Phylogeny and identification of Pantoea species associated with plants, humans and the natural environment based on multilocus sequence analysis (MLSA)
Phylogeny and identification of Pantoea species associated with plants, humans and the natural environment based on multilocus sequence analysis (MLSA)
复制标题
DOI：
10.1016/j.syapm.2008.09.004
复制
发表时间：
2008-12-01
影响因子：
3.4
通讯作者：
Coutinho, Teresa
中科院分区：
文献类型：
--
作者：
Brady, Carrie;Cleenwerck, Ilse;Coutinho, Teresa
属于泛菌属的物种通常从植物、人类和自然环境中分离。该属的物种在表型上密切相关，这使得在物种水平上快速鉴定泛菌菌株变得困难。多位点序列分析（MLSA）作为一种快速分类和鉴定泛菌菌株的手段进行了评估。四个管家基因，gyrB，rpoB，atpD和infB，被测序的菌株分配到该属。研究中包括（1）来自目前公认的七种泛菌属的参考菌株，（2）属于Brenner DNA组II、IV和V的菌株，以前从临床样品中分离，由于与成团泛菌或菠萝泛菌的表型相似性高而难以鉴定，以及（3）来自患病桉树、玉米和洋葱的分离株，根据表型试验归属于该属。系统发育树构建的四个管家基因的序列。当该树基于四个基因的串联序列时，“核心”泛菌属物种形成了一个独立于“日本”物种的簇，该“日本”物种形成了一个紧密的簇，其中包括Tatumella属。MLSA数据进一步表明存在10个潜在的新菌种，与目前公认的泛菌属菌种在遗传学上相关，并且可能将塞浦路斯果胶杆菌纳入泛菌属。与DNA-DNA杂交数据相比，两种方法之间观察到良好的一致性，gyrB序列数据是最一致的。结论：GyrB、rpoB、atpD和infB基因部分核苷酸序列的MLSA可用于泛菌属菌株的分类鉴定和系统发育分析。(C)2008年爱思唯尔GrnbH。All rights reserved.
Species belonging to the genus of Pantoea are commonly isolated from plants, humans and the natural environment. The species of the genus are phenotypically closely related, making rapid identification of Pantoea strains to the species level difficult. Multilocus sequence analysis (MLSA) was evaluated as a means for rapid classification and identification of Pantoea strains. Four housekeeping genes, gyrB, rpoB, atpD and infB, were sequenced for strains assigned to the genus. Included in the study were (1) reference strains from the seven currently recognized species of Pantoea, (2) strains belonging to Brenner DNA groups II, IV and V, previously isolated from clinical samples and difficult to identify because of high phenotypic similarity to P. agglomerans or P. ananatis and (3) isolates from diseased Eucalyptus, maize and onion, assigned to the genus on the basis of phenotypic tests. Phylogenetic trees were constructed from the sequences of the four housekeeping genes. The "core" Pantoea species formed a cluster separate from the "Japanese" species which formed a tight cluster that included the genus Tatumella when the tree was based on concatenated sequences of the four genes. The MLSA data further suggested the existence of ten potential novel species, phylogenetically related to the currently recognized Pantoea species and the possible inclusion of Pectobacterium cypripedii in the genus Pantoea. When compared with DNA-DNA hybridization data, a good congruence was observed between both methods, with gyrB sequence data being the most consistent. In conclusion, MLSA of partial nucleotide sequences of the genes gyrB, rpoB, atpD and infB can be used for classification, identification and phylogenetic analyses of Pantoea strains. (C) 2008 Elsevier GrnbH. All rights reserved.