从基因分布推论植物青枯病病原菌的基因组结构和系统发育树.docVIP

从基因分布推论植物青枯病病原菌的基因组结构和系统发育树 Alice Guidot,1* Philippe Prior,1 Jens Schoenfeld,2 Sébastien Carrère,2 Stéphane Genin,2 and Christian Boucher2 （CIRAD, UMR PVBMT, Saint Pierre, La Réunion F-97410, France,1 CNRS-INRA, UMR LIPM, Castanet Tolosan F-31326, France2） 摘要：在本研究中，我们调查高度多态性植物青枯病原β – proteobacterium的基因分布，特别关注已知或候选致病基因的地位。 Based on the use of comparative genomic hybridization on a pangenomic microarray for the GMI1000 reference strain, we have defined the conditions that allowed comparison of the repertoires of genes among a collection of 18 strains that are representative of the biodiversity of the R. solanacearum species. This identified a list of 2,690 core genes present in all tested strains.本文鉴定出有 2690核心的基因存在于所有供试菌株。 As a corollary, a list of 2,338 variable genes within the R. solanacearum species has been defined.作为推论，清单里青枯雷尔氏菌物种中2338可变基因已经确定。 基于可变基因分布的The hierarchical clustering based on the distribution of variable genes is fully consistent with the phylotype classification that was previously defined from the nucleotide sequence analysis of four genes.系统聚类结果与先前我们从已知的4个青枯核甘酸序列分析来定义的单型分类完全一致。The presence of numerous pathogenicity-related genes in the core genome indicates that R. solanacearum is an ancestral pathogen.目前许多致病相关基因的核心基因组表明，青枯病菌是一种祖传的病原体。 The results establish the long coevolution of the two replicons that constitute the bacterial genome.结果建立长期协同进化的两个构成复制子的细菌基因组。 We also demonstrate the clustering of variable genes in genomic islands.我们证实了基因组岛里的可变基因的聚类结果。 Most genomic islands are included in regions with an alternative codon usage, suggesting that they originate from acquisition of foreign genes through lateral gene transfers.大多数基因岛被列入是一种替代密码子使用区域，也就是说它们通过横向基因转移来获得外源基因。 Other genomic islands correspond to genes that have the same base composition as core genes, suggesting that they either might be ancestral genes lost by deletion in certain strains or might originate from horizontal gene transfers.其他基因组岛对应的基因，具有与核心基因相同的碱基组成，这表明它们要么可能是祖传基因的缺失或可能源于水平