Genomic analysis by deep sequencing of the probiotic Lactobacillus brevis KB290 harboring nine plasmids reveals genomic stability.
Genomic analysis by deep sequencing of the probiotic Lactobacillus brevis KB290 harboring nine plasmids reveals genomic stability.
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DOI：
10.1371/journal.pone.0060521
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发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Yajima N
中科院分区：
文献类型：
--
作者：
Fukao M;Oshima K;Morita H;Toh H;Suda W;Kim SW;Suzuki S;Yakabe T;Hattori M;Yajima N
我们确定了从传统日本发酵蔬菜中分离的益生乳酸菌短乳杆菌KB 290的全基因组序列。该基因组包含一条2，395，134 bp的染色体，其中包含2，391个蛋白质编码基因和9个质粒，共占191个蛋白质编码基因。KB 290不含毒力因子基因，但存在与细胞壁多糖合成和胁迫反应相关的基因。brevis KB 290，而近缘种L. brevis ATCC 367.质粒固化实验表明，质粒pKB 290 -1的存在是必不可少的菌株的胃肠道耐受性和聚集的趋势。使用当前和18岁的储备菌株的下一代深度测序来检测低频变异，我们评估了基因组稳定性。对覆盖率超过1,000倍的4个周期性KB 290培养原液进行深度测序，发现了3个突变位点和37个少数变异位点，表明具有长期稳定性，为在核苷酸水平评估工业菌的稳定性提供了有用的方法。
We determined the complete genome sequence of Lactobacillus brevis KB290, a probiotic lactic acid bacterium isolated from a traditional Japanese fermented vegetable. The genome contained a 2,395,134-bp chromosome that housed 2,391 protein-coding genes and nine plasmids that together accounted for 191 protein-coding genes. KB290 contained no virulence factor genes, and several genes related to presumptive cell wall-associated polysaccharide biosynthesis and the stress response were present in L. brevis KB290 but not in the closely related L. brevis ATCC 367. Plasmid-curing experiments revealed that the presence of plasmid pKB290-1 was essential for the strain's gastrointestinal tract tolerance and tendency to aggregate. Using next-generation deep sequencing of current and 18-year-old stock strains to detect low frequency variants, we evaluated genome stability. Deep sequencing of four periodic KB290 culture stocks with more than 1,000-fold coverage revealed 3 mutation sites and 37 minority variation sites, indicating long-term stability and providing a useful method for assessing the stability of industrial bacteria at the nucleotide level.
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影响因子：
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