Cultivation of previously uncultured sponge-associated bacteria using advanced cultivation techniques: A perspective on possible key mechanisms
Most of the microbes from natural habitats cannot be cultivated with standard cultivation in laboratory, and sponge-associated microbes are no exception. We used two advanced methods based on a continuous-flow bioreactor (CF) and in situ cultivation (I-tip) to isolate previously uncultivated marine...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-08-01
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| Series: | Frontiers in Marine Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fmars.2022.963277/full |
| _version_ | 1811188781555908608 |
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| author | Dawoon Jung Koshi Machida Yoichi Nakao Yoichi Nakao Jeffrey S. Owen Shan He Shan He Tomonori Kindaichi Tomonori Kindaichi Akiyoshi Ohashi Akiyoshi Ohashi Yoshiteru Aoi Yoshiteru Aoi |
| author_facet | Dawoon Jung Koshi Machida Yoichi Nakao Yoichi Nakao Jeffrey S. Owen Shan He Shan He Tomonori Kindaichi Tomonori Kindaichi Akiyoshi Ohashi Akiyoshi Ohashi Yoshiteru Aoi Yoshiteru Aoi |
| author_sort | Dawoon Jung |
| collection | DOAJ |
| description | Most of the microbes from natural habitats cannot be cultivated with standard cultivation in laboratory, and sponge-associated microbes are no exception. We used two advanced methods based on a continuous-flow bioreactor (CF) and in situ cultivation (I-tip) to isolate previously uncultivated marine sponge-associated bacteria. We also characterized the physiological properties of the isolates from each method and attempted to clarify the mechanisms operating in each cultivation method. A greater number of novel bacteria were isolated using CF and in situ cultivation compared to standard direct plating (SDP) cultivation. Most isolates from CF cultivation were poor growers (with lower specific growth rates and saturated cell densities than those of isolates from SDP cultivation), demonstrating that it is effective to carry out pre-enrichment cultivation targeting bacteria that are less competitive on conventional cultivation, especially K-strategists and bacterial types inhibited by their own growth. Isolates from in situ cultivation showed a positive influence on cell recovery stimulated by chemical compounds in the extract of sponge tissue, indicating that some of the bacteria require a “growth initiation factor” that is present in the natural environment. Each advanced cultivation method has its own distinct key mechanisms allowing cultivation of physiologically and phylogenetically different fastidious bacteria for cultivation compared with conventional methods. |
| first_indexed | 2024-04-11T14:23:56Z |
| format | Article |
| id | doaj.art-fa0b13d589ff4dc28ef320cac95a5dd2 |
| institution | Directory Open Access Journal |
| issn | 2296-7745 |
| language | English |
| last_indexed | 2024-04-11T14:23:56Z |
| publishDate | 2022-08-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Marine Science |
| spelling | doaj.art-fa0b13d589ff4dc28ef320cac95a5dd22022-12-22T04:18:56ZengFrontiers Media S.A.Frontiers in Marine Science2296-77452022-08-01910.3389/fmars.2022.963277963277Cultivation of previously uncultured sponge-associated bacteria using advanced cultivation techniques: A perspective on possible key mechanismsDawoon Jung0Koshi Machida1Yoichi Nakao2Yoichi Nakao3Jeffrey S. Owen4Shan He5Shan He6Tomonori Kindaichi7Tomonori Kindaichi8Akiyoshi Ohashi9Akiyoshi Ohashi10Yoshiteru Aoi11Yoshiteru Aoi12Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, Higashihiroshima, JapanResearch Institute for Science and Engineering, Waseda University, Tokyo, JapanResearch Institute for Science and Engineering, Waseda University, Tokyo, JapanDepartment of Chemistry and Biochemistry, Graduate School of Advanced Science and Engineering, Waseda University, Tokyo, JapanDepartment of Environmental Science, Hankuk University of Foreign Studies, Yongin, South KoreaLi Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, College of Food and Pharmaceutical Sciences, Ningbo University, Ningbo, ChinaNingbo Institute of Marine Medicine, Peking University, Ningbo, ChinaDepartment of Civil and Environmental Engineering, Graduate School of Engineering, Hiroshima University, Higashihiroshima, JapanGraduate School of Advanced Science and Engineering, Hiroshima University, Higashihiroshima, JapanDepartment of Civil and Environmental Engineering, Graduate School of Engineering, Hiroshima University, Higashihiroshima, JapanGraduate School of Advanced Science and Engineering, Hiroshima University, Higashihiroshima, JapanDepartment of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, Higashihiroshima, JapanUnit of Biotechnology, Graduate School of Integrated Sciences for Life, Hiroshima University, Higashihiroshima, JapanMost of the microbes from natural habitats cannot be cultivated with standard cultivation in laboratory, and sponge-associated microbes are no exception. We used two advanced methods based on a continuous-flow bioreactor (CF) and in situ cultivation (I-tip) to isolate previously uncultivated marine sponge-associated bacteria. We also characterized the physiological properties of the isolates from each method and attempted to clarify the mechanisms operating in each cultivation method. A greater number of novel bacteria were isolated using CF and in situ cultivation compared to standard direct plating (SDP) cultivation. Most isolates from CF cultivation were poor growers (with lower specific growth rates and saturated cell densities than those of isolates from SDP cultivation), demonstrating that it is effective to carry out pre-enrichment cultivation targeting bacteria that are less competitive on conventional cultivation, especially K-strategists and bacterial types inhibited by their own growth. Isolates from in situ cultivation showed a positive influence on cell recovery stimulated by chemical compounds in the extract of sponge tissue, indicating that some of the bacteria require a “growth initiation factor” that is present in the natural environment. Each advanced cultivation method has its own distinct key mechanisms allowing cultivation of physiologically and phylogenetically different fastidious bacteria for cultivation compared with conventional methods.https://www.frontiersin.org/articles/10.3389/fmars.2022.963277/fulluncultured microbescultivationcontinuous-flow bioreactorslow-growing bacteriain situ cultivationI-tip cultivation |
| spellingShingle | Dawoon Jung Koshi Machida Yoichi Nakao Yoichi Nakao Jeffrey S. Owen Shan He Shan He Tomonori Kindaichi Tomonori Kindaichi Akiyoshi Ohashi Akiyoshi Ohashi Yoshiteru Aoi Yoshiteru Aoi Cultivation of previously uncultured sponge-associated bacteria using advanced cultivation techniques: A perspective on possible key mechanisms Frontiers in Marine Science uncultured microbes cultivation continuous-flow bioreactor slow-growing bacteria in situ cultivation I-tip cultivation |
| title | Cultivation of previously uncultured sponge-associated bacteria using advanced cultivation techniques: A perspective on possible key mechanisms |
| title_full | Cultivation of previously uncultured sponge-associated bacteria using advanced cultivation techniques: A perspective on possible key mechanisms |
| title_fullStr | Cultivation of previously uncultured sponge-associated bacteria using advanced cultivation techniques: A perspective on possible key mechanisms |
| title_full_unstemmed | Cultivation of previously uncultured sponge-associated bacteria using advanced cultivation techniques: A perspective on possible key mechanisms |
| title_short | Cultivation of previously uncultured sponge-associated bacteria using advanced cultivation techniques: A perspective on possible key mechanisms |
| title_sort | cultivation of previously uncultured sponge associated bacteria using advanced cultivation techniques a perspective on possible key mechanisms |
| topic | uncultured microbes cultivation continuous-flow bioreactor slow-growing bacteria in situ cultivation I-tip cultivation |
| url | https://www.frontiersin.org/articles/10.3389/fmars.2022.963277/full |
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