Phylogeny and Metabolic Potential of the Methanotrophic Lineage MO3 in Beijerinckiaceae from the Paddy Soil through Metagenome-Assembled Genome Reconstruction.
Phylogeny and Metabolic Potential of the Methanotrophic Lineage MO3 in Beijerinckiaceae from the Paddy Soil through Metagenome-Assembled Genome Reconstruction.
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通过宏基因组组装基因组重建水稻土拜耳甲烷氧化谱系 MO3 的系统发育和代谢潜力
DOI：
10.3390/microorganisms10050955
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发表时间：
2022-05-01
期刊：
影响因子：
4.5
通讯作者：
中科院分区：
文献类型：
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作者：
尽管对需氧甲烷氧化菌（MOB, methanotrophs）的研究已经进行了一百多年，但仍有许多未经培养的甲烷氧化菌系，其代谢在很大程度上是未知的。本研究利用无氮M2培养基富集水稻土，重建了北捷林科甲烷化菌的基因组。甲烷化产物标记为MO3_YZ。1的大小为3.83 Mb， GC含量为65.6%，共有3442个基因编码区。基于pmoA基因和基因组的系统发育以及基因组平均核苷酸的同源性，我们确定了pmoA基因属于MO3谱系，与甲基locapsa亲缘关系密切。MO3_YZ。1含有mxaF-和xoxf型甲醇脱氢酶。MO3_YZ。由于含有异柠檬酸裂解酶和完整的三羧酸循环编码基因，我利用丝氨酸循环吸收碳并通过乙醛酸分流再生乙醛酸。mo3_yz - 1中乙基丙二醇-辅酶a通路和Calvin-Benson-Bassham循环是不完整的。鉴定出3个醋酸利用酶编码基因，提示其具有潜在的醋酸利用能力。固氮、硫转化和聚β-羟基丁酸盐合成基因的存在使其能够在碳、氮和硫供应波动的异质生境中生存。
Although the study of aerobic methane-oxidizing bacteria (MOB, methanotrophs) has been carried out for more than a hundred years, there are many uncultivated methanotrophic lineages whose metabolism is largely unknown. Here, we reconstructed a nearly complete genome of a Beijerinckiaceae methanotroph from the enrichment of paddy soil by using nitrogen-free M2 medium. The methanotroph labeled as MO3_YZ.1 had a size of 3.83 Mb, GC content of 65.6%, and 3442 gene-coding regions. Based on phylogeny of pmoA gene and genome and the genomic average nucleotide identity, we confirmed its affiliation to the MO3 lineage and a close relationship to Methylocapsa. MO3_YZ.1 contained mxaF- and xoxF-type methanol dehydrogenase. MO3_YZ.1 used the serine cycle to assimilate carbon and regenerated glyoxylate through the glyoxylate shunt as it contained isocitrate lyase and complete tricarboxylic acid cycle-coding genes. The ethylmalonyl-CoA pathway and Calvin–Benson–Bassham cycle were incomplete in MO3_YZ.1. Three acetate utilization enzyme-coding genes were identified, suggesting its potential ability to utilize acetate. The presence of genes for N2 fixation, sulfur transformation, and poly-β-hydroxybutyrate synthesis enable its survival in heterogeneous habitats with fluctuating supplies of carbon, nitrogen, and sulfur.
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传统的甲烷氧化菌是造成稻田土壤中大气甲烷氧化的原因
影响因子：
16.6
作者：
Cai Y;Zheng Y;Bodelier PL;Conrad R;Jia Z
通讯作者：
Jia Z
影响因子：
2.7
作者：
Garrison NL;Rodriguez J;Agnarsson I;Coddington JA;Griswold CE;Hamilton CA;Hedin M;Kocot KM;Ledford JM;Bond JE
通讯作者：
Bond JE
影响因子：
4.4
作者：
HENRYSSON, T;MCCARTY, PL
通讯作者：
MCCARTY, PL
O2 和 CH4 对稻田土壤中本地甲烷营养群落的存在和活动的影响
影响因子：
5.1
作者：
Henckel, T;Roslev, P;Conrad, R
通讯作者：
Conrad, R
DOI：
10.1128/genomea.01555-14
发表时间：
2015-03-05
期刊：
Genome announcements
影响因子：
--
作者：
Dedysh SN;Naumoff DG;Vorobev AV;Kyrpides N;Woyke T;Shapiro N;Crombie AT;Murrell JC;Kalyuzhnaya MG;Smirnova AV;Dunfield PF
通讯作者：
Dunfield PF