ABSTRACT
A Gram-stain-negative, aerobic, oxidase-positive, weakly catalase-positive, motile by means of a single polar flagellum, rod-shaped bacterium designated as strain S2-9T was isolated from sediment sampled in Wiyang pond, Republic of Korea. Growth of this strain was observed at 10-40â°C (optimum, 35â°C) and pH 5.5-9.5 (optimum, pH 7.0-8.0) and in the presence of 0-0.5â% NaCl in Reasoner's 2A broth. The major fatty acids (>10â%) of strain S2-9T were C16â:â0 and summed feature 3 (comprising a mixture of C16â:â1 ω7c and/or C16â:â1 ω6c). Ubiquinone-8 was detected as the respiratory quinone. The major polar lipids were phosphatidylethanolamine and phosphatidylglycerol. Strain S2-9T showed the highest 16S rRNA gene sequence similarity to Paucibacter oligotrophus CHU3T (98.7â%), followed by 'Paucibacter aquatile' CR182 (98.4â%), all type strains of Pelomonas species (98.1-98.3â%), Mitsuaria chitosanitabida NBRC 102408T (97.9â%), Kinneretia asaccharophila KIN192T (97.8â%), Mitsuaria chitinivorans HWN-4T (97.4â%), and Paucibacter toxinivorans 2C20T (97.4â%). Phylogenetic trees based on the 16S rRNA gene and whole-genome sequences showed that strain S2-9T formed a tight phylogenetic lineage with Paucibacter species (CHU3T, CR182, and 2C20T). Average nucleotide identity and digital DNA-DNA hybridization values between strain S2-9T and Paucibacter strains were 76.6-79.3% and 19.5-21.5â%, respectively. The genomic DNA G+C content of strain S2-9T was 68.3 mol%. Notably, genes responsible for both sulphur oxidation and reduction and denitrification were found in the genome of strain S2-9T, suggesting that strain S2-9T is involved in the nitrogen and sulphur cycles in pond ecosystems. Based on the polyphasic taxonomic results, strain S2-9T represents a novel species of the genus Paucibacter, for which the name Paucibacter sediminis sp. nov. is proposed. The type strain is S2-9T (=âKACC 22267T=âJCM 34541T).
Subject(s)
Bacterial Typing Techniques , Base Composition , DNA, Bacterial , Fatty Acids , Geologic Sediments , Phylogeny , Ponds , RNA, Ribosomal, 16S , Sequence Analysis, DNA , Ubiquinone , Fatty Acids/analysis , RNA, Ribosomal, 16S/genetics , Geologic Sediments/microbiology , Ponds/microbiology , DNA, Bacterial/genetics , Republic of Korea , Nucleic Acid HybridizationABSTRACT
We report the complete genome sequence of Levilactobacillus brevis NSMJ23 with probiotic properties. The final genome assembly consisted of a 2,389,998-bp chromosome and seven plasmids with 45.59% GC content, which comprised 2,624 genes including 2,457 protein coding sequences.
ABSTRACT
Chromis notata (Temminck and Schlegel, 1843), commonly known as the pearl-spot chromis, is a damselfish that inhabits the northwestern region of the Pacific Ocean and the East China Sea. Interestingly, C. notata has been found to have morphological variations depending on the geographical area of collection. However, because there are insufficient molecular studies on C. notata, in this study, we determined its complete mitochondrial genome using PCR and phylogenetic analyses. The mitochondrial genome of C. notata was found to be 16,600 bp long, which consisted of 22 tRNA genes, 2 rRNA genes, 13 protein-coding genes, and 1 control region (D-loop). The base composition was 27.6% A, 24.8% T, 31.0% C, and 16.6% G. A phylogenetic tree reconstructed with the neighbor-joining method depicted a clone relationship with seven species of family Pomacentridae and our previous study based on CO1 gene sequences. The complete mitochondrial genome is a valuable resource in classifying and conserving C. notata.
ABSTRACT
Liparis ochotensis is a snailfish commonly confused with similar fish species because of unclear morphological characteristics. Moreover, molecular genetic studies have not been conducted for snailfish in Korea. Here, we report the complete mitogenome sequence of L. ochotensis, obtained via long PCR using universal primers for the fish mitogenome. The L. ochotensis mitogenome is 17,522 bp long, comprising 13 protein-coding genes, 22 tRNA genes, two rRNA genes, and one control region. A neighbour-joining phylogenetic tree based on CO1 sequences depicted a close relationship with Liparis gibbus. The complete mitogenome is a valuable resource to classify and conserve L. ochotensis.
ABSTRACT
Liparis tessellatus is a cubed snailfish that inhabits the northwestern region of the Pacific Ocean. The family Liparidae is difficult to distinguish morphologically due to the typical body color and shape variation, which are used interchangeably due to the differences in local dialects. Therefore, we determined the complete mitochondrial genome sequence of L. tesellatus. The mitochondrial genome length of L. tesellatus was determined as 17,221 bp, which consisted of 22 tRNA genes, two rRNA genes, 13 protein-coding genes (PCGs), and a control region (D-loop). The base composition was as follows: 28.6% of A, 29.5% of T, 26.5% of C, and 15.4% of G. The phylogenetic analysis revealed that L. tesellatus clustered together with different species of the genus Liparis. Thus, the complete mitochondrial genome sequence provided herein would further help in understanding the evolution of Liparis species.
