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Abstract <p>The gram-negative bacterium <i>Lysobacter capsici</i> XL1 is an important producer of valuable antimicrobial compounds—bacteriolytic enzymes. Such enzymes are presently considered as the basis for development of medicines for the treatment of infections caused by pathogenic antibiotic-resistant strains. This work performed a whole-genome analysis of <i>L. capsici</i> XL1 with a focus on its antimicrobial potential. The complete genomic sequence of <i>L. capsici</i> XL1 (total length, 6 331 540 bp) was established using the Illumina and Nanopore platforms. A circular map of strain XL1 chromosomal DNA, with positions of the genes encoding the known bacteriolytic enzymes of <i>L. capsici</i>, was constructed. The genes of these enzymes are localized mainly in separate regions of the genome and are not organized into operons, as evidenced by the presence of their own promoter. The genome of strain XL1 was comparatively analyzed with that of strain XL2, which virtually lost its bacteriolytic activity. The total length of strain XL2 genome was 6 331 534 bp. The results of the calculation of ANI and dDDH showed both strains to have a 100% similarity. The genomes of strains XL1 and XL2 featured increased or decreased numbers of tandem repeats in the regions of intergenic space or in the protein-coding region, as well as eight point mutations (six, in the upstream and downstream regions; two, in the gene-coding region). The loss of the ability to produce bacteriolytic enzymes by <i>L. capsici</i> XL2 was suggested to be associated with mutations responsible for the regulation of gene expression.</p>

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Comparative Analysis of the Genomes of Lytically Active and Inactive Lysobacter capsici Strains

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年9月17日

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  • A. S. Afoshin,
  • I. V. Kudryakova,
  • S. V. Tarlachkov,
  • M. N. Tutukina,
  • E. A. Leontyevskaya,
  • N. V. Leontyevskaya

摘要

Abstract

The gram-negative bacterium Lysobacter capsici XL1 is an important producer of valuable antimicrobial compounds—bacteriolytic enzymes. Such enzymes are presently considered as the basis for development of medicines for the treatment of infections caused by pathogenic antibiotic-resistant strains. This work performed a whole-genome analysis of L. capsici XL1 with a focus on its antimicrobial potential. The complete genomic sequence of L. capsici XL1 (total length, 6 331 540 bp) was established using the Illumina and Nanopore platforms. A circular map of strain XL1 chromosomal DNA, with positions of the genes encoding the known bacteriolytic enzymes of L. capsici, was constructed. The genes of these enzymes are localized mainly in separate regions of the genome and are not organized into operons, as evidenced by the presence of their own promoter. The genome of strain XL1 was comparatively analyzed with that of strain XL2, which virtually lost its bacteriolytic activity. The total length of strain XL2 genome was 6 331 534 bp. The results of the calculation of ANI and dDDH showed both strains to have a 100% similarity. The genomes of strains XL1 and XL2 featured increased or decreased numbers of tandem repeats in the regions of intergenic space or in the protein-coding region, as well as eight point mutations (six, in the upstream and downstream regions; two, in the gene-coding region). The loss of the ability to produce bacteriolytic enzymes by L. capsici XL2 was suggested to be associated with mutations responsible for the regulation of gene expression.