Organization of crt-clusters of strains from the Streptomyces griseus group

  • L. V. Polishchuk D.K. Zabolotny Institute of Microbiology and Virology of the NASU, Ukraine, 03680, Kyiv, Akad. Zabolotnogo str., 154
  • V. V. Lukyanchuk D.K. Zabolotny Institute of Microbiology and Virology of the NASU, Ukraine, 03680, Kyiv, Akad. Zabolotnogo str., 154
DOI: https://doi.org/10.7124/FEEO.v20.790

Abstract

Aim. The purpose of this study was to reveal similarities and differences in structures of crt-clusters of some strains from the Streptomyces griseus group. Methods. Resources of the server NCBI (programs BLAST: blast and bl2seq and database Genome (Chromosome) were used for analysis in silico of crt-cluster organizations of 17 strains from the S. griseus clade. Results. Search in silico in the database Genome (Chromosome) identified 45 strains that have been selected according to the degree of identity of the primary structures of their 16S rRNA gene sequences rrn1-gene necessary for S. griseus group members. The genomes of these 17 (37.7 %) strains had crt-clusters. 16 of them consisted of two convergent operons that combined 7 crt-genes. It showed the identity above 73 % of greater homologous fragments of crt-cluster (overlap 90 %). Only the crt-clusters of 15 strains were theoretically capable to synthesize carotenoids because crt-clusters of two strains (Streptomyces sp. Mg1, S. subrutilus 10-1-1) were with mutated crtE-genes and one cluster from the S. pristinaespiralis HCCB 10218 genome had no the crtE-gene. Conclusions. It was found the same scheme of crt-clusters organization in 17 studied strains from the S. griseus clade: they consisted of two convergent operons, which were mostly combined from 7 crt-genes (except was the strain S. pristinaespiralis HCCB 10218, whose cluster concluded of 6 genes).

Keywords: crt-cluster, organization of cluster, strain, genome, search in silico.

References

Takano H., Obitsu S., Beppu T., Ueda K. Light-induced carotenogenesis in Streptomyces coelicolor A3(2): identification of an extracytoplasmic function sigma factor that directs photodependent transcription of the carotenoid biosynthesis gene cluster. J Bacteriol. 2005. V. 187(5). P. 1825-1832. doi: 10.1128/JB.187.5.1825-1832.2005

Takano H., Asker D., Beppu T., Ueda K. Genetic control for light-induced carotenoid production in non-phototrophic bacteria. J Ind Microbiol Biotechnol. 2006. V. 33(2). P. 88-93. doi: 10.1007/s10295-005-0005-z

Kato F., Hino T., Nakaji A., Tanaka M., Koyama Y. Carotenoid synthesis in Streptomyces setonii ISP5395 is induced by the gene crtS, whose product is similar to a sigma factor. Mol. Gen. Genet. 1995. V. 247. P. 387-390. doi: 10.1007/BF00293207

Bianchi M.L., Grein A., Julita P., Marnati M.P., Spalla C. Streptomyces mediolani (Arcamone et al.) emend. Bianchi et al. and its production of carotenoids. Z. Allg. Mikrobiol. 1970. V. 10. P. 237-244. doi: 10.1002/jobm.19700100402

Nefelova M.V., Sverdlova A.N., Alekseeva L.N. Effekt organicheskikh kislot na biosintez karotinoidov shtammom Actinomyces chrysomallus. Mikrobiologiia. 1978. V. 47(2). P. 208-211. [in Russian]

Matselyukh B.P., Matselyukh D.Y., Golembiovska S.L., Polishchuk L.V., Lavrinchuk V.Y. Isolation of Streptomyces globisporus and Blakeslea trispora mutants with increased carotenoid content. Microb. J. 2013. V. 75(6). P. 10-16.

Zaretskaia M.Sh., Nefelova M.V., Baratova L.A., Polin A.N. K voprosu o sostave kletochnykh stenok 2 mutantov Streptomyces chrysomallus. Antibiotiki. 1984. V. 29(12). P. 902-906. [in Russian]

Rong X., Huang Y. Taxonomic evaluation of the Streptomyces griseus clade using multilocus sequence analysis and DNA-DNA hybridization, with proposal to combine 29 species and three subspecies as 11 genomic species. Int J Syst Evol Microbiol. 2010. V. 60(3). P. 696-703. doi: 10.1099/ijs.0.012419-0

Holembiovs'ka S.L., Polishchuk L.V., Kotsiuk A.Yu., Matseliukh B.P. Limituiuchi karotynohenez umovy kul'tyvuvannia mutantiv Streptomyces globisporus. Mikrobiolohiia i biotekhnolohiia. 2016. V. 33(1). P. 29-39. [in Ukrainian]