Abstract
A polyphasic study was undertaken to establish the position of a Streptomyces strain, isolate PRKS01-65T, recovered from sand dune soil collected at Parangkusumo, Yogyakarta Province, Java, Indonesia. A combination of chemotaxonomic, cultural and morphological properties confirmed its position in the genus of Streptomyces . Comparative 16S rRNA gene sequence analyses showed that the isolate was most closely related to Streptomyces leeuwenhoekii C34T (99.9 % similarity) and loosely associated with the type strains of Streptomyces chiangmaiensis (98.7 % similarity) and Streptomyces glomeratus (98.9 % similarity). Multilocus sequence analyses based on five conserved housekeeping gene alleles confirmed the close relationship between the isolate and S. leeuwenhoekii C34T, although both strains belonged to a well-supported clade that encompassed the type strains of S. glomeratus , Streptomyces griseomycini , Streptomyces griseostramineus , Streptomyces labedae , Streptomyces lomondensis and Streptomyces spinoverrucosus . A comparison of the draft genome sequence generated for the isolate with corresponding whole genome sequences of its closest phylogenomic neighbours showed that it formed a well-separated lineage with S. leeuwenhoekii C34T. These strains can also be distinguished using a combination of phenotypic properties and by average nucleotide identity and digital DNA–DNA hybridization similarities of 94.3 and 56 %, values consistent with their classification in different species. Based on this wealth of data it is proposed that isolate PRKS01-65T (=NCIMB 15211T=CCMM B1302T=ICEBB-03T) be classified as Streptomyces harenosi sp. nov. The genome of the isolate contains several biosynthetic gene clusters with the potential to produce new natural products.
Highlights
The emended family Streptomycetaceae [1, 2] includes the genus Streptomyces [1], the type genus [1] and five other genera
Unknown Streptomyces strains isolated from deep-sea sediments and desert soils, using taxonomic approaches to drug discovery [9, 10], are a Author affiliations: 1School of Natural and Environmental Sciences, Ridley Building 2, Newcastle University, Newcastle upon Tyne NE1 7RU, UK; 2Indonesian Centre for Extremophile Bioresources and Biotechnology (ICEBB), Faculty of Biotechnology, Sumbawa University of Technology, Sumbawa Besar, 84371, Indonesia; 3Leibniz-Institut DSMZ – German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, 38124 Braunschweig, Germany. *Correspondence: Michael Goodfellow, michael.goodfelloow@ncl.ac.uk Keywords: Streptomyces harenosisp. nov; arid sandy soil; polyphasic taxonomy; genomics
The major fatty acids were in very good agreement with those found in S. leeuwenhoekii C34T [14], apart from differences in minor components, as exemplified by the absence of iso-C10 : 0, C14 : 0 and C17 : 0 in the profile of isolate PRKS01-65T (Table 1)
Summary
Ali Budhi Kusuma, Imen Nouioui, Hans-Peter Klenk and Michael Goodfellow1,*
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