- #Author(s) for correspondence, *Co-first author(s).
- Yazaki E#, Kume K, Shiratori T, Eglit Y, Tanifuji G, Harada R, Simpson A, Ishida K, Hashimoto T, Inagaki Y. Barthelonids represent a deep-branching metamonad clade with mitochondrion-related organelles predicted to generate no ATP. Proceedings of the Royal Society B. In press.
- Nakayama T, Takahashi K, Kamikawa R, Iwataki M, Inagaki Y, Tanifuji G#. Putative genome features of relic green alga-derived nuclei in dinoflagellates and future perspectives as model organisms. 2020. Communicative & Integrative Biology. 13(1) 84-88
- Takishita K#, Kawai R, Tsutsumi A, Tanifuji G, Otsubo M. Molecular detection of protists associated with the Manila clam Ruditapes philippinarum inhabiting the Wajiro tidal flat in Hakata Bay, Fukuoka Prefecture. 2020. Fish. Sci.
- Nishimura Y*, Kume K*, Sonehara K, Tanifuji G, Shiratori T, Ishida K, Hashimoto T, Inagaki Y#, Ohkuma M. Mitochondrial genomes of Hemiarma marina and Leucocryptos marina revised the evolution of cytochrome c maturation in Cryptista. 2020. Frontiers in Ecology and Evolution. 8 (140)
- Harada R., Hirakawa Y., Yabuki A., Kashiyama Y., Maruyama M., Onuma R., Soukai P., Miyagishima S., Hampl V., Tanifuji G., Inagaki Y#. Inventory and Evolution of Mitochondrion-localized Family A DNA Polymerases in Euglenozoa. 2020, Pathogens, 9(4):257 DOI:10.3390/pathogens9040257.
- Sarai C*, Tanifuji G*#, Nakayama T*, Kamikawa R*, Takahashi K, Miyashita H, Ishida K, Iwataki M#, Inagaki Y#. Dinoflagellates with relic endosymbiont nuclei as novel models for elucidating organellogenesis. 2020. Proc Natl Acad Sci USA.117(10):5364-5375.
- Tanifuji G#, Kamikawa R, Moore CE, Mills T, Onodera NT, Archibald JM, Inagaki Y, Hashimoto T, Comparative plastid genomics of Cryptomonas species reveals fine-scale genomic responses to loss of photosynthesis. 2020. Genome Biol Evol. 12(2):3926-3979.
- Nakayama T#, Nomura M, Takano Y, Tanifuji G, Shiba K, Inaba K, Inagaki Y, Kawata M. Single-cell genomics unveiled a cryptic cyanobacterial lineage with a worldwide distribution hidden by a dinoflagellate host. 2019. Proc Natl Acad Sci USA. 116 (32):15973-15978
- Kashiyama Y#, Yokoyama A, Shiratori T, Yabuki A, 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 T, Taira J, 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. Taming chlorophylls by early eukaryotes underpinned algal interactions and the diversification of the eukaryotes on the oxygenated Earth. 2019. The ISME Journal. 13:1899–1910
- Tanifuji G*#, Takabayashi S*, Kume K, Takagi M, Nakayama T, Kamikawa R, Inagaki Y, Hashimoto T#, The draft genome of Kipferlia bialata reveals reductive genome evolution in fornicate parasites. 2018, PLOS ONE. 13(3):e0194487
- Tanifuji G, Cenci U, Moog D, Dean S, Nakayama T, David V, Fiala I, Curtis BA, Sibbald SJ, Onodera NT, Colp M, Flegontov P, Johnson-MacKinnon J, McPhee M, Inagaki Y, Hashimoto T, Kelly S, Gull K, Lukeš J, Archibald JM#. Genome sequencing reveals metabolic and cellular interdependence in an amoeba-kinetoplastid symbiosis. Sci Rep 2017, 7(1):11688.
- Kamikawa R#, Moog D, Zauner S, Tanifuji G, Ishida K-I, Miyashita H, Mayama S, Hashimoto T, Maier UG, Archibald JM, Inagaki Y. A non-photosynthetic diatom reveals early steps of reductive evolution in plastids. Mol Biol Evol 2017, 34(9):2355-2366.
