Abstract
A novel actinobacterium, designated Streptomyces sp strain PSKA01T, was isolated from a soil sample of Kashmir Himalaya, India (latitude:34˚-01′N; longitude:74˚-47′E; altitude: 5328 ft). The taxonomic position of this strain was revealed by a polyphasic approach. Comparative analysis of the 16S rRNA gene sequences indicated that PSKA01T was closely related to the members of the genus Streptomyces, with the highest similarity to Streptomyces venetus CMU-AB225T (99.3%), Streptomyces levis NBRC 15423 T (99.3%), Streptomyces misionensis DSM 40306 T (99.2%), Streptomyces carpinensis NRRL B-16921 T (99.2%), Streptomyces purpurascens NBRC 13077 T (99.2%), and Streptomyces phaeoluteichromatogenes NRRL 5799 T (99.2%). A phylogenomic tree based on genome sequences of the isolated strains, conferred by Type Strain Genome Server (TYGS), separated them from rest of the Streptomyces. The cell wall contained LL-diaminopimelic acid and the whole-cell hydrolysates were xylose and rhamnose. Major fatty acid methyl esters (FAME) were observed as 16:0 iso and 17:0 anteiso. In addition to the differences in phenotypic characters, the average nucleotide identity (ANI), average amino acid identity (AAI), digital DNA–DNA hybridization (dDDH) values, tetranucleotide frequency correlation coefficient (TETRA), and multilocus sequence analysis (MLSA) between PSKA01T and closely related type strains were considerably lower than the recommended threshold value; therefore, this isolate represents a novel Streptomyces species, for which the name Streptomyces cupreus sp. nov. is proposed. The type strain is PSKA01T (= JCM 33752 T = MCC 4182 T).
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Abbreviations
- BA:
-
Bennett’s agar
- ISP:
-
International Streptomyces Project
- GGDC:
-
Genome-to-Genome Distance Calculator
- MLSA:
-
Multilocus sequence analysis
- dDDH:
-
Digital DNA–DNA hybridization
- ANI:
-
Average nucleotide identity
- ANIb:
-
Average nucleotide identity-Blast based
- ANI-MUMmer:
-
ANIm, average nucleotide identity-MUMmer
- AAI:
-
Average amino acid identity
- TETRA:
-
Tetranucleotide frequency correlation coefficient
- TYGS:
-
Type Strain Genome Server
- NRPS:
-
Non-ribosomal polypeptide synthetases
- PKS:
-
Polyketide synthase
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Acknowledgements
We are grateful to SERB (DST), Govt of India, for financial support (Grant no.: SB/YS/LS-154/2013 dated 05.12.2013) which has been partially used for this research. We also sincerely acknowledge the generous help of Professor Aharon Oren, The Hebrew University of Jerusalem, for the nomenclature of the species.
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PKM performed the experiments. PKM and SM conceptualized the idea, designed the experiments, analyzed the data, and wrote the manuscript. SM helped in fund acquisition, and reviewed and edited the manuscript.
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Communicated by Erko Stackebrandt.
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The GenBank accession number for the 16S rRNA gene sequence of strain PSKA01T is MH299817. Accession number for the atpD gene (MK792948); gyrB (MT828893); recA (MT828891); rpoB (MT828890); trpB (MT828892) of strain PSKA01T.
The Whole Genome sequence has been deposited at GenBank under the accession number of strain PSKA01T is JACMSF000000000.
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Maiti, P.K., Mandal, S. Streptomyces cupreus sp. nov., an antimicrobial producing actinobacterium isolated from Himalayan soil. Arch Microbiol 203, 1601–1609 (2021). https://doi.org/10.1007/s00203-020-02160-y
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DOI: https://doi.org/10.1007/s00203-020-02160-y