a metagenomic and metaproteomic approach. A total of 8 XoxF-encoding genes (XoxF-EGs) and 14 protein sequences matching XoxF were identified. XoxF-type MDHs were produced by -, -, and represented by the four orders , , , and . The highest number of XoxF-EG- and XoxF-matching protein sequences were affiliated with and , respectively. Among the identified XoxF-EGs, two belonged to the XoxF1 clade, five to the XoxF4 clade, and one to the XoxF5 clade, while seven of the identified XoxF proteins belonged to the XoxF1 clade, four to the XoxF4 clade, and three to the XoxF5 clade. Moreover, the accumulation of light lanthanides and the presence of methanol in the microbial mat were confirmed. This study is the first to show the occurrence of XoxF in the metagenome and metaproteome of a deep microbial community colonizing a fossil organic matter- and light lanthanide-rich sedimentary environment. The presented results broaden our knowledge of the ecology of XoxF-producing bacteria as well as of the distribution and diversity of these enzymes in the natural environment.
本研究采用宏基因组学和宏蛋白质组学方法，研究了栖息在富化石有机质和富沉积镧系元素（Ln）地下矿山环境中的微生物群落中，XoxF 型甲醇脱氢酶（MDHs）的发生和多样性。共鉴定出 8 个 XoxF 编码基因（XoxF-EGs）和 14 个与 XoxF 匹配的蛋白质序列。XoxF 型 MDHs 由 、 、 和 产生，分别代表四个顺序 、 、 、 。XoxF-EG 和 XoxF 匹配蛋白序列数量最多的分别是 和 。在所鉴定的 XoxF-EG 中，有两个属于 XoxF1 分支，五个属于 XoxF4 分支，一个属于 XoxF5 分支，而鉴定出的 7 个 XoxF 蛋白属于 XoxF1 分支，4 个属于 XoxF4 分支，3 个属于 XoxF5 分支。此外，还证实了轻镧系元素的积累和微生物席中甲醇的存在。本研究首次在深微生物群落的宏基因组和宏蛋白质组中显示了 XoxF 的存在，该微生物群落定殖于富化石有机质和轻镧系元素的沉积环境。所呈现的结果拓宽了我们对 XoxF 产生菌生态的认识，以及这些酶在自然环境中的分布和多样性。
