Comparative genomics analysis and transposon mutagenesis provides new insights into high menaquinone-7 biosynthetic potential of Bacillus subtilis natto

• Published in: Gene 2024-05, Vol.907, p.148264-148264, Article 148264
• Main Authors: Jiang, Chunxu, Zhao, Genhai, Wang, Han, Zheng, Wenqian, Zhang, Rui, Wang, Li, Zheng, Zhiming
• Format: Article
• Language: English
• Subjects: Bacillus subtilis natto; Bacillus subtilis var. natto; biosynthesis; chromosomes; Comparative genomic; genes; genomics; menaquinones; MK-7 biosynthetic; mutagenesis; mutants; Transposon mutagenesis; transposons
• ISSN: 0378-1119; 1879-0038
• DOI: 10.1016/j.gene.2024.148264

•Complete-genome of natto BN-P15-11–1 was sequenced and annotated for the first time.•Intraspecific comparative genomics revealed the differences in typical industrial strains.•High-throughput screening of transposon insertion mutant improved MK-7 biosynthesis.•The identified YqgQ could play an important role in MK-7 biosynthesis. This research combined Whole-Genome sequencing, intraspecific comparative genomics and transposon mutagenesis to investigate the menaquinone-7 (MK-7) synthesis potential in Bacillus subtilis natto. First, Whole-Genome sequencing showed that Bacillus subtilis natto BN-P15-11–1 contains one single circular chromosome in size of 3,982,436 bp with a GC content of 43.85 %, harboring 4,053 predicted coding genes. Next, the comparative genomics analysis among strain BN-P15-11–1 with model Bacillus subtilis 168 and four typical Bacillus subtilis natto strains proves that the closer evolutionary relationship Bacillus subtilis natto BN-P15-11–1 and Bacillus subtilis 168 both exhibit strong biosynthetic potential. To further dig for MK-7 biosynthesis latent capacity of BN-P15-11–1, we constructed a mutant library using transposons and a high throughput screening method using microplates. We obtained a YqgQ deficient high MK-7 yield strain F4 with a yield 3.02 times that of the parent strain. Experiments also showed that the high yield mutants had defects in different transcription and translation regulatory factor genes, indicating that regulatory factor defects may affect the biosynthesis and accumulation of MK-7 by altering the overall metabolic level. The findings of this study will provide more novel insights on the precise identification and rational utilization of the Bacillus subtilis subspecies for biosynthesis latent capacity.