Pangenome analysis of the genus Herbiconiux and proposal of four new species associated with Chinese medicinal plants

• Published in: Frontiers in microbiology 2023-02, Vol.14, p.1119226-1119226
• Main Authors: Deng, Yang, Jiang, Zhu-Ming, Han, Xue-Fei, Su, Jing, Yu, Li-Yan, Liu, Wei-Hong, Zhang, Yu-Qin
• Format: Article
• Language: English
• Subjects: Herbiconiux; medicinal plants; Microbiology; pangenome; plant growth-promotion; polyphasic taxonomy
• ISSN: 1664-302X; 1664-302X
• DOI: 10.3389/fmicb.2023.1119226

Five Gram-stain-positive, aerobic, non-motile actinobacterial strains designated as CPCC 205763 , CPCC 203386 , CPCC 205716 , CPCC 203406 , and CPCC 203407 were obtained from different ecosystems associated with four kinds of Chinese traditional medicinal plants. The 16S rRNA gene sequences of these five strains showed closely related to members of the genus of the family , with the highest similarities of 97.4-99.7% to the four validly named species of . In the phylogenetic trees based on 16S rRNA gene sequences and the core genome, these isolates clustered into the clade of the genus within the lineage of the family The overall genome relatedness indexes (values of ANI and dDDH) and the phenotypic properties (morphological, physiological and chemotaxonomic characteristics) of these isolates, readily supported to affiliate them to the genus , representing four novel species, with the isolates CPCC 203406 and CPCC 203407 being classified in the same species. For which the names sp. nov. (type strain CPCC 205763  = I19A-01430  = CGMCC 1.60067 ), sp. nov. (type strain CPCC 203386  = I10A-01569  = DSM 24546  = KCTC 19839 ), sp. nov. (type strain CPCC 205716  = I21A-01427  = CGMCC 1.60064 ), and sp. nov. (type strain CPCC 203406  = I10A-02268  = DSM 24549  = KCTC 19840 ) were proposed, respectively. In the genomes of these five strains, the putative encoding genes for amidase, endoglucanase, phosphatase, and superoxidative dismutase were retrieved, which were classified as biosynthetic genes/gene-clusters regarding plant growth-promotion (PGP) functions. The positive results from IAA-producing, cellulose-degrading and anti-oxidation experiments further approved their potential PGP bio-functions. Pangenome analysis of the genus supported the polyphasic taxonomy results and confirmed their bio-function potential.