Analysis of plant microbe interactions in the era of next generation sequencing technologies.
Analysis of plant microbe interactions in the era of next generation sequencing technologies.
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DOI：
10.3389/fpls.2014.00216
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发表时间：
2014
影响因子：
5.6
通讯作者：
Knief C
中科院分区：
文献类型：
--
作者：
Knief C
在过去的几年中，下一代测序（NGS）技术通过使大量序列数据的生产能够以与传统测序方法相比显著更低的每碱基价格而显著加速了生物科学的研究。该领域最近和正在进行的发展允许解决植物微生物生物学中的研究问题，这在几年前是不可想象的。本综述概述了NGS技术及其在分析与植物共生微生物中的作用。批判性地讨论了不同测序系统的可能限制，特别是错误和偏差的来源，并公开了有助于克服这些缺点的方法。重点将是NGS方法在宏基因组研究中的应用，包括通过扩增子测序分析微生物群落，这可以被认为是一种有针对性的宏基因组方法。NGS技术的不同应用通过选定的研究文章来举例说明，这些文章涉及植物相关微生物群的生物学，以证明新方法的价值。
Next generation sequencing (NGS) technologies have impressively accelerated research in biological science during the last years by enabling the production of large volumes of sequence data to a drastically lower price per base, compared to traditional sequencing methods. The recent and ongoing developments in the field allow addressing research questions in plant-microbe biology that were not conceivable just a few years ago. The present review provides an overview of NGS technologies and their usefulness for the analysis of microorganisms that live in association with plants. Possible limitations of the different sequencing systems, in particular sources of errors and bias, are critically discussed and methods are disclosed that help to overcome these shortcomings. A focus will be on the application of NGS methods in metagenomic studies, including the analysis of microbial communities by amplicon sequencing, which can be considered as a targeted metagenomic approach. Different applications of NGS technologies are exemplified by selected research articles that address the biology of the plant associated microbiota to demonstrate the worth of the new methods.
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DOI：
10.1142/s0219720012410053
发表时间：
2012-04-01
影响因子：
1
作者：
Abnizova, Irina;Leonard, Steven;Cox, Tony
通讯作者：
Cox, Tony
影响因子：
4.3
作者：
Bragg LM;Stone G;Butler MK;Hugenholtz P;Tyson GW
通讯作者：
Tyson GW
影响因子：
4.4
作者：
Aury JM;Cruaud C;Barbe V;Rogier O;Mangenot S;Samson G;Poulain J;Anthouard V;Scarpelli C;Artiguenave F;Wincker P
通讯作者：
Wincker P
影响因子：
3.3
作者：
Atamna-Ismaeel, Nof;Finkel, Omri;Beja, Oded
通讯作者：
Beja, Oded
CLOVR：使用云计算从桌面上自动化和便携式序列分析的虚拟机。
影响因子：
3
作者：
Angiuoli SV;Matalka M;Gussman A;Galens K;Vangala M;Riley DR;Arze C;White JR;White O;Fricke WF
通讯作者：
Fricke WF