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Amycolatopsis pithecelloba sp. nov., a novel actinomycete isolated from roots of Pithecellobium dulce in Thailand

Abstract

An actinomycete strain RM579T isolated from roots of Pithecellobium dulce in Thailand was studied using the polyphasic taxonomic approach. The results of comparative 16S rRNA gene sequence and phylogenetic analysis showed that strain RM579T belonged to the family Pseudonocardiaceae and it was most closely related to members of the genera Amycolatopsis (≤94.5% sequence similarity) and Haloechinothrix (≤93.4% sequence similarity). A phylogenetic tree constructed by neighbor-joining method indicated that strain RM579T was positioned within the clade of the genus Amycolatopsis and formed a monophyletic cluster with Amycolatopsis taiwanensis 0345M-7T, Amycolatopsis pigmentata TT00-43T and Amycolatopsis helveola TT99-32T. Strain RM579T formed white aerial mycelium and yellowish-brown substrate mycelium that fragments into rod-shaped elements. Morphological features and chemotaxonomic characteristics of strain RM579T were consistent with those of the genus Amycolatopsis. The cell wall of strain RM579T contained meso-diaminopimelic acid. Arabinose, galactose, mannose, and ribose were detected as whole-cell sugars. Mycolic acids were absent. The acyl type of the muramic acid in the cell wall was N-acetyl. Diphosphatidylglycerol, hydroxyl-phosphatidylethanolamine, phosphatidylinositol, and an unidentified phospholipid were detected as polar lipids. The major cellular fatty acids (>10%) were iso-C16:0, iso-C16:0 2-OH, and C16:1 cis9. The resultant data indicated that strain RM579T should be classified as representative of a novel species in the genus Amycolatopsis, for which the name Amycolatopsis pithecelloba sp. nov. is proposed. The type strain is RM579T (=TBRC 1849T =NBRC 106096T).

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Acknowledgements

This research was supported by Kasetsart University Research and Development Institute (KURDI, Project Code 2559:25.60); Kitasato Institute for Life Sciences, Kitasato University, Japan; Faculty of Science, Kasetsart University, Thailand.

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Correspondence to Kannika Duangmal.

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Mingma, R., Inahashi, Y., Matsumoto, A. et al. Amycolatopsis pithecelloba sp. nov., a novel actinomycete isolated from roots of Pithecellobium dulce in Thailand. J Antibiot 73, 230–235 (2020). https://doi.org/10.1038/s41429-019-0271-z

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