Research Results

List of research achievements by the representative

■Original Article (peer reviewed)

  1. Erika Toda, Shizuka Koshimizu, Atsuko Kinoshita, Tetsuya Higashiyama, Takeshi Izawa, Kentaro Yano, Takashi Okamoto (2025) Transcriptional dynamics during karyogamy in rice zygotes. Development, 152(3):DEV204691. 10.1242/dev.204497 (January 7, 2025).
  2. Tety Maryenti, Shizuka Koshimizu, Nonoka Onda, Takayoshi Ishii, Kentaro Yano, Takashi Okamoto (2024) Wheat Cybrid Plants, OryzaWheat, Regenerated from Wheat-Rice Hybrid Zygotes via in Vitro Fertilization System Possess Wheat-Rice Hybrid Mitochondria. Plant and Cell Physiology, 65(8):1344-1357.
  3. Hiroyuki Tanaka, Tatsuki Hori, Shohei Yamamoto, Atsushi Toyoda, Kentaro Yano, Kyoko Yamane, Takehiko Itoh (2023) Haplotype-resolved chromosomal-level assembly of wasabi (Eutrema japonicum) genome, Scientific Data 10: 441.
  4. Shizuka Koshimizu, Naoki Minamino, Tomoaki Nishiyama, Emiko Yoro, Mayuko Sato, Mayumi Wakazaki, Kiminori Toyooka, Kazuo Ebine, Keiko Sakakibara, Takashi Ueda*, Kentaro Yano* (*; Corresponding author) (2022) Phylogenetic distribution and expression pattern analyses identified a divergent basal body assembly protein involved in land plant spermatogenesis. New Phytologist, 236(3):1182–1196. 10.1111/nph.18385 (July 16,2022).
  5. Saishu Yoshida, Hideaki Yurino, Masaaki Kobayashi, Naoto Nishimura, Kentaro Yano, Ken Fujiwara, Shin-ichi Hashimoto, Takako Kato, Yukio Kato (2022) Expression and localization of tight junction-related proteins in adult rat pituitary stem/progenitor cell niches. Journal of Reproduction and Development, 68(3):225-231. 10.1262/jrd.2021-150 (June 1, 2022).
  6. Hideki Takanashi, Hiromi Kajiya-Kanegae, Asuka Nishimura, Junko Yamada, Motoyuki Ishimori, Masaaki Kobayashi, Kentaro Yano, Hiroyoshi Iwata, Nobuhiro Tsutsumi, Wataru Sakamoto (2022) DOMINANT AWN INHIBITOR Encodes the ALOG Protein Originating from Gene Duplication and Inhibits AWN Elongation by Suppressing Cell Proliferation and Elongation in Sorghum. Plant and Cell Physiology, pcac057. 10.1093/pcp/pcac057 (May 30, 2022).
  7. Hiroki Nagata, Akemi Ono, Kaoru Tonosaki, Taiji Kawakatsu, Yutaka Sato, Kentaro Yano, Yuji Kishima, Tetsu Kinoshita (2022) Temporal Changes in Transcripts of Miniature Inverted-Repeat Transposable Elements during Rice Endosperm Development. The Plant Journal, 109(5):1035-1047. 10.1111/tpj.15698 (March 17, 2022).
  8. Ratklao Siriwach, Jun Matsuzaki, Takeshi Saito, Hiroshi Nishimura, Masahide Isozaki, Yosuke Isoyama, Muneo Sato, Masanori Arita, Shotaro Akaho, Tadahisa Higashide, Kentaro Yano, Masami Yokota Hirai (2022) Assessment of greenhouse tomato anthesis rate through metabolomics using LASSO regularized linear regression model. Frontiers in Molecular Biosciences, 9:839051. 10.3389/fmolb.2022.839051 (March 1, 2022).
  9. Aya Satoh, Miwako Takasu, Kentaro Yano, Yohey Terai (2021) De novo assembly and annotation of the mangrove cricket genome. BMC Res Notes, 14:387. 10.1186/s13104-021-05798-z (October 9, 2021).
  10. Yaichi Kawakatsu, Tomoaki Sakamoto, Hokuto Nakayama, Kaori Kaminoyama, Kaori Igarashi, Masaki Yasugi, Hiroshi Kudoh, Atsushi J Nagano, Kentaro Yano, Nakao Kubo, Michitaka Notaguchi, Seisuke Kimura (2021) Combination of genetic analysis and ancient literature survey reveals the divergence of traditional Brassica rapa varieties from Kyoto, Japan. New Phytologist, 2021,8:132. 10.1038/s41438-021-00569-0 (June 1, 2021).
