Papers - HONDA Daisuke
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Yohei Ishibashi, Hatsumi Goda, Rie Hamaguchi, Keishi Sakaguchi, Takayoshi Sekiguchi, Yuko Ishiwata, Yuji Okita, Seiya Mochinaga, Shingo Ikeuchi, Takahiro Mizobuchi, Yoshitake Takao, Kazuki Mori, Kosuke Tashiro, Nozomu Okino, Daiske Honda, Masahiro Hayashi, Makoto Ito
Communications Biology 4 ( 1 ) 2021.12
Publisher:Springer Science and Business Media LLC
Abstract
The demand for n-3 long-chain polyunsaturated fatty acids (n-3LC-PUFAs), such as docosahexaenoic acid (DHA) and eicosapentaenoic acid (EPA), will exceed their supply in the near future, and a sustainable source of n-3LC-PUFAs is needed. Thraustochytrids are marine protists characterized by anaerobic biosynthesis of DHA via polyunsaturated fatty acid synthase (PUFA-S). Analysis of a homemade draft genome database suggested that Parietichytrium sp. lacks PUFA-S but possesses all fatty acid elongase (ELO) and desaturase (DES) genes required for DHA synthesis. The reverse genetic approach and a tracing experiment using stable isotope-labeled fatty acids revealed that the ELO/DES pathway is the only DHA synthesis pathway in Parietichytrium sp. Disruption of the C20 fatty acid ELO (C20ELO) and ∆4 fatty acid DES (∆4DES) genes with expression of ω3 fatty acid DES in this thraustochytrid allowed the production of EPA and n-3docosapentaenoic acid (n-3DPA), respectively, at the highest level among known microbial sources using fed-batch culture.DOI: 10.1038/s42003-021-02857-w
Other Link: https://www.nature.com/articles/s42003-021-02857-w
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Draft Genome Sequence of Sicyoidochytrium minutum DNA Virus Strain 001 Reviewed
Yumi Murakoshi, Takayuki Shimeki, Daiske Honda, Yoshitake Takao
Microbiology Resource Announcements 10 ( 23 ) 2021.6
Publisher:American Society for Microbiology
Sicyoidochytrium minutum DNA virus strain 001 (SmDNAV 001) is a double-stranded DNA (dsDNA) virus that infects the marine fungoid protist Sicyoidochytrium minutum . We report the draft genome sequence of SmDNAV 001. The 236,345-bp genome contained 358 coding sequences (CDSs) and three tRNA-coding sequences.
DOI: 10.1128/mra.00418-21
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Taming chlorophylls by early eukaryotes underpinned algal interactions and the diversification of the eukaryotes on the oxygenated Earth. Reviewed International coauthorship
Kashiyama, Y., Yokoyama, A., Shiratori, T., Hess, S., Not, F., Bachy, C., Gutierrez-Rodriguez, A., Kawahara, J., Suzaki, T., Nakazawa, M., Ishikawa, T., Maruyama, M., Wang, M., Chen, M., Gong, Y., Seto, K., Kagami, M., Hamamoto, Y., Honda, D., Umetani, T., Shihongi, A., Kayama, M., Matsuda, M., Taira, J., Yabuki, A., Tsuchiya, M., Hirakawa, Y., Kawaguchi, A., Nomura, M., Nakamura, A., Namba, N., Matsumoto, M., Tanaka, T., Yoshino, T., Higuchi, R., Yamamoto, A., Maruyama, T., Yamaguchi, A., Uzuka, A., Miyagishima, S., Tanifuji, G., Kawachi, M., Kinoshita, Y., Tamiaki, H.
The ISME Journal 13 1899 - 1910 2019.2
Joint Work
DOI: 10.1038/s41396-019-0377-0
Other Link: https://www.nature.com/articles/s41396-019-0377-0
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Nutritional intake of Aplanochytrium (Labyrinthulea, Stramenopiles) from living diatoms revealed by culture experiments suggesting the new prey–predator interactions in the grazing food web of the marine ecosystem. Reviewed
Hamamoto, Y., Honda, D.
PLoS ONE 14 ( 1 ) e0208941 2019.1
Joint Work
Authorship:Last author, Corresponding author
DOI: 10.1371/journal.pone.0208941
Other Link: https://doi.org/10.1371/journal.pone.0208941
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Iwata I, Honda D.
Protist 169 ( 6 ) 978 - 979 2018.12
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Abe E, Ikeda K, Nutahara E, Hayashi M, Yamashita A, Taguchi R, Doi K, Honda D, Okino N, Ito M.
PLoS ONE 13 ( 8 ) e0203016 - e0203016 2018.8
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Elemental composition and ultrafine structure of the skeleton in shellbearing protists—A case study of phaeodarians and radiolarians Reviewed
Nakamura, Y., Iwata, I., Hori, R. S., Uchiyama, N., Tuji, A., Fujita, M. J., Honda, D., Ohfuji, H.
Journal of Structural Biology 204 45 - 51 2018.7
Joint Work
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Nutritional intake by ectoplasmic nets of Schizochytrium aggregatum (Labyrinthulomycetes, Stramenopiles). Reviewed
Iwata, I., Honda, D.
