• Title/Summary/Keyword: Complete genome sequence

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Complete genome sequence of Prevotella denticola KCOM 1525 isolated from human periapical abscess (사람 치근단 농양에서 분리된 Prevotella denticola KCOM 1525의 유전체 염기서열 완전 해독)

  • Lim, Yun Kyong;Park, Soon-Nang;Park, Se Ho;Shin, Ja Young;Roh, Hanseong;Kook, Joong-Ki
    • Korean Journal of Microbiology
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    • v.55 no.2
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    • pp.152-153
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    • 2019
  • Prevotella denticola is Gram-negative, obligately anaerobic, non-motile, non-spore forming, and rod-shaped bacterium. P. denticola is associated with periodontal disease and is a risk indicator of periodontal disease. P. denticola KCOM 1525 (= ChDC B698) was isolated from human periapical abscess. Herein, we present the complete genome sequence of P. denticola KCOM 1525.

Complete genome sequence of Bacillus coagulans CACC834 isolated from canine

  • Kim, Jung-Ae;Kim, Dae-Hyuk;Kim, Yangseon
    • Journal of Animal Science and Technology
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    • v.63 no.6
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    • pp.1464-1467
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    • 2021
  • Bacillus coagulans CACC 834 was isolated from canine feces, and its potential probiotic properties were characterized by functional genome analysis. Whole-genome sequencing of B. coagulans CACC 834 was performed using the PacBio RSII platforms. The complete genome assembly consisted of one circular chromosome (3.1 Mb) with guanine (G) + cytosine (C) content of 47.1%. Annotation revealed 3,181 protein-coding sequences (CDSs), 30 rRNAs, and 83 tRNAs. Gene associated 11% of the genes were involved in replication, recombination, and repair. We also annotated various stress-related, acid resistance, bile salt resistance and adhesion-related domains in this strain, which likely provide support in exerting probiotic action by survival under gastrointestinal tract. These results add to our comprehensive understanding of B. coagulans and suggest potential mammal-related industrial applications.

Complete genome sequence of Cohnella sp. HS21 isolated from Korean fir (Abies koreana) rhizospheric soil (구상나무 근권 토양으로부터 분리된 Cohnella sp. HS21의 전체 게놈 서열)

  • Jiang, Lingmin;Kang, Se Won;Kim, Song-Gun;Jeong, Jae Cheol;Kim, Cha Young;Kim, Dae-Hyuk;Kim, Suk Weon;Lee, Jiyoung
    • Korean Journal of Microbiology
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    • v.55 no.2
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    • pp.171-173
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    • 2019
  • The genus Cohnella, which belongs to the family Paenibacillaceae, inhabits a wide range of environmental niches. Here, we report the complete genome sequence of Cohnella sp. HS21, which was isolated from the rhizospheric soil of Korean fir (Abies koreana) on the top of Halla Mountain in the Republic of Korea. Strain HS21 features a 7,059,027 bp circular chromosome with 44.8% GC-content. Its genome contains 5,939 protein-coding genes, 78 transfer RNA (tRNA) genes, 27 ribosomal RNA (rRNA) genes, 4 noncoding RNA genes (ncRNA), and 90 pseudogenes. The bacterium contains antibiotic-related gene clusters and genes encoding plant cell wall-degrading enzymes.

Complete genome sequence of Gordonia sp. MMS17-SY073, a soil actinobacterium (토양 방선균인 Gordonia sp. MMS17-SY073 균주의 유전체 분석)

  • Kim, Yeong Seok;Kim, Seung Bum
    • Korean Journal of Microbiology
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    • v.55 no.3
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    • pp.303-305
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    • 2019
  • An actinobacterial strain designated Gordonia sp. MMS17-SY073 (=KCTC 49257) was isolated from a coastal soil of an island, and its complete genome was analyzed. A single contig consisting of 5,962,176 bp with the G + C content of 67.4% was obtained, and the annotation resulted in 5,201 protein-coding genes, 6 rRNA genes and 45 tRNA genes. Strain MMS17-SY073 was closest to the type strain of Gordonia soli based on the 16S rRNA gene sequence comparison, sharing 98.5% sequence similarity. A number of biosynthetic gene clusters for secondary metabolites, non-ribosomal peptide synthetase types in particular, could be identified from the genome.