  11. Ryouya Deushi, Erika Toda, Shizuka Koshimizu, Kentaro Yano, Takashi Okamoto (2021) Effect of Paternal Genome Excess on the Developmental and Gene Expression Profiles of Polyspermic Zygotes in Rice. Plants, 10(2):255. 10.3390/plants10020255 (January 28, 2021).
  12. Naoki Yamamoto, Tomoyuki Takano, Takehiro Masumura, Ai Sasou, Shigeto Morita, Toshio Sugimoto, Kentaro Yano* (*; Corresponding author) (2020) Rapidly evolving phosphoenolpyruvate carboxylase Gmppc1 and Gmppc7 are highly expressed in the external seed coat of immature soybean seeds. Gene, 762:145015. 10.1016/j.gene.2020.145015 (December 15, 2020).
  13. Keishi Osakabe, Naoki Wada, Tomoko Miyaji, Emi Murakami, Kazuya Marui, Risa Ueta, Ryosuke Hashimoto, Chihiro Abe-Hara, Bihe Kong, Kentaro Yano, Yuriko Osakabe (2020) Genome editing in plants using CRISPR type I-D nuclease. Communications Biology, 3(1):648. 10.1038/s42003-020-01366-6 (November 6, 2020).
  14. Keita Suwabe, Kaori Nagasaka, Endang Ayu Windari, Chihiro Hoshiai, Takuma Ota, Maho Takada, Ai Kitazumi, Hiromi Masuko-Suzuki, Yasuaki Kagaya, Kentaro Yano, Takashi Tsuchimatsu, Kentaro K. Shimizu, Seiji Takayama, Go Suzuki, Masao Watanabe (2020) Double-Locking Mechanism of Self-Compatibility in Arabidopsis thaliana: The Synergistic Effect of Transcriptional Depression and Disruption of Coding Region in the Male Specificity Gene. Frontiers in Plant Science, 11:576140. doi:10.3389/fpls.2020.576140 (September 11, 2020).
  15. Hiromi Kajiya-Kanegae, Hideki Takanashi, Masaru Fujimoto, Motoyuki Ishimori, Norikazu Ohnishi, Wacera W Fiona, Everlyne A Omollo, Masaaki Kobayashi, Kentaro Yano, Michiharu Nakano, Toshiaki Kozuka, Makoto Kusaba, Hiroyoshi Iwata, Nobuhiro Tsutsumi, Wataru Sakamoto (2020) RAD-seq-Based High-Density Linkage Map Construction and QTL Mapping of Biomass-Related Traits in Sorghum Using a Japanese Landrace Takakibi NOG. Plant and Cell Physiology, pcaa056. doi:10.1093/pcp/pcaa056 (April 30, 2020).
  16. Kiyoshi Yamazaki, Motoyuki Ishimori, Hiromi Kajiya-Kanegae, Hideki Takanashi, Masaru Fujimoto, Jun-ichi Yoneda, Kentaro Yano, Taichi Koshiba, Ryokei Tanaka, Hiroyoshi Iwata, Tsuyoshi Tokunaga, Nobuhiro Tsutsumi, Toru Fujiwara (2020) Effect of salt tolerance on biomass production in a large population of sorghum accessions. Breeding Science, 70(2):167-175. 10.1270/jsbbs.19009 (April 21, 2020).
  17. Ratklao Siriwach, Fumio Matsuda, Kentaro Yano, Masami Hirai (2020) Drought Stress Responses in Context-Specific Genome-Scale Metabolic Models of Arabidopsis thaliana. Metabolites, 10(4):159. doi:10.3390/metabo10040159 (April 18, 2020).
  18. Chikako Nishitani, Eiichi Inoue, Toshihiro Saito, Natsumi Ogata, Koichi Kita, Takeru Gonai, Masakazu Kasumi, Ryoji Ishii, Yutaka Sawamura, Norio Takada, Yukino Nakamura, Masaaki Kobayashi, Kentaro Yano, Shingo Terakami, Toshiya Yamamoto (2020) Transcriptome analysis of watercore in Pyrus pyrifolia by comparing pairs of susceptible and resistant F1 sibs. Scientia Horticulturae, 264:109136. doi:10.1016/j.scienta.2019.109136 (April 5, 2020).
