Korean Journal of Microbiology (미생물학회지)

The Microbiological Society of Korea (한국미생물학회)
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Draft genome sequence of a marine Flavobacteria Flagellimonas eckloniae DOKDO 007T

해양 Flavobacteria Flagellimonas eckloniae DOKDO 007T 의 유전체 염기서열 해독

  • Kwon, Yong Min (National Marine Biodiversity Institute of Korea) ;
  • Kumar, Patra Ajit (National Marine Biodiversity Institute of Korea) ;
  • Kim, Sang-Jin (National Marine Biodiversity Institute of Korea) ;
  • Kwon, Kae Kyoung (Marine Biotechnology Research Center, Korea Institute of Ocean Science and Technology)
  • 권용민 (국립해양생물자원관) ;
  • ;
  • 김상진 (국립해양생물자원관) ;
  • 권개경 (해양생명공학연구센터 한국해양과학기술원)
  • Received : 2018.10.22
  • Accepted : 2018.11.08
  • Published : 2018.12.31
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Abstract

Flagellimonas eckloniae DOKDO $007^T$, isolated from the rhizosphere of the marine algae Ecklonia kurome collected from Dokdo Island, South Korea, is a marine Flavobacteria belonging to the family Flavobacteriaceae. The genome consists of 4,132,279 bp, 3,527 coding sequences with 37.85% G + C contents and two contigs in one scaffold chromosome. This strain contains a gene encoding proteorhodopsin, as well as other retinal biosynthesis genes, allowing it to utilize sunlight as an energy source. The strain contained only few segment of flagellar constructing gene cluster and this is not consistent with genus name Flagellimonas, therefore, revision of the genus name is required.

Flavobacteriaceae에 속하는 해양 Flavobacteria인 Flagellimonas eckloniae DOKDO $007^T$은 독도에서 서식하는 조류(Ecklonia kurome)에서 분리되었다. DOKDO $007^T$ 균주의 유전체는 4,132,279 bp 크기로 3,527개의 코딩 서열과 37.85%의 GC 함량을 가지며, 하나의 스케폴드에서 두 개의 콘티그로 구성되어 있다. 이 균주는 태양광을 에너지원으로써 이용할 수 있는 여러 레티날 생합성 유전자들과 마찬가지로 프로테오로돕신을 인코딩하는 유전자를 함유하고 있다. 속명과는 달리 편모 형성에 관여하는 유전자가 충분하지 못한 것을 감안하여 속명의 개정이 필요하다.

Keywords

Table 1. General features of Flagellimonas eckloniae DOKDO 007T

MSMHBQ_2018_v54n4_460_t0001.png 이미지

References

  1. Bae SS, Kwon KK, Yang SH, Lee HS, Kim SJ, and Lee JH. 2007. Flagellimonas eckloniae gen. nov., sp. nov., a mesophilic marine bacterium of the family Flavobacteriaceae, isolated from the rhizosphere of Ecklonia kurome. Int. J. Syst. Evol. Microbiol. 57, 1050-1054. https://doi.org/10.1099/ijs.0.64565-0
  2. Beja O, Aravind L, Koonin EV, Suzuki MT, Hadd A, Nguyen LP, Jovanovich SB, Gates CM, Feldman RA, Spudich JL, et al. 2000. Bacterial rhodopsin: evidence for a new type of phototrophy in the sea. Science 289, 1902-1906. https://doi.org/10.1126/science.289.5486.1902
  3. Choi S, Lee JH, Kang JW, Choe HN, and Seong CN. 2018. Flagellimonas aquimarina sp. nov., and transfer of Spongiibacterium flavum Yoon and Oh 2012 and S. pacificum Gao et al. 2015 to the genus Flagellimonas Bae et al. 2007 as Flagellimonas flava comb. nov. and F. pacifica comb. nov., respectively. Int. J. Syst. Microbiol. 68, 3266-3272. https://doi.org/10.1099/ijsem.0.002975
  4. Fuhrman JA, Schwalbach MS, and Stingl U. 2008. Proteorhodopsins: an array of physiological roles? Nat. Rev. Microbiol. 6, 488-494. https://doi.org/10.1038/nrmicro1893
  5. Garrity GM and Holt JG. 2001. The road map to the manual, pp. 119-166. In Boone DR, Castenholz RW, and Garrity GM. (eds.), Bergey's manual of systematic bacteriology, 2nd edn, vol. 1, Springer, New York, USA.
  6. Gomez-Consarnau L, Gonzalez JM, Coll-Llado M, Gourdon P, Pascher T, Neutze R, Pedros-Alio C, and Pinhassi J. 2007. Light stimulates growth of proteorhodopsin-containing marine Flavobacteria. Nature 445, 210-213. https://doi.org/10.1038/nature05381
  7. Kimura H, Young CR, Martinez A, and DeLong EF. 2011. Lightinduced transcriptional responses associated with proteorhodopsinenhanced growth in a marine flavobacterium. ISME J. 5, 1641-1651. https://doi.org/10.1038/ismej.2011.36
  8. Man D, Wang W, Sabehi G, Aravind L, Post AF, Massana R, Spudich EN, Spudich JL, and Beja O. 2003. Diversification and spectral tuning in marine proteorhodopsins. EMBO J. 22, 1725-1731. https://doi.org/10.1093/emboj/cdg183
  9. Teramoto M, Takaichi S, Inomata Y, Ikenaga H, and Misawa N. 2003. Structural and functional analysis of a lycopene L-monocyclase gene isolated from a unique marine bacterium that produces myxol. FEBS Lett. 545, 120-126. https://doi.org/10.1016/S0014-5793(03)00513-1