Publications

Ohki, K., Kamiya, M., Honda, D., Kumazawa, S., Ho, K. K. Morphological and phylogenetic studies on unicellular diazotrophic cyanobacterira (cyanophytes) isolated from the coastal water around Singapore. Journal of Phycology 44: 142-151 (2008).

Sekimoto, S., Yokoo, K., Kawamura, Y., Honda, D. Taxonomy, molecular phylogeny, and ultrastructural morphology of Olpidiopsis porphyrae sp. nov. (Oomycetes, stramenopiles), a unicellular obligate endoparasite of Bangia and Porphyra spp. (Bangiales, Rhodophyra). Mycological Research 112: 361-374 (2008).

Sekimoto, S., Beakes, G, W., Gachon, C. M. M., Müller, D. G., Küpper, F. C., Honda, D. The development, ultrastructural cytology, and molecular phylogeny of the basal oomycete Eurychasma dicksonii, infecting the filamentous phaeophyte algae Ectocarpus siliculosus and Pylaiella littoralis. Protist 159: 299-318 (2008)

Kumon, Kamisaka, Tomita, Kimura, Uemura, Yokochi, Yokoyama & Honda (2008)
Isolation and characterization of a delta5-desaturase from Oblongichytrium sp.
Biosci. Biotechnol. Biochem. 72 (8): 2224-2227
http://www.jstage.jst.go.jp/browse/bbb/72/8/_contents/-char/ja/

Tsui, Marshall, Yokoyama, Honda, Lippmeier, Craven, Peterson, Berbee. Labyrinthulomycetes phylogeny and its implications for the evolutionary loss of chloroplasts and gain of ectoplasmic gliding. Molecular Phylogenetics and Evolution (in press).

Honda D. Shono T, Kimura K, Fujita S, Iseki M, Makino Y, Murakami A. Homologs of the sexually induced gene 1 (sig1) product constitute the stramenopile mastigonemes. Protist 156: 77-88 (2007).

Hosoi-Tanabe S, Honda D, Fukaya S, Otake I, Inagaki Y, Sako Y. Erection of the genus Pseudochattonella verruculosa comb. nov. in the Dictyochophyceae for formally known as the raphidophyte Chattonella verruculosa based on 18S rDNA phylogeny and ultrastructural characteristics. Phycol Res 2:91-97 (2007).

Yokoyama R, Honda D Taxonomic rearrangement of the genus Schizochytrium sensu lato based on morphology, chemotaxonomical characteristics and 18S rRNA gene phylogeny (Thraustochytriaceae, Labyrinthulomycetes): emendation for Schizochytrium and erection of Aurantiochytrium and Oblongichytrium gen. nov. Mycoscience 48:199-211 (2007).

Sekimoto S, Hatai K, Honda D. Molecular phylogeny of an unidentified Haliphthoros-like marine oomycete and Haliphthoros milfordensis inferred from nuclear-encoded small and large subunit rRNA genes and mitochondrial-encoded cox2 gene. Mycoscience 48: 212-221 (2007).

Takao Y, Tomaru Y, Nagasaki K, Sasakura Y, Yokoyama R, Honda D. Fluorescence in situ hybridization using 18S rRNA-targeted probe for specific detection of thraustochytrids (Labyrinthulomycetes). Plankton & Benthos Research 2: 91-97 (2007).

Yokoyama R, Salleh B, Honda D. Taxonomic rearrangement of the genus Ulkenia sensu lato phylogeny based on morphology, chemotaxonomical characteristics and 18S rRNA gene (Thraustochytriaceae, Labyrinthulomycetes): emendation for Ulkenia and erection of Botryochytrium, Parietichytrium and Sicyoichytrium gen. nov. Mycoscience 48:329-341 (2007).

Takao, Y., Nagasaki, K., Honda, D. Squashed ball-like dsDNA virus infecting a marine fungoid protist Sicyoidochytrium minutum (Thraustochytriaceae, Labyrinthulomycetes). Aquatic Microbial Ecology 49: 101-108 (2007).

Kumon Y, Yokoyama R, Haque Z, Yokochi T, Honda D, Nakahara T. A new labyrinthulid isolate that produces only Docosahexaenoic acid. Marine Biotechnology 8: 170-177 (2006).

