Comparison of the complete genome sequences of four γ-hexachlorocyclohexane-degrading bacterial strains: insights into the evolution of bacteria able to degrade a recalcitrant man-made pesticide.
Comparison of the complete genome sequences of four γ-hexachlorocyclohexane-degrading bacterial strains: insights into the evolution of bacteria able to degrade a recalcitrant man-made pesticide.
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DOI：
10.1093/dnares/dsw041
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发表时间：
2016-12
期刊：
影响因子：
--
通讯作者：
Nagata Y
中科院分区：
文献类型：
--
作者：
Tabata M;Ohhata S;Nikawadori Y;Kishida K;Sato T;Kawasumi T;Kato H;Ohtsubo Y;Tsuda M;Nagata Y
γ-六氯环己烷（γ-HCH）是一种难降解的人工合成氯代农药。在此，比较了四种降解γ-HCH的鞘氨醇单胞菌菌株的完整基因组序列，这些菌株最不可能来自一种祖先γ-HCH降解菌。结合几个实验数据，我们发现：（i）所有四个菌株都携带几乎相同的将γ-HCH转化为马来酰乙酸的linA至linE基因（指定为“特定”lin基因），（二）在四种菌株中的一种菌株中，马来酰乙酸的代谢使用了相当不同的基因，（三）γ-HCH利用所必需的推定ABC转运蛋白的linKLMN基因显示出结构差异，这反映了它们宿主的系统发育关系。lin基因在四个基因组中的复制子组织和位置显著不同，并且大多数特异性lin基因位于多个鞘氨醇单胞菌特有的质粒上。IS 6100的拷贝，在四个菌株中最丰富的插入序列，通常位于靠近特定的lin基因。对IS 6100转座后靶重复足迹的分析和IS 6100转座的实验检测强烈表明，IS 6100转座引起了四种菌株的动态基因组重排和lin侧翼区的多样化。
γ-Hexachlorocyclohexane (γ-HCH) is a recalcitrant man-made chlorinated pesticide. Here, the complete genome sequences of four γ-HCH-degrading sphingomonad strains, which are most unlikely to have been derived from one ancestral γ-HCH degrader, were compared. Together with several experimental data, we showed that (i) all the four strains carry almost identical linA to linE genes for the conversion of γ-HCH to maleylacetate (designated “specific” lin genes), (ii) considerably different genes are used for the metabolism of maleylacetate in one of the four strains, and (iii) the linKLMN genes for the putative ABC transporter necessary for γ-HCH utilization exhibit structural divergence, which reflects the phylogenetic relationship of their hosts. Replicon organization and location of the lin genes in the four genomes are significantly different with one another, and that most of the specific lin genes are located on multiple sphingomonad-unique plasmids. Copies of IS6100, the most abundant insertion sequence in the four strains, are often located in close proximity to the specific lin genes. Analysis of the footprints of target duplication upon IS6100 transposition and the experimental detection of IS6100 transposition strongly suggested that the IS6100 transposition has caused dynamic genome rearrangements and the diversification of lin-flanking regions in the four strains.
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影响因子：
4.4
作者：
Krol, J. E.;Penrod, J. T.;Top, E. M.
通讯作者：
Top, E. M.
影响因子：
5
作者：
Fuchu, Genki;Ohtsubo, Yoshiyuki;Tsuda, Masataka
通讯作者：
Tsuda, Masataka
影响因子：
10.7
作者：
Katoh K;Standley DM
通讯作者：
Standley DM
影响因子：
3.7
作者：
Romero-Silva MJ;Méndez V;Agulló L;Seeger M
通讯作者：
Seeger M
DOI：
10.1073/pnas.0606924103
发表时间：
2006-10-17
影响因子：
11.1
作者：
Chain, Patrick S. G.;Denef, Vincent J.;Tiedje, James M.
通讯作者：
Tiedje, James M.