- Takishita K#, Chikaraishi Y, Tanifuji G, Ohkouchi N, Hashimoto T, Fujikura K, Roger AJ. Microbial eukaryotes that lack sterols. J Eukaryot Microbiol 2017, 64(6):897-900.
- 谷藤吾朗. ヌクレオモルフ・ゲノミクス・二次細胞内共生に伴うゲノム再編. 藻類. 2017, 65(2) 100-102
- Yazaki E, Ishikawa SA, Kume K, Kumagai A, Kamaishi T, Tanifuji G, Hashimoto T and Inagaki Y#. Global Kinetoplastea phylogeny inferred from a large-scale, multi-gene alignment including parasitic species and transitions from a free-living to a parasitic lifestyle. Genes Genet Syst 2017, 92(1):35-42.
- Nishimura Y, Tanifuji G, Kamikawa R, Yabuki A, Hashimoto T, Inagaki Y#. (2016) Mitochondrial genome of Palpitoomonas vilix: Derived genome structure and ancestral system for cytochrome c maturation. Genome Biol. Evol. 2016, 8(10):3090–3098
- Yabuki A#, Tanifuji G, Kusaka C, Takishita K, Fujikura K. Hyper-eccentric structural genes in the mitochondrial genome of the algal parasite Hemistasia phaeocysticola. 2016. Genome Biol. Evol. 8(9):2870-2878
- Tanifuji G#, Archibald JM, Hashimoto T. (2016) Comparative genomics of mitochondria in chlorarachniophyte algae: endosymbiotic gene transfer and organellar genome dynamics. Sci. Rep. 6, 21016.
- Cenci U., Moog D., Curtis BA., Tanifuji G., Eme L., Lukeš J., Archibald JM.# (2016) Heme pathway evolution in kinetoplastid protists. BMC Evol. Biol. 16:109.
- Noguchi F., Tanifuji G., Brown MW., Fujikura K., Takishita K.# (2016) Complex evolution of two types of cardiolipin synthase in the eukaryotic lineage stramenopiles. Mol. Phylo. Evol., 101 133-141
- David V., Flegontov P., Gerasimov E., Tanifuji G., Hashimi H., Logacheva MD., Maruyama S., Onodera NT., Gray MW., Archibald JM., Lukeš J.# (2015) Gene loss and error-prone RNA editing in the mitochondrion of Perkinsela, an endosymbiotic kinetoplastid. mBio. 6 (6) e01498-15.
- Kamikawa R.#, Tanifuji G., Ishikawa SA., Ishii K, Matsuno Y., Onodera NT., Ishida K., Hashimoto T., Miyashita H., Mayama S., Inagaki Y. (2015) Proposal of a twin-arginine translocator system-mediated constraint against loss of ATP synthase genes from nonphotosynthetic plastid genomes. Mol. Biol. Evol. 32 (10) 2598-2604.
- Tanifuji G., Onodera NT., Moore CE., Archibald JM.# (2014) Reduced nuclear genomes maintain high gene transcription levels. Mol. Biol. Evol. 31, 625-635.
- Tanifuji G., Onodera NT, Brown MW, Curtis BA, Roger AJ, Wong GKS, Melkonian M, Archibal JM.# (2014) Nucleomorph and plastid genome sequences of the chlorarachniophyte Lotharella oceanic: convergent reductive evolution and frequent recombination in nucleomorph-bearing algae. BMC Genomics 15, 374.
- Kamikawa R., Tanifuji G., Kawachi M., Miyashita H., Hashimoto T., Inagaki Y. (2014) Plastid genome-based phylogeny pinpointed the origin of the green-colored plastid in the dinoflagellate Lepidodinium chlorophorum. Genome. Biol. Evol. 7 (4) 1133-1140.
- Nakayama T., Kamikawa R., Tanifuji G., Kashiyama Y., Ohkouchi N, Archibald JM, Inagaki Y. (2014) Complete genome of a nonphotosynthetic cyanobacterium in a diatom reveals recent adaptations to an intracellular lifestyle. Proc Natl Acad Sci USA 111, 11407-114121.