Takao Y, Mise K, Nagasaki K, Okuno T, Honda D. Complete nucleotide sequence and genome organization of a single-stranded RNA virus infecting the marine fungoid protist Schizochytrium sp. J Gen Virol. 87: 723-733 (2006).

Shirai, Y., Takao, Y., Mizumoto, H., Tomaru, Y., Honda, D. and Nagasaki, K. Genomic and phylogenetic analysis of a single-stranded RNA virus infecting Rhizosolenia setigera (Stramenopiles: Bacillariophyceae). Journal of the Marine Biological Association of the United Kingdom 86: 475-483 (2006).

Yuasa T, Takahashi O, Dolven JK, Mayama S, Matsuoka A, Honda D, Bjørkund KR. Phylogenetic position of the small solitary phaeodarians (Radiolaria) based on 18S rDNA sequences by single cell PCR analysis. Marine Micropaleontology 59: 104-114 (2006).

Honda D. Pseudofungi and others (3), (4). In The World of Microorganisms (Eds. by Miyadoh S, Okuda T, Inouye I, Goto T), The Tsukuba Press, Japan. pp. 136-137 (2006).

Yoshitake Takao, Keizo Nagasaki, Kazuyuki Mise, Tetsuro Okuno, Daiske Honda. Isolation and characterization of a novel single-stranded RNA virus (SssRNAV) infectious to a marine fungoid protist Schizochytrium sp. (Thraustochytriaceae, Labyrinthulae). Applied and Environmental Microbiology 71: 4516-4522 (2005).

Yuasa T, Takahashi O, Honda D, Mayama S. Phylogenetic analyses of the polycystine Radiolaria based on the 18S rDNA sequences of the Spumellariada and Nessellarida. Eur. J. Protistol. 41: 287-298 (2005)

Takahashi, O., Yuasa, T., Honda, D., Mayama, S. Molecular phylogeny of solitary shell-bearing Polycystinea (Radiolaria). Revue de Micropaleontologie 47: 111-118 (2004).

Jianzhong Huang, Tsunehiro Aki, Toshihiro Yokochi, Toro Nakahara, Daiske Honda, Seiji Kawamoto, Seiko Shigeta, Kazuhisa Ono, and Osamu Suzuki. Grouping newly isolated docosahexaenoic acid-producing thraustochytrids based on their polyunsaturated fatty acid profiles and comparative analysis of 18S rRNA genes. Marine Biotechnology 5: 450-457 (2003)

Yasuyuki Kumon, Rinka Yokoyama, Toshihiro Yokochi, Daiske Honda, Toro Nakahara. A new labyrinthulid isolate, which solely produces n-6 docosapentaenoic acid. Applied Microbiology and Biotechnology 63: 22-28 (2003)

Masanobu Kawachi, Isao Inouye, Daiske Honda, Charles J. O'Kelly, J. Craig Bailey, Robert R. Bidigare and Robert A. Andersen. The Pinguiophyceae classis nova, a new class of chromophyte algae whose members produce large amounts of omega-3 fatty acids. Phycological Research 50: 31-47 (2002).

Daiske Honda and Isao Inouye. Ultrastructure and taxonomy of pelagic golden flagellate Phaeomonas parva gen. et sp. nov. (Pinguiophyceae) with particular emphasis on the flagellar apparatus architecture. Phycological Research 50: 75-89 (2002).

Daiske Honda, Akira Yokota, and Junta Sugiyama (2001) Phylogenetic significance of cell ultrastructural morphology in marine Synechococcus strains (Cyanobacteria). The Journal of General and Applied Microbiolog (submitted).

Maruyama, A., Honda, D., Yamamoto, H., Kitamura, K., Higashihara, T. (2000) Phylogenetic analysis of psychrotrophic bacteria isolated from the Japan Trench, including a description of the deep-sea species Psychrobacter pacificensis sp. nov. International Journal of Systematic and Evolutionary Microbiology 50: 835-846.

Hongik Kim, Daiske Honda, Satoshi Hanada, Norihiro Kanamori, Satoshi Shibata, Taro Miyaki, Kazunori Nakamura and Hiroshi Oyaizu (2000) A Deeply Branched Novel Phylotype Found in Japanese Paddy Soils. Microbiology 146: 2309-2315.

