Flavobacterium humi sp. nov., a flexirubin-type pigment producing bacterium, isolated from soil

• Published in: The journal of microbiology Vol. 57; no. 12; pp. 1079 - 1085
• Main Authors: Kim, Inhyup, Kim, Jiyoun, Chhetri, Geeta, Seo, Taegun
• Format: Journal Article
• Language: English
• Published: Seoul The Microbiological Society of Korea 01.12.2019; Springer Nature B.V; 한국미생물학회
• Subjects: Bacteria; Bacterial Typing Techniques; Base Composition; Biomedical and Life Sciences; Catalase; Deoxyribonucleic acid; DNA; DNA, Bacterial - genetics; Fatty acids; Fatty Acids - analysis; Flavobacterium; Flavobacterium - classification; Flavobacterium - genetics; Flavobacterium - isolation & purification; Flavobacterium - metabolism; Genomes; Gliding; Life Sciences; Lipids; Menaquinones; Microbial Systematics and Evolutionary Microbiology; Microbiology; New species; Non-coding RNA; Nucleic Acid Hybridization; Nucleotide sequence; Nucleotides; Phosphatidylethanolamine; Phosphatidylethanolamines - analysis; Phylogenetics; Phylogeny; Pigments; Pigments, Biological - metabolism; Polyenes - metabolism; Quinones; Republic of Korea; RNA, Ribosomal, 16S - genetics; rRNA 16S; Sequence Analysis, DNA; Sodium chloride; Soil; Soil bacteria; Soil Microbiology; Soil microorganisms; Soils; tRNA; Vitamin K 2 - analogs & derivatives; Vitamin K 2 - analysis; 생물학; Republic of Korea; strictly aerobic; flexirubin-type pigment; gliding motility; polyphasic taxonomy; Flavobacterium humi
• ISSN: 1225-8873; 1976-3794
• DOI: 10.1007/s12275-019-9350-x

A yellow pigmented, Gram-stain-negative, strictly aerobic, rod-shaped, motile by means of gliding, catalase and oxidase positive bacterium, designated strain DS2-A T , was isolated from soil. Growth was observed at 4–32°C (optimum, 28°C), pH 6–9 (optimum, 7.0), and with 0–0.25% (w/v) NaCl (optimum, 0%). Phylogenetic analysis of 16S rRNA gene sequence revealed that strain DS2-A T belonged to the genus Flavobacterium and was most closely related to Flavobacterium aquatile LMG 4008 T (96.4%), Flavobacterium terrae DSM 18829 T (95.6%), Flavobacterium vireti THG-SM1 T (95.5%), Flavobacterium inkyongense IMCC27201 T (95.4%), Flavobacterium brevivitae TTM-43 T (95.2%), and Flavobacterium cucumis DSM 18830 T (95.2%). Strain DS2-A T produces flexirubin-type pigments. The major fatty acids were iso-C 15:0 , iso-C 17:0 3-OH, and iso-C 15:0 3-OH. The major respiratory quinone was identified as menaquinone-6. The major polar lipid was found to be phosphatidylethanolamine. The average nucleotide identity values between strain DS2-A T and selected taxa, F. aquatile LMG 4008 T , F. terrae DSM 18829 T , and F. cucumis DSM 18830 T , were 72, 72.7, and 71.6%, respectively. The draft genome of strain DS2-A T has a number of 14 contigs, scaffold N50 of 476,310 bp and a total size of 3,563,867 bp. Additionally, strain DS2-A T contains 3,127 of gene, 41 of tRNA, 6 of rRNA, and 3 of ncRNA. The DNA G + C content of stain DS2-A T was 40.7 mol%. Based on phylogenetic and phenotypic analyses, strain DS2-A T is considered as a novel species of the genus Flavobacterium , for which the name Flavobacterium humi sp. nov., (type strain DS2-A T = KACC 19715 T = JCM 32786 T ) has been proposed.