- Flegontov P, Votypka J, Skalicky T, Logacheva MD, Penin AA, Tanifuji G., Onodera NT, Kondrashov AS, Volf P, Archibald JM, Lukes J, (2013) Paratrypanosoma is a novel early-branching trypanosomatid. Curr. Biol. 23, 1787-1793.
- Curtis BA., Tanifuji G., Burki F., Gruber A., Irimia M., Maruyama S., Arias MC., Ball SG., Gile GH., Hirakawa Y, Hopkins JF, Kuo A., Rensing SA., Schmutz J., Symeonidi A., Elias M., Eveleigh RJM., Herman EK., Klute MJ., Nakayama T., Oborník M., Reyes-Prieto A., Armbrust EV., Aves ST., Beiko RG., Coutinho P., Dacks JB, Durnford DG., Fast NM., Green BR., Grisdale C., Hempel F., Henrissat B., Höppner MP., Ishida K., Kim E., Kořený L., Kroth PG., Liu Y, Malik S., Maier UG., McRose D., Mock T., Neilson JAD., Onodera NT., Poole AM., Pritham EJ., Richards TA., Rocap G., Roy AW., Sarai C., Schaack S., Shirato S., Slamovits CH., Spencer DF., Suzuki S., Worden AZ., Zauner S., Barry K., Bell C., Bharti AK., Crow JA., Grimwood J., Kramer R., Lindquist E., Lucas S., Salamov A., McFadden GI., Lane CE., Keeling PJ., Gray MW., Grigoriev IV., Archibald JM.# (2012) Algal genomes reveal evolutionary mosaicism and the fate of nucleomorphs. Nature 495, 59-65.
- Moore CE, Curtis BA, Mills T, Tanifuji G, Archibald JM.# (2012) Nucleomorph genome sequence of the cryptophyte alga Chroomonas mesostigmatica reveals lineage-specific gene loss and genome complexity. Genome Biol. Evol. 4, 1162-1175.
- Tanifuji G.*, Kim E.*, Onodera NT.*, Gibeault R., Dlutek M., Cawthorn RJ., Fiala I., Lukes, J., Greenwood SJ., Archibald JM.# (2011) Genomic characterization of Neoparamoeba pemaquidensis (Amoebozoa) and its kinetoplastid endosymbiont. Eukaryot. Cell, 10, 1143-1146.
- Goro Tanifuji (2011) Reductive genome evolution in nucleomorphs. Jpn. J. Protozool. Vol. 44, No. 2
- Tanifuji G., Onodera NT., Wheeler TJ., Dlutek M., Donaher N., Archibald JM.# (2011) Complete nucleomorph genome sequence of the non-photosynthetic alga Cryptomonas paramecium reveals a core nucleomorph gene set. Genome Biol. Evol. 3, 44-54.
- Tanifuji G., and Archibald, JM.# (2010) Actin gene family dynamics in cryptomonads and red algae. J. Mol. Evol. 71(3) 169-179.
- Tanifuji G.#, Onodera NT., Hara Y. (2010) Nucleomorph genome diversity and its phylogenetic implications in cryptomonad algae. Phycol. Res. 58 (3) 230-237.
- Donaher N., Tanifuji G., Onodera NT., Malfatti SA., Chain PGS., Hara Y., Archibald JM.# (2009) The complete plastid genome sequence of the secondarily non photosynthetic alga Cryptomonas paramecium: Reduction, compaction, and accelerated evolutionary rate. Genome Biol. Evol. 1: 439-448.
- 谷藤吾朗, 珪藻類はかつてプラシノ藻類由来の色素体を持っていたか? (2009) Jpn.J.Phycol. 57:134-136.
- Tanifuji G.#, Onodera N., Erata M., Ishida K., Hara Y. (2006) Diversity of actin-coding genes in cryptomonads of secondary symbiotic organisms and their evolutionary implications. J. Plant Res. 119 (3) 205 - 215.
- Uchida H., Suzuki K., Tanifuji G., Yamaguchi T., Misumi O., Kuroiwa T., Hara Y. (2004) cAMP responsive element-like sequences are detected in the upstream region of a mating gene of the green alga, Chlamydomonas reinhardtii. Cytologia 69(1): 63-68.
谷藤 吾朗 Goro Tanifuji
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