High throughput sequencing methods and analysis for microbiome research
High throughput sequencing methods and analysis for microbiome research
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DOI：
10.1016/j.mimet.2013.08.011
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发表时间：
2013-12-01
影响因子：
2.2
通讯作者：
Reid, Gregor
中科院分区：
文献类型：
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作者：
Di Bella, Julia M.;Bao, Yige;Reid, Gregor
高通量测序技术在质量、速度和成本方面都在迅速提高。因此，它越来越广泛地用于研究许多生态位中的整个原核生物群落。本文综述了这些技术，包括从不同环境中提取核酸，样品制备和高通量测序平台。我们还讨论了常用的和最近开发的生物信息学工具应用于微生物组，包括分析扩增子序列，宏基因组鸟枪序列和元转录组序列。这一领域相对较新，发展迅速，因此我们希望这篇综述将为理解这些微生物组分析方法提供一个基线。此外，我们寻求刺激其他人解决高通量微生物组序列分析的灵敏度，特异性和解释仍然存在的许多问题。(C)2013爱思唯尔有限公司版权所有。
High-throughput sequencing technology is rapidly improving in quality, speed and cost. It is therefore becoming more widely used to study whole communities of prokaryotes in many niches. This review discusses these techniques, including nucleic acid extraction from different environments, sample preparation and high-throughput sequencing platforms. We also discuss commonly used and recently developed bioinformatic tools applied to microbiomes, including analyzing amplicon sequences, metagenome shotgun sequences and metatranscriptome sequences. This field is relatively new and rapidly evolving, thus we hope that this review will provide a baseline for understanding these methods of microbiome analyses. Additionally, we seek to stimulate others to solve the many problems that still exist with the sensitivity, specificity and interpretation of high throughput microbiome sequence analysis. (C) 2013 Elsevier B.V. All rights reserved.