Presence of diverse Candidatus Methylomirabilis oxyfera-like bacteria of NC10 phylum in agricultural soils
Presence of diverse Candidatus Methylomirabilis oxyfera-like bacteria of NC10 phylum in agricultural soils
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农业土壤中存在多种 NC10 门的 Candidatus Mmethylomirabilis oxyfera 类细菌
DOI：
10.1111/jam.13119
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发表时间：
2016
影响因子：
4
通讯作者：
Liu Xu
中科院分区：
文献类型：
--
作者：
Shen Li-dong;Wu Hong-sheng;Gao Zhi-qiu;Li Ji;Liu Xu
目的更好地了解白蜡虫的分布和多样性。方法和结果对农田土壤中NC 10门细菌的垂直分布和多样性进行了研究（表层0-10 cm，次表层20-30 cm;深层，50-60和90-100 cm），使用基于Illumina的16 S rRNA（V3-V4区域）基因测序土壤DNA样品和定量PCR分析。结果发现，NC 10相关读数占每个检查的岩心样品中16 S rRNA池的0.8 - 4.5%，在深层土壤中观察到的百分比大于表层土壤和次表层土壤。回收的NC 10相关读数显示与M的16 S rRNA基因具有85.1 - 96.9%的同一性。oxyfera。NC 10门细菌的高多样性，观察到在检查的土芯。在回收的16 S rRNA基因中，基于3%的序列差异，共检测到115个操作分类单位（OTU）。系统发育分析表明，土壤样品中NC 10门细菌分为4个类群（A、B、C和D），其中B类群为优势菌。A组成员，被确定为负责厌氧甲烷氧化（AMO）耦合亚硝酸盐还原的优势细菌，主要可以在50-60 cm处检测到。定量PCR进一步证实了NC 10门细菌的存在，范围从3·8 × 106到9·3 × 106拷贝g− 1 soil. Conclusions结果显示，通过使用基于Illumina的16 S rRNA基因测序和qPCR检测，农业土壤中存在多种NC 10门细菌。这提高了我们对土壤环境中NC 10门细菌群落分布的理解。
AimsTo better explore the distribution and diversity ofCandidatus Methylomirabilis oxyfera(M. oxyfera)‐like bacteria of NC10 phylum in soil environments.Methods and ResultsThe vertical distribution and diversity of NC10 phylum bacteria were investigated in an agricultural field (surface layer, 0–10 cm; subsurface layer, 20–30 cm; deep layers, 50–60 and 90–100 cm) by using Illumina‐based 16S rRNA (V3‐V4 region) gene sequencing of soil DNA samples and quantitative PCR assays. It was found that the NC10‐related reads accounted for 0·8–4·5% of the 16S rRNA pool in each examined core sample, with greater percentage being observed in deep soils than in surface soils and subsurface soils. The recovered NC10‐related reads showed 85·1–96·9% identity to the 16S rRNA gene ofM. oxyfera. A high diversity of NC10 phylum bacteria was observed in the examined soil cores. A total of 115 operational taxonomic units (OTU) were detected based on 3% sequence divergence in the recovered 16S rRNA genes. Phylogenetic analysis showed that four distinct groups of NC10 phylum bacteria (groups A, B, C and D) were present in the examined soil cores, with group B members being the dominant bacteria. The group A members, which are identified as the dominant bacteria responsible for anaerobic methane oxidation (AMO) coupled to nitrite reduction, can mainly be detected at 50–60 cm. Quantitative PCR further confirmed the presence of NC10 phylum bacteria, ranging from 3·8 × 106to 9·3 × 106copies g−1soil.ConclusionsThe results showed the presence of diverse NC10 phylum bacteria in agricultural soils by using Illumina‐based 16S rRNA gene sequencing and qPCR assays.Significance and Impact of the StudyThe greatest level of diversity of NC10 phylum bacteria was reported to date in this study, which improved our understanding of the distribution of NC10 phylum bacterial communities in soil environments.