Molecular signatures and phylogenomic analysis of the genus Burkholderia: proposal for division of this genus into the emended genus Burkholderia containing pathogenic organisms and a new genus Paraburkholderia gen. nov. harboring environmental species.
Molecular signatures and phylogenomic analysis of the genus Burkholderia: proposal for division of this genus into the emended genus Burkholderia containing pathogenic organisms and a new genus Paraburkholderia gen. nov. harboring environmental species.
复制标题
DOI：
10.3389/fgene.2014.00429
复制
发表时间：
2014
影响因子：
3.7
通讯作者：
Gupta RS
中科院分区：
文献类型：
--
作者：
Sawana A;Adeolu M;Gupta RS
伯克霍尔德氏菌属包含大量不同的物种，其中包括许多临床上重要的生物、植物病原体以及环境物种。然而，目前还缺乏能够可靠区分伯克霍尔德氏菌不同类群的生化或分子特征。本文报道了伯克霍尔德氏菌属45种已测序种的详细系统发育和比较基因组分析结果。在基于21个保守蛋白质的串联序列和基于16S rRNA基因序列的系统发育树中，伯克霍尔德氏菌属的成员分为两大支系。在这些主要分支中，一些较小的分支也被清楚地区分开来，包括那些对应于临床上重要的洋葱伯克霍尔德菌复合体(BCC)和伪颧伯克霍尔德氏菌群的分支。我们对伯克霍尔德氏菌蛋白质序列的比较分析。已经确定了42个高度特异的保守序列插入序列(CSIS)形式的分子标记，这些标记在伯克霍尔德氏菌的一些明确的群体中是唯一发现的。其中6个CSI是针对伯克霍尔德氏菌群的。(在本工作中称为支链I)，它包含了该属的所有临床相关成员(即。BCC和假鼻疽杆菌群)，以及植物病原伯克霍尔德氏菌。第二个主要分支(分支II)，由环境中的伯克霍尔德氏菌种组成，也被鉴定为该组特有的2个CSIS所区别。此外，我们的工作还确定了多个CSI，用于明确划分伯克霍尔德氏菌属的一些较小的群体。包括3个针对洋葱假单胞菌复合体的CSI，4个在假鼻疽杆菌群中唯一发现的CSI，5个针对植物病原性Burkholderia spp.的CSI。所描述的分子标记为伯克霍尔德氏菌不同类群的划分提供了高度特异的手段。它们还为临床上重要的基底细胞癌或假腮腺组成员的诊断分析的发展提供了新的和有用的靶点。根据系统发育分析、已鉴定的CSIS和伯克霍尔德氏菌的致病力图谱，我们建议将伯克霍尔德氏菌属划分为两个属。在这项新建议中，修订的伯克霍尔德氏菌属将对应于支系I，它将只包含临床相关和植物致病的伯克霍尔德氏菌种。所有其他主要是环境因素的伯克霍尔德氏菌将被转移到一个新的Paraburkholderia gen属。11月
The genus Burkholderia contains large number of diverse species which include many clinically important organisms, phytopathogens, as well as environmental species. However, currently, there is a paucity of biochemical or molecular characteristics which can reliably distinguish different groups of Burkholderia species. We report here the results of detailed phylogenetic and comparative genomic analyses of 45 sequenced species of the genus Burkholderia. In phylogenetic trees based upon concatenated sequences for 21 conserved proteins as well as 16S rRNA gene sequence based trees, members of the genus Burkholderia grouped into two major clades. Within these main clades a number of smaller clades including those corresponding to the clinically important Burkholderia cepacia complex (BCC) and the Burkholderia pseudomallei groups were also clearly distinguished. Our comparative analysis of protein sequences from Burkholderia spp. has identified 42 highly specific molecular markers in the form of conserved sequence indels (CSIs) that are uniquely found in a number of well-defined groups of Burkholderia spp. Six of these CSIs are specific for a group of Burkholderia spp. (referred to as Clade I in this work) which contains all clinically relevant members of the genus (viz. the BCC and the B. pseudomallei group) as well as the phytopathogenic Burkholderia spp. The second main clade (Clade II), which is composed of environmental Burkholderia species, is also distinguished by 2 identified CSIs that are specific for this group. Additionally, our work has also identified multiple CSIs that serve to clearly demarcate a number of smaller groups of Burkholderia spp. including 3 CSIs that are specific for the B. cepacia complex, 4 CSIs that are uniquely found in the B. pseudomallei group, 5 CSIs that are specific for the phytopathogenic Burkholderia spp. and 22 other CSI that distinguish two groups within Clade II. The described molecular markers provide highly specific means for the demarcation of different groups of Burkholderia spp. and they also offer novel and useful targets for the development of diagnostic assays for the clinically important members of the BCC or the pseudomallei groups. Based upon the results of phylogenetic analyses, the identified CSIs and the pathogenicity profile of Burkholderia species, we are proposing a division of the genus Burkholderia into two genera. In this new proposal, the emended genus Burkholderia will correspond to the Clade I and it will contain only the clinically relevant and phytopathogenic Burkholderia species. All other Burkholderia spp., which are primarily environmental, will be transferred to a new genus Paraburkholderia gen. nov.
登录
查看更多内容
影响因子：
10.7
作者：
Castresana, J
通讯作者：
Castresana, J
DOI：
10.1099/00207713-51-4-1481
发表时间：
2001-07-01
影响因子：
2.8
作者：
Coenye, T;Mahenthiralingam, E;Vandamme, P
通讯作者：
Vandamme, P
DOI：
10.1099/ijs.0.048777-0
发表时间：
2013-11-01
影响因子：
2.8
作者：
De Meyer, Sofie E.;Cnockaert, Margo;Vandamme, Peter
通讯作者：
Vandamme, Peter
影响因子：
14.9
作者：
Cole JR;Wang Q;Cardenas E;Fish J;Chai B;Farris RJ;Kulam-Syed-Mohideen AS;McGarrell DM;Marsh T;Garrity GM;Tiedje JM
通讯作者：
Tiedje JM
DOI：
10.1099/ijs.0.64873-0
发表时间：
2007-05-01
影响因子：
2.8
作者：
Chen, Wen-Ming;de Faria, Sergio M.;Vandamme, Peter
通讯作者：
Vandamme, Peter