Chryseobacterium tagetis sp. nov., a plant growth promoting bacterium with an antimicrobial activity isolated from the roots of medicinal plant (Tagetes patula)

• Published in: Journal of antibiotics Vol. 75; no. 6; pp. 312 - 320
• Main Authors: Chhetri, Geeta, Kim, Inhyup, Kim, Jiyoun, So, Yoonseop, Seo, Taegun
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 01.06.2022; Nature Publishing Group
• Subjects: 45; 45/22; 45/23; 45/77; 631/326/2522; 631/326/41/2531; Acetic acid; Antiinfectives and antibacterials; Antimicrobial activity; Antimicrobial agents; Bacteria; Bacteriology; Biomedical and Life Sciences; Bioorganic Chemistry; Chryseobacterium; Deoxyribonucleic acid; DNA; Fatty acids; Gene clusters; Gene sequencing; Genomes; Gram-negative bacteria; Herbal medicine; Hybridization; Indoleacetic acid; Life Sciences; Lipids; Medicinal Chemistry; Medicinal plants; Metabolites; Microbiology; New species; Nucleotides; Organic Chemistry; Phosphatidylethanolamine; Phylogeny; Plant growth; Quinones; Roots; rRNA 16S; Secondary metabolites; Tagetes patula; Tryptophan
• DOI: 10.1038/s41429-022-00525-7
• ISSN: 0021-8820; 1881-1469

A novel plant growth-promoting and indole acetic acid (IAA) producing strain designated RG1 T was isolated from the roots of Tagetes patula (marigold) collected from Goyang, South Korea. The cells of strain RG1 T is aerobic, yellow, Gram-stain-negative, pleomorphic and non-motile. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain RG1 T belongs to the genus Chryseobacterium and is closely related to Chryseobacterium gwangjuense THG-A18 T (98.6%). The strain produced IAA (70.5 µg ml −1 ) in the presence of L -tryptophan and showed antimicrobial activity against Gram-negative bacterium Xanthomonas campestris pv. campestris KACC 10377 T . The isolate had a significant positive effect on rice plant shoot and root growth. The novel strain RG1 T had a draft genome size of 4,430,189 bp, with ten scaffolds and 3969 protein-coding genes. The digital DNA-DNA hybridization (dDDH) and average nucleotide identity (ANI) values between strain RG1 T and other closely related members ranged from 21.5 to 36.6% and from 79.2 to 86.6%, respectively. The genomic DNA G + C content was 34.8 mol%. Furthermore, anti-SMASH analysis of the whole genome revealed six putative biosynthetic gene clusters responsible for various secondary metabolites. The major respiratory quinone was MK-6 and the major fatty acids were iso-C 15:0 , summed feature 3 (comprising C 16: 1 ω 7 c and/or C 16: 1 ω 6 c ) and summed feature 9 (comprising iso-C 17: 1 ω 9 c and/or 10-methyl C 16:0 ). The major polar lipid is phosphatidylethanolamine. Based on the genotypic, chemotaxonomic and physiological data, strain RG1 T represents a novel species, for which the name Chryseobacterium tagetis sp. nov. is proposed. The type strain is designated as RG1 T ( = KCTC 82696 T  = NBRC 115057 T ).