The Complete Mitochondrial Genome of Dendronephthya gigantea (Anthozoa: Octocorallia: Nephtheidae)

  • Park, Eun-Ji;Kim, Bo-A;Won, Yong-Jin
    • Animal Systematics, Evolution and Diversity
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    • v.26 no.3
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    • pp.197-201
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    • 2010
  • We sequenced the whole mitochondrial genome of Dendronephthya gigantea (Anthozoa: Octocorallia: Nephteidae), the first mitochondrial genome sequence report in the Family Nephtheidae. The mitochondrial genome of D. gigantea was 18,842 bp in length, and contained 14 protein coding genes (atp6 and 8, cox1-3, cytb, nd1-6 and 4L, and msh1), two ribosomal RNAs, and only one transfer RNA. The gene content and gene order is identical to other octocorals sequenced to date. The portion of the noncoding regions is slightly larger than the other octocorals (5.08% compared to average 3.98%). We expect that the information of gene content, gene order, codon usage, noncoding region and protein coding gene sequence could be used in the further analysis of anthozoan phylogeny.

Complete genome sequence of Paenibacillus swuensis DY6T, a bacterium isolated from gamma-ray irradiated soil (감마선 조사된 토양에서 분리된 박테리아 Paenibacillus swuensis DY6T의 완전한 게놈 서열)

  • Kim, Myung Kyum;Lee, Seung-Yeol;Jung, Hee-Young;Srinivasan, Sathiyaraj
    • Korean Journal of Microbiology
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    • v.52 no.4
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    • pp.500-502
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    • 2016
  • Several bacterial species have been reported to be surviving after the ionizing radiation treatment due to the presence of sophisticated enzymes systems and some endospores producing bacterial strains can also resist, due to the presence of thick spore coat. In this study, we report the complete genome sequence of a bacterium Paenibacillus swuensis $DY6^T$, isolated from an irradiated soil sample. The genome comprised of 5,012,599 bp with the G+C content of 49.93%, the genome included 4,463 protein coding genes and 133 RNA genes.

Complete genome sequence of Pseudoalteromonas donghaensis HJ51T isolated from seawater (해수에서 분리된 Pseudoalteromonas donghaensis HJ51T 의 유전체 서열분석)

  • Oh, Ji-Sung;Roh, Dong-Hyun
    • Korean Journal of Microbiology
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    • v.54 no.3
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    • pp.305-307
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    • 2018
  • The whole genome sequencing using PacBio RS II platform was performed for a marine bacterium Pseudoalteromonas donghaensis $HJ51^T$ isolated from East Sea of Korea. As a result, three assembled contigs consisting of a chromosome (size of 3,646,857 bp, and G + C content of 41.8%) and two plasmids (size of 842,855 bp and 244,204 bp, and G + C content of 41.3% and 40.4%, respectively) were obtained. The genome included 4,083 protein coding genes and 127 RNA genes. This result could be used for gene sources of biopolymers degradation and the development as a new host with secretion system similar to Escherichia coli.

Complete genome sequence of Salmonella enterica strain K_SA184, multidrug resistance bacterium isolated from lamb (Ovis aries)

  • Kim, Hyeri;Cho, Jae Hyoung;Cho, Jin Ho;Song, Minho;Shin, Hakdong;Kim, Sheena;Kim, Eun Sol;Kim, Hyeun Bum;Lee, Ju-Hoon
    • Journal of Animal Science and Technology
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    • v.63 no.1
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    • pp.194-197
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    • 2021
  • Salmonella enterica is a representative foodborne pathogen in the world. The S. enterica strain K_SA184 was isolated from the lamb (Ovis aries), which was collected from a local traditional market in South Korea. In this study, the S. enterica strain K_SA184 was sequenced using PacBio RS II and Illumina NextSeq 500 platforms. The final complete genome of the S. enterica strain K_SA184 consist of one circular chromosome (4,725,087 bp) with 52.3% of guanine + cytosine (G + C) content, 4,363 of coding sequence (CDS), 85 of tRNA, and 22 of rRNA genes. The S. enterica strain K_SA184 genome includes encoding virulence genes, such as Type III secretion systems and multidrug resistance related genes.