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Isolation, cultivation, and genome analysis of proteorhodopsin-containing SAR116-clade strain Candidatus Puniceispirillum marinum IMCC1322

  • Microbial Ecology and Environmental Microbiology
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Abstract

Strain IMCC1322 was isolated from a surface water sample from the East Sea of Korea. Based on 16S rRNA analysis, IMCC1322 was found to belong to the OCS28 sub-clade of SAR116. The cells appeared as short vibrioids in logarithmic-phase culture, and elongated spirals during incubation with mitomycin or in aged culture. Growth characteristics of strain IMCC1322 were further evaluated based on genomic information; proteorhodopsin (PR), carbon monoxide dehydrogenase, and dimethylsulfoniopropionate (DMSP)-utilizing enzymes. IMCC1322 PR was characterized as a functional retinylidene protein that acts as a light-driven proton pump in the cytoplasmic membrane. However, the PR-dependent phototrophic potential of strain IMCC1322 was only observed under CO-inhibited and nutrient-limited culture conditions. A DMSP-enhanced growth response was observed in addition to cultures grown on C1 compounds like methanol, formate, and methane sulfonate. Strain IMCC1322 cultivation analysis revealed biogeochemical processes characteristic of the SAR116 group, a dominant member of the microbial community in euphotic regions of the ocean. The polyphasic taxonomy of strain IMCC1322 is given as Candidatus Puniceispirillum marinum, and was confirmed by chemotaxonomic tests, in addition to 16S rRNA phylogeny and cultivation analyses.

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Acknowledgements

This research was supported by the Marine Biotechnology Program of the Korea Institute of Marine Science and Technology Promotion (KIMST) funded by the Ministry of Oceans and Fisheries (MOF) [No. 20180430]; and by the Korea National Research Fund [NRF-2017R1D1A1B03034706].

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Authors and Affiliations

  1. Institute of Liberal Arts Education, Pukyong National University, Busan, 48547, Republic of Korea

    Junhak Lee & Hyun-Myung Oh

  2. Korea Marine Equipment Research Institute, Busan, 46754, Republic of Korea

    Junhak Lee

  3. Marine Biotechnology Research Division, Korea Institute of Ocean Science & Technology, Busan, 49111, Republic of Korea

    Kae Kyoung Kwon, Sung-Hyun Yang, Jung-Hyun Lee & Sung Gyun Kang

  4. Cell Biotech, Co., Ltd., Gimpo, 10003, Republic of Korea

    Seung-Il Lim

  5. Division of Biology and Ocean Sciences, Inha University, Incheon, 22212, Republic of Korea

    Jaeho Song & Jang-Cheon Cho

  6. Department of Life Science and Interdisciplinary Program of Integrated Biotechnology, Sogang University, Seoul, 04107, Republic of Korea

    Ah Reum Choi & Kwang-Hwan Jung

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  1. Junhak Lee
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Lee, J., Kwon, K.K., Lim, SI. et al. Isolation, cultivation, and genome analysis of proteorhodopsin-containing SAR116-clade strain Candidatus Puniceispirillum marinum IMCC1322. J Microbiol. 57, 676–687 (2019). https://doi.org/10.1007/s12275-019-9001-2

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