Fuzzy species among recombinogenic bacteria.
Fuzzy species among recombinogenic bacteria.
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DOI：
10.1186/1741-7007-3-6
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发表时间：
2005-03-07
期刊：
影响因子：
5.4
通讯作者：
Spratt BG
中科院分区：
文献类型：
--
作者：
Hanage WP;Fraser C;Spratt BG
对于细菌来说，是否有可能形成一个普遍的物种概念，这是一个正在进行的辩论。事实上，目前还不清楚密切相关的细菌分离物是否典型地形成可被归类为物种的离散的基因型群。对物种是否能被清楚地描绘出来的最具挑战性的测试是通过对大量密切相关、高度重组、定居在同一身体部位的细菌的分析来提供的。我们使用了来自11个命名奈瑟氏菌种的770个菌株的7个看家基因座的串联序列和系统发育树，来研究这些重组细菌之间是否可以分辨出基因类群，如果是的话，它们与命名物种的对应程度。单个基因座的等位基因在命名物种中广泛分布，但这种重组的扭曲效应在很大程度上通过使用串联序列来缓冲，这些序列解析了与样本中数量最多的三个物种-脑膜炎奈瑟氏菌、乳链奈瑟氏菌和淋病奈瑟氏菌对应的簇。从分离脑膜炎奈瑟氏菌和乳链奈瑟氏菌的分枝上分离出几个菌株，使我们将这些物种描述为“模糊的”。一种使用大量密切相关分离株样本的多基因座方法，即使在高度重组的人类奈瑟氏菌中也能描绘出物种，在那里，单个基因座不足以完成这项任务。分类学家应该将这种方法应用于其他密切相关细菌组的大样本，特别是那些历史上难以划定物种的细菌，以确定是否可以划定基因型群，并指导物种的定义。
It is a matter of ongoing debate whether a universal species concept is possible for bacteria. Indeed, it is not clear whether closely related isolates of bacteria typically form discrete genotypic clusters that can be assigned as species. The most challenging test of whether species can be clearly delineated is provided by analysis of large populations of closely-related, highly recombinogenic, bacteria that colonise the same body site. We have used concatenated sequences of seven house-keeping loci from 770 strains of 11 named Neisseria species, and phylogenetic trees, to investigate whether genotypic clusters can be resolved among these recombinogenic bacteria and, if so, the extent to which they correspond to named species. Alleles at individual loci were widely distributed among the named species but this distorting effect of recombination was largely buffered by using concatenated sequences, which resolved clusters corresponding to the three species most numerous in the sample, N. meningitidis, N. lactamica and N. gonorrhoeae. A few isolates arose from the branch that separated N. meningitidis from N. lactamica leading us to describe these species as 'fuzzy'. A multilocus approach using large samples of closely related isolates delineates species even in the highly recombinogenic human Neisseria where individual loci are inadequate for the task. This approach should be applied by taxonomists to large samples of other groups of closely-related bacteria, and especially to those where species delineation has historically been difficult, to determine whether genotypic clusters can be delineated, and to guide the definition of species.
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DOI：
10.1073/pnas.252529799
发表时间：
2002-12-24
影响因子：
11.1
作者：
Welch, RA;Burland, V;Blattner, FR
通讯作者：
Blattner, FR
影响因子：
10.7
作者：
Bryant, D;Moulton, V
通讯作者：
Moulton, V
影响因子：
5.4
作者：
Hanage WP;Fraser C;Spratt BG
通讯作者：
Spratt BG
影响因子：
5.8
作者：
Kumar, S;Tamura, K;Nei, M
通讯作者：
Nei, M
DOI：
10.1099/ijs.0.02360-0
发表时间：
2002-05-01
影响因子：
2.8
作者：
Stackebrandt, E;Frederiksen, W;Whitman, WB
通讯作者：
Whitman, WB