Protist 169 727 - 743 2018.6
Joint Work
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Possible aplanochytrid (Labyrinthulea) prey detected using 18S metagenetic diet analysis in the key copepod species Calanus sinicus in the coastal waters of the subtropical western North Pacific Reviewed
Hirai, J., Hamamoto, Y., Honda, D., Hidaka, K.
Plankton and Benthos Research 13 ( 2 ) 75 - 82 2018.5
Joint Work
DOI: 10.3800/pbr.13.75
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Proposal of Monorhizochytrium globosum gen. nov., comb. nov.(Stramenopiles, Labyrinthulomycetes) for former Thraustochytrium globosum based on morphological features and phylogenetic relationships Reviewed
Doi, K., Honda, D.
Phycological Research 65 ( 3 ) 188 - 201 2017.7
Joint Work
DOI: 10.1111/pre.12175
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Bothrosome formation in Schizochytrium aggregatum (Labyrinthulomycetes, Stramenopiles) during zoospore settlement Reviewed
Izumi Iwata, Kei Kimura, Yuji Tomaru, Taizo Motomura, Kanae Koike, Kazuhiko Koike, Daiske Honda
Protist 168 ( 2 ) 206 - 219 2017.4
Joint Work
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Ecological dynamics of two distinct viruses infecting marine eukaryotic decomposer thraustochytrids (Labyrinthulomycetes, Stramenopiles) Reviewed
Yoshitake Takao, Yuji Tomaru, Keizo Nagasaki, Daiske Honda
PLOS ONE 10 ( 7 ) e0133395 2015.7
Joint Work
DOI: 10.1371/journal.pone.0133395
Other Link: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0133395
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Seasonal dynamics of culturable thraustochytrids (Labyrinthulomycetes, Stramenopiles) in estuarine and coastal waters Reviewed
Ueda, M., Nomura, Y., Doi, K., Nakajima, M., Honda, D.
Aquatic Microbial Ecology 74 187 - 204 2015.3
Joint Work
DOI: 10.3354/ame01736
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Novel lysophospholipid acyltransferase PLAT1 of Aurantiochytrium limacinum F26-b responsible for generation of palmitate-docosahexaenoate-phosphatidylcholine and phosphatidylethanolamine. Reviewed
Abe, E., Ikeda, K., Nutahara, E., Hayashi, M., Yamashita A., Taguchi, R., Doi K., Honda D., Okino N., Ito, M.
PLoS ONE 9 ( 8 ) e102377 2014.8
Joint Work
DOI: 10.1371/journal.pone.0102377
Other Link: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0102377
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Bacillus ligniniphilus sp. nov., an alkaliphilic and halotolerant bacterium isolated from sediments of the South China Sea. Reviewed
Zhu, D., Tanabe, S., Xie, C., Honda, D., Sun, J., Ai, L.
International Journal of Systematic and Evolutionary Microbiology 64 1712 - 1717 2014.5
Joint Work
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TLC screening of thraustochytrid strains for squalene production. Reviewed
Nakazawa, A., Kokubun, Y., Matsuura, H., Yonezawa, N., Kose, R., Yoshida, M., Tanabe, Y., Kusuda, E., Thang, D. V., Ueda, M., Honda, D., Mahakhant, A., Kaya, K., Watanabe, M. M.
Journal of Applied Phycology 26 ( 1 ) 29 - 41 2014.2
Joint Work
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Effect of trace elements on growth of marine eukaryotes, tharaustochytrids Reviewed
Nagano N, Taoka Y, Honda D, Hayashi M.
Journal of Bioscience and Bioengineering 116 ( 3 ) 337 - 339 2013.9
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Analysis of delta-12-fatty acid desaturase function revealed that two distinct pathways are active for the synthesis of PUFAs in T. aureum ATCC 34304 Reviewed
Matsuda T, Sakaguchi K, Hamaguchi R, Kobayashi T, Abe E, Hama Y, Hayashi M, Honda D, Okita Y, Sugimoto S, Okino N, Ito M
Journal of Lipid Research 53 1210 - 1222 2012.2
Joint Work
DOI: 10.1194/jlr.M024935
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Versatile Transformation System That Is Applicable to both Multiple Transgene Expression and Gene Targeting for Thraustochytrids Reviewed
Sakaguchi K, Matsuda T, Kobayashi T, Ohara J, Hamaguchi R, Abe E, Nagano N, Hayashi M, Ueda M, Honda D, Okita Y, Taoka Y, Sugimoto S, Okino N, Ito M
Applied and Environmental Microbiology 78 ( 9 ) 3193 - 3202 2012.2
Joint Work
DOI: 10.1128/AEM.07129-11
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Optimization of culture conditions of the thraustochytrid Aurantiochytrium sp. strain 18W-13a for squalene production Reviewed
Nakazawa A, Matsuura H, Kose R, Kato S, Honda D, Inouye I, Kaya K, Watanabe MM
Bioresource Technology 109 287 - 291 2012
Joint Work