Open AccessAgromyces humi sp. nov., actinobacterium isolated from farm soil
Author(s) -
Jae-Chan Lee,
Kyung-Sook Whang
Publication year - 2020
Publication title -
international journal of systematic and evolutionary microbiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.925
H-Index - 173
eISSN - 1466-5034
pISSN - 1466-5026
DOI - 10.1099/ijsem.0.004376
Subject(s) - biology , 16s ribosomal rna , peptidoglycan , strain (injury) , diamino acid , phylogenetic tree , rhizosphere , microbiology and biotechnology , botany , bacteria , gene , biochemistry , genetics , gene sequence , cell wall , anatomy
A Gram-stain-positive actinobacterial strain, designated ANK073 T , was isolated from rhizosphere soil sampled at a spinach farming field in Shinan, Republic of Korea. Cells of strain ANK073 T were found to be aerobic, non-motile, non-spore-forming rods which could grow at 20–40 °C (optimum, 30 °C), at pH 6.0–10.0 (optimum, pH 6.5–7.5) and at salinities of 0–4 % (w/v) NaCl (optimum, 0 % NaCl). The 16S rRNA gene sequence analysis showed that strain ANK073 T belongs to the genus Agromyces with high sequence similarities to Agromyces humatus CD5 T (98.8 %), Agromyces tardus SJ-23 T (98.5 %) and Agromyces iriomotensis IY07-20 T (98.4 %). The phylogenetic analysis indicated that strain ANK073 T formed a distinct phyletic line in the genus Agromyces and the results of DNA–DNA relatedness and phylogenomic analysis based on whole genome sequences demonstrated that strain ANK073 T could be separated from its closest relatives in the genus Agromyces . The strain contained 2,4-diaminobutylic acid, glycine, d -glutamic acid and d -alanine in the peptidoglycan. The predominant menaquinones were identified as MK-12 and MK-11, and the major fatty acids were anteiso-C 17 : 0 , anteiso-C 15 : 0 and iso-C 15:0 . The major polar lipids were identified as diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The G+C content of the genome was determined to be 70.2 mol%. On the basis of its phenotypic and chemotaxonomic properties and the results of phylogenetic and phylogenomic analyses, strain ANK073 T is considered to represent a novel species in the genus Agromyces , for which the name Agromyces humi sp. nov. is proposed. The type strain is ANK073 T (=KACC 18683 T =NBRC 111825 T ).