Nocardioides euryhalodurans sp. nov., Nocardioides seonyuensis sp. nov. and Nocardioides eburneiflavus sp. nov., isolated from soil

Int J Syst Evol Microbiol. 2020 Apr;70(4):2682-2689. doi: 10.1099/ijsem.0.004095. Epub 2020 Mar 6.

Abstract

Three aerobic, rod-shaped actinobacterial strains, designated MMS17-SY117T, MMS17-SY207-3T and MMS17-SY213T, were isolated from soil and their taxonomic positions were analysed using a polyphasic approach. The isolates showed best growth at 30 °C, pH 7 and 0-1 % (w/v) NaCl. On the basis of 16S rRNA gene sequence similarity, the isolates were affiliated to the genus Nocardioides, and the closest species to MMS17-SY117T, MMS17-SY207-3T and MMS17-SY213T were Nocardioides aestuarii JC2056T (97.76%), Nocardioides currus IB-3T (97.41%) and Nocardioides exalbidus RC825T (98.71%), respectively. Each isolate formed a distinct cluster within the Nocardioides clade in the phylogenetic tree. The orthologous average nucleotide identity and digital DNA-DNA hybridization values were in the range of 74.4-85.7 % and 16.6-39.2 %, respectively, with the type strains of related species. The major polar lipids in all three strains were phosphatidylinositol, phosphatidylglycerol and diphosphatidylglycerol. The predominant fatty acids were iso-C16 : 0 and C17 : 1 ω8c. MK-8(H4) was the major isoprenoid quinone and ll-DAP was the major diamino acid. Galactose, glucose and rhamnose were present in the whole-cell hydrolysate, and MMS17-SY213T also contained mannose and ribose. The DNA G+C contents of MMS17-SY117T, MMS17-SY207-3T and MMS17-SY213T were 72.2, 70.4 and 71.5 mol%, respectively. The phylogenetic, phenotypic and chemotaxonomic data supported the classification of each strain as representing a new species of Nocardioides, for which the names Nocardioides euryhalodurans sp. nov. (MMS17-SY117T=KCTC 49175T=JCM 32831T), Nocardioides seonyuensis sp. nov. (MMS17-SY207-3T=KCTC 49176T=JCM 32832T) and Nocardioides eburneiflavus sp. nov. (MMS17-SY213T=KCTC 49177T=JCM 32833T) are proposed accordingly.

Keywords: Nocardioides; Nocardioides eburneiflavus; Nocardioides euryhalodurans; Nocardioides seonyuensis; island soil.

MeSH terms

  • Actinobacteria / classification*
  • Actinobacteria / isolation & purification
  • Bacterial Typing Techniques
  • Base Composition
  • DNA, Bacterial / genetics
  • Diaminopimelic Acid / chemistry
  • Fatty Acids / chemistry
  • Nucleic Acid Hybridization
  • Phospholipids / chemistry
  • Phylogeny*
  • RNA, Ribosomal, 16S / genetics
  • Republic of Korea
  • Sand / microbiology
  • Sequence Analysis, DNA
  • Soil Microbiology*
  • Vitamin K 2 / analogs & derivatives
  • Vitamin K 2 / chemistry

Substances

  • DNA, Bacterial
  • Fatty Acids
  • Phospholipids
  • RNA, Ribosomal, 16S
  • Sand
  • Vitamin K 2
  • vitamin MK 8
  • Diaminopimelic Acid