The Prevalence in Streptomycete Genomes of Sequences Similar to the Methylenomycin Biosynthetic Cluster
DOI:
https://doi.org/10.15407/microbiolj88.01.052Keywords:
Streptomyces, , genome, , plasmid,, mmy/mmf-clusters, , nucleotide sequence, , indicator of DNA identity,, genetically affinity.Abstract
In streptomycetes, the clusters of genes that determine biosynthesis in the vast majority of antibiotics are usually located on chromosomes, but some of them are located on large plasmids. Some of them are silent and do not express. The development of a number of modern scientific technologies of molecular biology and bioinformatics makes it possible to identify silent clusters in the genomes of streptomycetes. The aim of the work was to identify streptomycetes, the genomes of which contained sequences similar to the cluster of genes of S. coelicolor A3(2), which determine the synthesis of methylenomycin antibiotic (mmy/mmf-cluster). Methods. The objects of the study were nucleotide sequences of chromosomes and plasmids of streptomycetes, which were deposited on publicly available Internet databases on the National Center for Biotechnology Information. The analysis of primary DNA structures was performed using Basic Local Alignment Search Tool. The sequence of mmy/mmf-cluster (SCP1 plasmid of S. coelicolor A3 (2)) was used as a request in a computerized analysis of nucleotide sequences. Results. Sequences similar to the mmy/mmf-cluster and its individual genes were found in plenty of streptomycete genomes belonging to different species. However, the complete sequences of probable clusters were found only in a few streptomycete genomes. Of these, two sequences are localized on plasmids (NZ_CP109276.1, NZ_CP109103.1). Based on the similarity of the 16S rRNA gene sequences of the Streptomyces strains of interest and the corresponding gene of S. coelicolor A3(2), the genetic relatedness of most of the analyzed Streptomyces strains to S. coelicolor A3(2) was determined. Methylenomycin resistance genes (mmr and mmyJ) have been found in the genomes of many streptomycetes that did not contain mmy/mmf-clusters, including two plasmids. Conclusions. The probable mmy/mmf clusters are present in genomes of streptomycetes with different genetic affinity of S. coelicolor A3 (2). Of these, strains Streptomyces sp. NPDC052727, Streptomyces sp. NPDC052721, Streptomyces sp. NRRL S-31 are not genetically related to S. coelicolor A3(2). Two plasmids (NZ_CP109276.1, NZ_CP109103.1) have been identified, in which mmy/mmf-clusters are present.
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