Archives

Minute.of.Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences

Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences

期刊:Nature Reviews Microbiology

IF:23.317

链接:http://www.nature.com/nrmicro/journal/v12/n9/abs/nrmicro3330.html

简要:

Small subunit ribosomal RNA gene,亦即熟知的细菌(Bac.)与古菌(Arc.)这些原核生物中的16S rRNA。对16S rRNA的研究以及在公开提供的数据库中的序列数都迅速增长,序列条目已经超过400万。然而,对于细菌和古菌的分类和命名并没有统一的框架标准。

在这篇分析性文章中,研究人员通过对16S rRNA序列数据库中的大量数据进行分析和分类命名术语汇总,提出了基于16s rRNA序列identities对Bac.和Arc.在高阶分类水平的合理分类边界(Rational taxonomic boundaries),包括了:细菌与古菌在高阶分类水平(High taxa)上的合理的分类界域,更新了关于球细菌与古菌的种类和数量普查结果,以及阐述了可通用于可培养的和不可培养的微生物的在高阶分类水平的稳定层次分类方法(Stable hierarchical classification of high taxa)的原理。。同时,对数据的分析发现,只有近乎全长16S rRNA 的数据才能提供物种分类多样性或差异的准确评估。另外,对现有数据的分析发现当前对于环境样品的研究研究大多数止步于高阶的分类水平。

概要记录:

1、 It is remarkable that, although nearly 1.3 million eukaryotic species have […]

Initiated by Jonathan Eisen discussion of metagenomic studies.

Metagenomic Libraries

5 Jun 2015 by Jonathan Eisen

Sequencing, libraries and informatics and other methods related to metagenomic studies with an emphasis on what library construction and sequencing methods to use.

Twitter Linkhttp://microbe.net/2015/06/05/how-to-choose-a-metagenomic-sequencing-strategy-input-wanted/

THE MAJOR PROBLEMS:

 Q1: What sequencing method(s) are people using for metagenomic studies?

 Q2: What are your approaches to library […]