Center for Biotechnology (CeBiTec) Universität Bielefeld, D-33594 Bielefeld, Germany.
J Biotechnol. 2011 Aug 20;155(1):78-85. doi: 10.1016/j.jbiotec.2011.01.006. Epub 2011 Jan 22.
The complete genome sequence of Bacillus amyloliquefaciens type strain DSM7(T) is presented. A comparative analysis between the genome sequences of the plant associated strain FZB42 (Chen et al., 2007) with the genome of B. amyloliquefaciens DSM7(T) revealed obvious differences in the variable part of the genomes, whilst the core genomes were found to be very similar. The strains FZB42 and DSM7(T) have in common 3345 genes (CDS) in their core genomes; whilst 547 and 344 CDS were found to be unique in DSM7(T) and FZB42, respectively. The core genome shared by both strains exhibited 97.89% identity on amino acid level. The number of genes representing the core genome of the strains FZB42, DSM7(T), and Bacillus subtilis DSM10(T) was calculated as being 3098 and their identity was 92.25%. The 3,980,199 bp genome of DSM7(T) contains numerous genomic islands (GI) detected by different methods. Many of them were located in vicinity of tRNA, glnA, and glmS gene copies. In contrast to FZB42, but similar to B. subtilis DSM10(T), the GI were enriched in prophage sequences and often harbored transposases, integrases and recombinases. Compared to FZB42, B. amyloliquefaciens DSM7(T) possessed a reduced potential to non-ribosomally synthesize secondary metabolites with antibacterial and/or antifungal action. B. amyloliquefaciens DSM7(T) did not produce the polyketides difficidin and macrolactin and was impaired in its ability to produce lipopeptides other than surfactin. Differences established within the variable part of the genomes, justify our proposal to discriminate the plant-associated ecotype represented by FZB42 from the group of type strain related B. amyloliquefaciens soil bacteria.
生防细菌解淀粉芽孢杆菌 DSM7（T）全基因组序列的解析。通过比较与植物相关的生防菌 FZB42（Chen 等人，2007）和模式菌株 DSM7（T）的基因组序列，我们发现基因组的可变部分有明显差异，而核心基因组非常相似。FZB42 和 DSM7（T）的核心基因组共有 3345 个基因（CDS）；而 DSM7（T）和 FZB42 分别有 547 和 344 个 CDS 是独特的。两株菌核心基因组的氨基酸序列同源性为 97.89%。FZB42、DSM7（T）和枯草芽孢杆菌 DSM10（T）的核心基因组代表基因的数量分别计算为 3098 个，其同一性为 92.25%。DSM7（T）的 3980199bp 基因组包含了许多通过不同方法检测到的基因组岛（GI）。其中许多位于 tRNA、glnA 和 glmS 基因拷贝附近。与 FZB42 不同，但与枯草芽孢杆菌 DSM10（T）相似，GI 富含噬菌体序列，并且经常携带转座酶、整合酶和重组酶。与 FZB42 相比，解淀粉芽孢杆菌 DSM7（T）在非核糖体合成具有抗菌和/或抗真菌作用的次生代谢物的能力降低。解淀粉芽孢杆菌 DSM7（T）不产生多杀菌素和大环内酯，并且丧失了产生除表面活性剂以外的脂肽的能力。在基因组可变部分建立的差异，证明了我们将植物相关生态型 FZB42 与相关的模式菌株解淀粉芽孢杆菌土壤细菌区分开来的合理性。
