Phytoactinopolyspora limicola sp. nov., an alkaliphilic actinomycete isolated from a soda alkali-saline soil

Arch Microbiol. 2021 May;203(4):1367-1374. doi: 10.1007/s00203-020-02134-0. Epub 2021 Jan 2.


An alkaliphilic actinomycete, designated HAJB-30 T, was isolated from a soda alkali-saline soil in Heilongjiang, Northeast China. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain HAJB-30 T was most closely related to type strains of the genus Phytoactinopolyspora with sequence similarities ranging between 93.5 and 98.9%. Strain HAJB-30 T grew at pH 8.0-11.0 (optimum pH 9.5-10.0) and in the presence of 0-7.0% NaCl (optimum 1.0-3.0%). Whole-cell hydrolysates of the isolate contained LL-diaminopimelic acid as the diagnostic diamino acid and mannose and rhamnose as diagnostic sugars. The major fatty acids identified were iso-C14:0, iso-C15:0, anteiso-C15:0, iso-C16:0 and anteiso-C17:0, while the menaquinone was MK-9(H4). The genome (6,589,901 bp), composed of 50 contigs, had a G + C content of 66.8%. Out of the 6074 predicted genes, 6020 were protein-coding genes, and 54 were ncRNAs. Digital DNA-DNA hybridization (dDDH) estimation and average nucleotide identity (ANI) of strain HAJB-30 T against genomes of the type strains of related species in the same family ranged between 19.7 and 22.0% and between 71.5 and 76.8%, respectively. From these results, it was concluded that strain HAJB-30 T possesses sufficient characteristics differentiated from all recognized Phytoactinopolyspora species, it is considered to be a novel species for which the name Phytoactinopolyspora limicola sp. nov. is proposed. The type strain is HAJB-30 T (= CGMCC 4.7591 T, = JCM 33694 T).

Keywords: Draft genome; Phytoactinopolyspora limicola sp. nov.; Polyphasic taxonomy; Soda alkali-saline soil.

MeSH terms

  • Actinobacteria / chemistry
  • Actinobacteria / classification*
  • Actinobacteria / genetics
  • Actinobacteria / physiology*
  • Base Composition
  • DNA, Bacterial / genetics
  • Diaminopimelic Acid / analysis
  • Fatty Acids / analysis
  • Genome, Fungal / genetics
  • Nucleic Acid Hybridization
  • Phospholipids / chemistry
  • Phylogeny
  • RNA, Ribosomal, 16S / genetics
  • Sequence Analysis, DNA
  • Soil / chemistry
  • Soil Microbiology*
  • Sugars / analysis
  • Vitamin K 2 / analysis


  • DNA, Bacterial
  • Fatty Acids
  • Phospholipids
  • RNA, Ribosomal, 16S
  • Soil
  • Sugars
  • Vitamin K 2
  • Diaminopimelic Acid