Sphingomonas horti sp. nov., a novel bacterial species isolated from soil of a tomato garden

• Published in: Archives of microbiology 2021-03, Vol.203 (2), p.543-548
• Main Authors: Akter, Shahina, Lee, Sun-Young, Moon, Sung-Kwon, Choi, Changsun, Balusamy, Sri Renukadevi, Siddiqi, Muhammad Zubair, Ashrafudoulla, Md, Huq, Md. Amdadul
• Format: Article
• Language: English
• Subjects: Arginine; Base Composition; Biochemistry; Biomedical and Life Sciences; Biotechnology; Catalase; Cell Biology; Deoxyribonucleic acid; DNA; Ecology; Fatty acids; Fatty Acids - analysis; Gardens; Gardens & gardening; Gelatin; Genes; Genomes; Gram stain; Hybridization; Life Sciences; Lycopersicon esculentum - microbiology; Microbial Ecology; Microbiology; New species; Original Paper; pH effects; Phylogeny; Quinones; RNA, Ribosomal, 16S - genetics; rRNA 16S; Similarity; Sodium chloride; Soil Microbiology; Species Specificity; Sphingomonas; Sphingomonas - classification; Sphingomonas - genetics; Starch; Tomatoes; tRNA; Ubiquinone; Urea
• ISSN: 0302-8933; 1432-072X
• DOI: 10.1007/s00203-020-02056-x

A novel bacterial strain, designated MAH-20 T , was isolated from a soil sample of a tomato garden. Cells of strain MAH-20 T were Gram-stain negative, aerobic, motile, and rod-shaped. The colonies were light brown colored, smooth, spherical, and 0.2–0.7 mm in diameter when grown on Luria–Bertani agar for 2 days. Strain MAH-20 T grows at 15–40 °C (optimum growth temperature 30–32 °C), at pH 5.0–10.0 (optimum growth pH 7.0) and at 0–2.0% NaCl. The strain showed positive activity for both oxidase and catalase tests. Cells were able to hydrolyze starch, DNA, urea, gelatin, L-arginine, and Tween 20. According to the 16S rRNA gene sequence similarity, the strain MAH-20 T was identified as a new member of the genus Sphingomonas and had the close sequence similarity with Sphingomonas changbaiensis V2M44 T (98.9%) and Sphingomonas tabacisoli X1-8 T (98.1%). The genomic ANI value between strain MAH-20 T and S. changbaiensis NBRC 104936 T was 84.4%. The novel strain MAH-20 T has a draft genome size of 3,350,026 bp (25 contigs), annotated with 3210 protein-coding genes, 46 tRNA, and 3 rRNA genes. The genomic DNA G + C content of isolate was 67.3 mol%, the predominant quinone was ubiquinone 10 and the major fatty acids were C 16:0 , C 17:1 ω 6 c and summed feature 8 (comprising C 18:1 ω 7 c and/or C 18:1 ω 6 c ). On the basis of DNA-DNA hybridization results, phenotypic, genotypic, and chemotaxonomic data, the isolated strain MAH-20 T represents a novel species, for which the name Sphingomonas horti sp. nov. is proposed, with MAH-20 T as the type strain (= KACC 19746 T  = CGMCC1.13658 T ).