Nocardioides agri sp. nov., isolated from garden soil

• Published in: International journal of systematic and evolutionary microbiology Vol. 74; no. 6
• Main Authors: Huq, Md Amdadul, Nam, Kihong, Rahman, Md Shahedur, Rahman, M Mizanur, Parvez, Md Anowar Khasru, Kang, Kwon-Kyoo, Akter, Shahina
• Format: Journal Article
• Language: English
• Published: England 01.06.2024
• Subjects: Actinomycetales - classification; Actinomycetales - genetics; Actinomycetales - isolation & purification; Bacterial Typing Techniques; Base Composition; DNA, Bacterial - genetics; Fatty Acids; Gardens; Genome, Bacterial; Nucleic Acid Hybridization; Phospholipids; Phylogeny; RNA, Ribosomal, 16S - genetics; Sequence Analysis, DNA; Soil Microbiology; 16S rRNA; genome sequence; Nocardioides agri; Gram-stain-positive
• ISSN: 1466-5034
• DOI: 10.1099/ijsem.0.006407

A novel bacterial strain, designated as MAH-18 , was isolated from soil sampled in a flower garden. Cells of strain MAH-18 were Gram-stain-positive, aerobic, motile, and rod-shaped. The colonies were beige in colour, smooth, and spherical when grown on Reasoner's 2A agar medium. Strain MAH-18 grew at 20-40 °C, pH 6.0-8.0, and 0-1.0 % NaCl. Cells were able to hydrolyse aesculin, gelatin, and Tween 20. According to the 16S rRNA gene sequence comparisons, the isolate was determined to be a member of the genus and most closely related to OS4 (97.9 %), DS-30 (97.9 %), GW-9 (97.6 %), mbc-2 (97.5 %), HWE 2-02 (97.4 %), and GBK3QG-3 (96.3 %). Strain MAH-18 has a draft genome size of 4 788 325 bp (eight contigs), 4572 protein-coding genes, 46 tRNA, and three rRNA genes. The average nucleotide identity and digital DNA-DNA hybridization values between strain MAH-18 and the closest type strains were 81.5-83.4 % and 24.4-25.8 %, respectively. genome mining revealed several biosynthetic gene clusters in the genome of the novel strain MAH-18 . The G+C content of the genomic DNA of strain was 72.2 mol% and the predominant isoprenoid quinone was MK-8 (H ). The main polar lipids were phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, and unknown phospholipids. The major cellular fatty acids were determined to be C iso and C 6 . The DNA-DNA hybridization results and phenotypic, genotypic, and chemotaxonomic data demonstrated that strain MAH-18 represents a novel species, for which the name sp. nov. is proposed, with MAH-18 as the type strain (=KACC 19744 =CGMCC 1.13656 ).