Honda, D., Yokota, A., Sugiyama, J. (1999) Detection of seven major evolutionary lineages in Cyanobacteria based on the 16S rRNA gene sequence analysis with new sequences of five marine Synechococcus strains. Journal of Molecular Evolution 48: 723-739.

Honda, D., Yokochi, T., Nakahara, T., Raghukumar, S., Nakagiri, A., Schaumann, K., Higashihara, T. (1999) Molecular phylogeny of labyrinthulids and thraustochytrids based on the sequencing of 18S ribosomal RNA gene. Journal of Eukaryotic Microbiology 46: 637-647.

Honda, D., Yokochi, T., Nakahara, T, Erata, M & Higashihara, T. (1998) Schizochytrium limacinum sp. nov., a new thraustochytrid from mangrove area in the west Pacific Ocean. Mycological Research 102: 439-448.

Yokochi, T., Honda, D., Higashihara, T. & Nakahara, T. (1998) Optimization of docosahexaenoic acid production by Schizochytrium limacinum SR21. Applied Microbiology and Biotechnology 49: 72-76.

Nakahara, T., Yokochi, T., Higashihara, T., Tanaka, S., Yaguchi, T. and Honda, D. (1996) Production of docosahexaenoic and docosapentaenoic acids by Schizochytrium sp. isolated from Yap Islands. Journal of the American Oil Chemists' Society 73 (11): 1421-1426.

Daiske Honda, Masanobu Kawachi and Isao Inouye. 1995. Sulcochrysis biplastida gen. et sp. nov.: cell structure and absolute configuration of the flagellar apparatus of an enigmatic chromophyte alga. Phycological Research 43: 1-16.

Daiske Honda and Isao Inouye. 1995. Ultrastructure and reconstruction of the flagellar apparatus architecture in Ankylochrysis lutea (Chrysophyceae, Sarcinochrysidales). Phycologia 34: 215-227.

Christopher S. Lobban, Daiske Honda, Mitsuo Chihara and María Schefter. 1995. Chrysocystis fragilis gen. nov., sp. nov. (Chrysophyceae, Sarcinochrysidales), with note on other macroscopic chrysophytes (golden algae) on Guam reefs. Micronesica 28: 91-102.

Isao Inouye, Masanobu Kawachi and Daiske Honda. 1993. Prasinophytes. In: Effect of N : P ratio in water on aquatic organisms (Ed. by Y. Yoshida), pp. 29-38. Kouseisya-Kouseikaku Press, Tokyo.

Daiske Honda. 1993. Ankylochrysis lutea (Van der Veer) Billard. In: An illustrated atlas of the life history of algae. Vol. 3. unicellular and flagellated algae (Ed by T. Hori), pp. 72-73.

Daiske Honda. 1993. Chrysocystis fragilis Lobban, Honda et Chihara. In: An illustrated atlas of the life history of algae. Vol. 3. unicellular and flagellated algae (Ed by T. Hori), pp. 74-75.

Daiske Honda. 1993. Phaeosaccion collinsii Farlow. In: An illustrated atlas of the life history of algae. Vol. 3. unicellular and flagellated algae (Ed by T. Hori), pp. 76-77.

Daiske Honda. 1993. Sarcinochrysis marina Geitler. In: An illustrated atlas of the life history of algae. Vol. 3. unicellular and flagellated algae (Ed by T. Hori), pp. 78-79.

Daiske Honda. 1993. Apedinella spinifera (Throndsen) Throndsen. In: An illustrated atlas of the life history of algae. Vol. 3. unicellular and flagellated algae (Ed by T. Hori), pp. 102-103.

Daiske Honda. 1993. Pseudopedinella pyriformis Carter. In: An illustrated atlas of the life history of algae. Vol. 3. unicellular and flagellated algae (Ed by T. Hori), pp. 104-105.

Daiske Honda. 1993. Dictyocha speculum Ehrenberg. In: An illustrated atlas of the life history of algae. Vol. 3. unicellular and flagellated algae (Ed by T. Hori), pp. 110-111.

Daiske Honda, Masanobu Kawachi and Isao Inouye. 1992. Floristic studies on the marine microalgae along the coast of Yokohama city. Report from the Environmental Protection Bureau of Yokohama City 161: 411-428.