Chryseobacterium edaphi sp. nov. and Chryseobacterium gilvum sp. nov., isolated from soil

Abstract

Two Gram-stain-negative, aerobic, yellow and rod-shaped bacteria, designated as strains PBS4-4T and GMJ5T, were isolated from soil samples collected in Goyang-si and Paju-si, Gyeonggi-do, Republic of Korea. Strains PBS4-4T and GMJ5T were both positive for catalase and oxidase. Strain PBS4-4T grew at 15–37 °C and pH 5.0–12.0. Strain GMJ5T grew at 15–37 °C and pH 5.0–11.0. Neither strain required NaCl for growth. 16S rRNA sequence analysis revealed that strains PBS4-4T and GMJ5T form a closely related cluster with the genus Chryseobacterium . The average nucleotide identity and digital DNA–DNA hybridization values between strain PBS4-4T and its closely related strains were 79.4–84.5% and 23.2–28.7 %, respectively. For GMJ5T, the values were 78.3–79.3% and 22.0–22.6 %, respectively. The major fatty acids shared by both novel strains were iso-C15 : 0 and summed feature 3 (C16 : 1 ω7c/C16 : 1 ω6c). Strain GMJ5T had one other major fatty acid: iso-C17 : 0 3OH. Based on phenotypic, genomic and phylogenetic results, strains PBS4-4T and GMJ5T represent novel species within the genus Chryseobacterium , and the names Chryseobacterium edaphi sp. nov. and Chryseobacterium gilvum sp. nov. are proposed, respectively. The type strain of C. edaphi is PBS4-4T (=KACC 22882T=TBRC 17052T) and the type strain of C. gilvum is GMJ5T (=KACC 22883T=TBRC 17053T).

Draft Genome Sequence Analyses of Two Novel Marinobacter suadae sp. nov. and Wenyingzhuangia gilva sp. nov. Isolated from the Root of Suaeda japonica Makino

“…Genomic DNA was extracted using the TruSeq DNA PCR-Free Kit (Novogene) by Macrogen Co., Ltd. (Seoul, Republic of Korea) [ 38 ]. Whole-genome shotgun sequencing of the novel strains was performed following the Illumina HiSeq X platform (Illumina; San Diego, CA, USA), and the assembly was performed using the SPAdes version 3.15.0 de novo assembler [ 39 ].…”

“…The novel strains were cultured at 30 • C for 3 days on marine agar, tryptic soy agar (TSA; Difco, Eybens, France), Luria-Bertani agar (LB agar; Difco, Eybens, France), Reasoner's 2A agar (R2A; MB cell, Seoul, Republic of Korea), and nutrient agar (NA; Difco, Eybens, France) to assess their optimal growth on different media. Moreover, the novel strains were cultured on marine agar plates for 3 days to assess their optimal growth at temperatures ranging from 4-45 • C (4,10,15,20,25,28,30,35,38,40, and 45 • C). To determine the optimal growth rate of the novel strains under various culture conditions, the strains were cultured with different NaCl concentrations and at different pH ranges in marine broth (MB cell, Seoul, Republic of Korea) at 30 • C for 3 days.…”