Using Mothur to Determine Bacterial Community Composition and Structure in 16S Ribosomal RNA Datasets.
Using Mothur to Determine Bacterial Community Composition and Structure in 16S Ribosomal RNA Datasets.
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DOI：
10.1002/cpbi.83
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发表时间：
2019-09-01
影响因子：
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通讯作者：
Cantarel, Brandi L
中科院分区：
文献类型：
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作者：
Chappidi, Sruthi;Villa, Erika C;Cantarel, Brandi L
16S核糖体RNA（rRNA）基因是原核生物核糖体的骨架分子之一。由于该基因进化缓慢，并且具有非常保守的区域，因此该基因被用于重建原核生物中的同源基因。通用引物可用于在包括细菌和古细菌的原核生物中扩增基因。为了使用高通量短读测序技术确定微生物群落中的微生物组成，引物被设计成跨越基因的九个可变区中的两个或三个。Mothur于2009年开发，是一套研究细菌群落组成和结构的工具。这个软件包可以从开发人员那里免费获得（www.mothur.org）。该方案将显示如何（1）执行序列预处理以去除错误，（2）执行操作分类单位（OTU）分析以确定α和β多样性，以及（3）确定OTU和环境样品的分类概况。版权所有2019作者。
The 16S ribosomal RNA (rRNA) gene is one of the scaffolding molecules of the prokaryotic ribosome. Because this gene is slow to evolve and has very well conserved regions, this gene is used to reconstruct phylogenies in prokaryotes. Universal primers can be used to amplify the gene in prokaryotes including bacteria and archaea. To determine the microbial composition in microbial communities using high-throughput short-read sequencing techniques, primers are designed to span two or three of the nine variable regions of the gene. Mothur, developed in 2009, is a suite of tools to study the composition and structure of bacterial communities. This package is freely available from the developers (https://www.mothur.org). This protocol will show how to (1) perform preprocessing of sequences to remove errors, (2) perform operational taxonomic unit (OTU) analysis to determine alpha and beta diversity, and (3) determine the taxonomic profile of OTUs and the environmental sample. © 2019 The Authors.