Nocardia sputorum sp. nov., an actinobacterium isolated from clinical specimens in Japan

Abstract

Two novel actinobacteria, designated IFM 12276T and IFM 12275, were isolated from clinical specimens in Japan, and their taxonomic positions were investigated using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequence comparisons revealed that strains IFM 12276 T and IFM 12275 have completely identical 16S rRNA gene sequences and were closely related to members of the genus Nocardia . The highest 16S rRNA gene sequence similarity was observed to Nocardia beijingensis (99.6 %) and Nocarida sputi (99.6 %), followed by Nocardia niwae (99.3 %) and Nocardia araoensis (99.3 %). The whole-cell hydrolysates of strains IFM 12276T and IFM 12275 contained meso-diaminopimelic acid, arabinose and galactose. The acyl type of muramic acid was N-glycolyl. The predominant isoprenoid quinone was MK-8(H4, ω-cycl.) and the principal polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannosides. Strains IFM 12276T and IFM 12275 contained mycolic acids that co-migrated with those from the type strain of N. niwae . These chemotaxonomic features corresponded to those of the genus Nocardia . Meanwhile, the differences in some phenotypic characteristics, along with the results of average nucleotide identity and digital DNA–DNA hybridization analyses, indicated that strains IFM 12276 T and IFM 12275 should be distinguished from the recognized species of the genus Nocardia . Therefore, these strains represent a novel species of the genus Nocardia , for which the name Nocardia sputorum sp. nov. is proposed. The type strain is IFM 12276T (=NBRC 115477T=TBRC 17096T).

In vitro activity of tedizolid against 43 species of Nocardia species

“…that were difficult to identify via 16S rRNA gene sequencing were classified as a complex 17 , 18 . Two strains of new species of N. sputorum (IFM 12275, IFM 12276 T ), which were previously reported as a novel species by our group 19 , were included in the N. abscessus complex. These strains were closely related to N. beijingensis NBRC16342 T (99.6%) by phylogenetic analysis based on the 16S rRNA sequence 19 .…”

“…Two strains of new species of N. sputorum (IFM 12275, IFM 12276 T ), which were previously reported as a novel species by our group 19 , were included in the N. abscessus complex. These strains were closely related to N. beijingensis NBRC16342 T (99.6%) by phylogenetic analysis based on the 16S rRNA sequence 19 . The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA gene sequence and the complete genome sequence of strains IFM 12276 T and IFM 12275 are LC741024 and AP026978, and LC741023 and AP026976 (plasmid: AP026977), respectively.…”

Methodology for awakening the potential secondary metabolic capacity in actinomycetes

“…Indeed, several examples of co-culture of human cells and intestinal bacteria have been reported, and the changes in gene expression on the host side during such co-culture experiments have been well studied [ 117 – 118 ]. On the other hand, unlike intestinal bacteria, pathogenic microorganisms that adversely affect human health also interact with host cells when they invade the body [ 119 – 120 ]. Noting this, Ishibashi and Arai et al, hypothesized that when pathogenic microorganisms invade the body, they are subjected to xenocidal stress from immune cells, which activates silent genes and produces defensive compounds as a countermeasure.…”