Korean Journal of Microbiology (미생물학회지)

The Microbiological Society of Korea (한국미생물학회)
권호 표지
DOI QR코드

DOI QR Code

Draft genome sequence of Pelagicola sp. DSW4-44 isolated from seawater

해수에서 분리된 Pelagicola sp. DSW4-44의 초안 유전체 서열분석

  • Oh, Ji-Sung (Department of Microbiology, Chungbuk National University) ;
  • Roh, Dong-Hyun (Department of Microbiology, Chungbuk National University)
  • 오지성 (충북대학교 자연과학대학 미생물학과) ;
  • 노동현 (충북대학교 자연과학대학 미생물학과)
  • Received : 2019.08.12
  • Accepted : 2019.08.18
  • Published : 2019.09.30
Download PDF
⟨ Previous Next ⟩

Abstract

The draft genome sequencing for Pelagicola sp. DSW4-44 (= KCTC 62762 = KCCM 43261), isolated from deep seawater of East Sea in Korea, was performed using Illumina HiSeq platform. As a result, the draft genome was comprised of a total length of approximately 4.85 Mbp with G + C content of 54.3%, and included a total of 4,566 protein-coding genes, 3 rRNA genes, 48 tRNA genes, 3 non-coding RNA genes, and 67 pseudo genes. In the draft genome, the strain DSW4-44 contained genes involved in the nitrogen metabolism of dissimilatory nitrate reduction to ammonium (DNRA) and denitrification, which were not found other strains in the genus Pelagicola.

이 연구에서는 Illumina Hiseq platform을 사용하여 동해 심층 해양수로부터 분리된 Pelagicola sp. DSW4-44 (= KCTC 62762 = KCCM 43261)의 초안 유전체 염기서열 해독을 수행하였다. 그 결과, 유전체는 대략 4.85 Mbp의 길이 및 54.3%의 G + C 함량으로 구성되었고, 전체 4,566개의 단백질 암호 유전자, 3개의 rRNA 유전자, 48개의 tRNA 유전자, 3개의 non-coding RNA 유전자 및 67개의 위유전자(pseudo gene)가 확인되었다. 초안 유전체에서 균주 DSW4-44는 Pelagicola 속의 다른 균주에서 발견되지 않는 이화적 질산염의 암모늄 환원과 탈질화의 질소대사 유전자를 가지고 있었다.

Keywords

References

  1. Kanehisa M, Sato Y, and Morishima K. 2016. BlastKOALA and GhostkOALA: KEGG tools for functional characterization of genome and metagenome sequences. J. Mol. Biol. 428, 726-731. https://doi.org/10.1016/j.jmb.2015.11.006
  2. Kim YG, Hwang CY, and Cho BC. 2008. Pelagicola litoralis gen. nov., sp. nov., isolated from coastal water in Korea. Int. J. Syst. Evol. Microbiol. 58, 2102-2106. https://doi.org/10.1099/ijs.0.65820-0
  3. Lee I, Chalita M, Ha SM, Na SI, Yoon SH, and Chun J. 2017. ContEst16S: An algorithm that identifies contaminated prokaryotic genomes using 16S RNA gene sequences. Int. J. Syst. Evol. Microbiol. 67, 2053-2057. https://doi.org/10.1099/ijsem.0.001872
  4. Park S, Jung YT, and Yoon JH. 2013. Pelagicola litorisediminis sp. nov., a novel alphaproteobacterium isolated from tidal flat sediment. Antonie van Leeuwenhoek 104, 103-110. https://doi.org/10.1007/s10482-013-9930-4
  5. Pujalte MJ, Lucena T, Ruvira MA, Arahal DR, and Macian MC. 2014. The family Rhodobacteraceae, pp. 439-512. In Rosenberg E, DeLong EF, Lory S, Stackebrandt E, and Thompson, F. (eds.), The prokaryotes: Alphaproteobacteria and betaproteobacteria, Springer Berlin Heidelberg, Berlin, Heidelberg.
  6. Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP, Zaslavsky L, Lomsadze A, Pruitt KD, Borodovsky M, and Ostell J. 2016. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res. 44, 6614-6624. https://doi.org/10.1093/nar/gkw569
  7. Zhao D, Li J, Lin S, Liang X, Lin X, and Sun X. 2018. Draft genome sequence of Pelagicola sp. strain LXJ1103, isolated from coastal surface seawater. Microbiol. Resour. Announc. 7, e00941-18.