A Phylogenomic and Molecular Markers Based Analysis of the Class Acidimicrobiia.
A Phylogenomic and Molecular Markers Based Analysis of the Class Acidimicrobiia.
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基于系统发育和分子标记的酸性微生物类分析
DOI：
10.3389/fmicb.2018.00987
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发表时间：
2018
影响因子：
5.2
通讯作者：
Gao B
中科院分区：
文献类型：
--
作者：
Hu D;Cha G;Gao B
最近的微生物群落宏基因组学调查表明，在不同的水生环境，如酸性矿井水，废水污泥，淡水，或海洋栖息地，但很少有物种已被培养和表征的类Acidimicrobiia相关的物种是丰富的。目前的酸性微生物分类框架仅基于对少数可培养代表的16 S rRNA序列分析，并且没有已知的分子、生化或生理特征可以将此类物种与其他细菌区分开来。本研究报告了20个已测序的该类成员的基因组分析，并揭示了另外三个主要的谱系，除了两个公认的家庭。对测序的Acidimicrobiia物种的比较分析在广泛分布的蛋白质中鉴定了15个保守的签名indel（CSI）和26个保守的签名蛋白质（CSP），这些签名蛋白质对该类作为整体或其主要谱系具有特异性。这项研究代表了最全面的系统发育分析类Acidimicrobiia和确定的CSI和CSP提供了有用的分子标记的识别和划定属于这个类或其亚组的物种。
Recent metagenomic surveys of microbial community suggested that species associated with the class Acidimicrobiia are abundant in diverse aquatic environments such as acidic mine water, waste water sludge, freshwater, or marine habitats, but very few species have been cultivated and characterized. The current taxonomic framework of Acidimicrobiia is solely based on 16S rRNA sequence analysis of few cultivable representatives, and no molecular, biochemical, or physiological characteristics are known that can distinguish species of this class from the other bacteria. This study reports the phylogenomic analysis for 20 sequenced members of this class and reveals another three major lineages in addition to the two recognized families. Comparative analysis of the sequenced Acidimicrobiia species identified 15 conserved signature indels (CSIs) in widely distributed proteins and 26 conserved signature proteins (CSPs) that are either specific to this class as a whole or to its major lineages. This study represents the most comprehensive phylogenetic analysis of the class Acidimicrobiia and the identified CSIs and CSPs provide useful molecular markers for the identification and delineation of species belonging to this class or its subgroups.
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DOI：
10.1007/s10482-008-9239-x
发表时间：
2008-06-01
影响因子：
2.6
作者：
Jensen, Paul R.;Lauro, Federico M.
通讯作者：
Lauro, Federico M.
DOI：
10.1099/ijs.0.65409-0
发表时间：
2009-05-01
影响因子：
2.8
作者：
Johnson, D. Barrie;Bacelar-Nicolau, Paula;Hallberg, Kevin B.
通讯作者：
Hallberg, Kevin B.
影响因子：
--
作者：
Clum A;Nolan M;Lang E;Glavina Del Rio T;Tice H;Copeland A;Cheng JF;Lucas S;Chen F;Bruce D;Goodwin L;Pitluck S;Ivanova N;Mavrommatis K;Mikhailova N;Pati A;Chen A;Palaniappan K;Göker M;Spring S;Land M;Hauser L;Chang YJ;Jeffries CC;Chain P;Bristow J;Eisen JA;Markowitz V;Hugenholtz P;Kyrpides NC;Klenk HP;Lapidus A
通讯作者：
Lapidus A
西南印度洋中脊深海沉积物中放线菌的多样性、生物地理学和生物降解潜力
影响因子：
5.2
作者：
Chen, Ping;Zhang, Limin;Huang, Ying
通讯作者：
Huang, Ying
影响因子：
5.8
作者：
Larkin, M. A.;Blackshields, G.;Higgins, D. G.
通讯作者：
Higgins, D. G.