  19. Matt Shenton, Masaaki Kobayashi, Shin Terashima, Hajime Ohyanagi, Dario Copetti, Tania Hernández-Hernández, Jianwei Zhang, Nobuko Ohmido, Masahiro Fujita, Atsushi Toyoda, Hiroshi Ikawa, Asao Fujiyama, Hiroyasu Furuumi, Toshie Miyabayashi, Takahiko Kubo, David Kudrna, Rod Wing, Kentaro Yano, Ken-ichi Nonomura, Yutaka Sato, Nori Kurata (2020) Evolution and Diversity of the Wild Rice Oryza officinalis Complex, across Continents, Genome Types, and Ploidy Levels. Genome Biology and Evolution, 12(4):413–428 doi:10.1093/gbe/evaa037 (March 3, 2020).
  20. Shizuka Koshimizu, Yukino Nakamura, Chikako Nishitani, Masaaki Kobayashi, Hajime Ohyanagi, Toshiya Yamamoto*, Kentaro Yano* (*; Corresponding authors) (2019) TRANSNAP: a web database providing comprehensive information on Japanese pear transcriptome. Scientific Reports, 9(1):18922. doi:10.1038/s41598-019-55287-4 (December 12, 2019).
  21. Naoki Yamamoto, Toshio Sugimoto, Tomoyuki Takano, Ai Sasou, Shigeto Morita, Kentaro Yano, Takehiro Masumura (2019) The plant-type phosphoenolpyruvate carboxylase Gmppc2 is developmentally induced in immature soy seeds at the late maturation stage: a potential protein biomarker for seed chemical composition. Bioscience, Biotechnology, and Biochemistry, 84(3):552-562. doi:10.1080/09168451.2019.1696179 (November 27, 2019).
  22. Lisa Sakamoto, Hiromi Kajiya-Kanegae, Koji Noshita, Hideki Takanashi, Masaaki Kobayashi, Toru Kudo, Kentaro Yano, Tsuyoshi Tokunaga, Nobuhiro Tsutsumi, Hiroyoshi Iwata (2019) Comparison of shape quantification methods for genomic prediction, and genome-wide association study of sorghum seed morphology. PLoS ONE, 14(11):e0224695. doi:10.1371/journal.pone.0224695 (November 21, 2019).
  23. Natsuko Haga, Masaaki Kobayashi, Nana Michiki, Tomoyuki Takano, Fujio Baba, Keiko Kobayashi, Hajime Ohyanagi, Jun Ohgane, Kentaro Yano, Kyoko Yamane (2019) Complete chloroplast genome sequence and phylogenetic analysis of wasabi (Eutrema japonicum) and its relatives. Scientific Reports, 9(1):14377. doi:10.1038/s41598-019-49667-z (October 7, 2019).
  24. Naoki Yamamoto, Takehiro Masumura, Kentaro Yano, Toshio Sugimoto (2019) Pattern analysis suggests that phosphoenolpyruvate carboxylase in maturing soybean seeds promotes the accumulation of protein. Bioscience, Biotechnology, and Biochemistry, 83(12):2238-2243. doi:10.1080/09168451.2019.1648205 (July 31, 2019).
  25. Tomoyuki Takano, Naoki Yamamoto, Tomohiro Suzuki, Hideo Dohra, Jae-Hoon Choi, Yurika Terashima, Koji Yokoyama, Hirokazu Kawagishi*, Kentaro Yano* (*; Corresponding authors) (2019) Genome sequence analysis of the fairy ring-forming fungus Lepista sordida and gene candidates for interaction with plants. Scientific Reports, 9(1):5888. doi:10.1038/s41598-019-42231-9 (April 10, 2019).
  26. Md Hassanur Rahman, Erika Toda, Masaaki Kobayashi, Toru Kudo, Shizuka Koshimizu, Mirei Takahara, Momoka Iwami, Yoriko Watanabe, Hiroyuki Sekimoto, Kentaro Yano, Takashi Okamoto (2019) Expression of genes from paternal alleles in rice zygotes and involvement of OsASGR-BBML1 in initiation of zygotic development. Plant and Cell Physiology, 60(4):725-737. doi:10.1093/pcp/pcz030 (February 25, 2019).
  27. Yuichi Tada, Ryuichi Kawano, Shiho Komatsubara, Hideki Nishimura, Maki Katsuhara, Soichi Ozaki, Shin Terashima, Kentaro Yano, Chisato Endo, Muneo Sato, Mami Okamoto, Yuji Sawada, Masami Yokota Hirai, Takamitsu Kurusu (2018) Functional screening of salt tolerance genes from a halophyte Sporobolus virginicus and transcriptomic and metabolomic analysis of salt tolerant plants expressing glycine-rich RNA-binding protein. Plant Science, 278:54-63. doi:10.1016/j.plantsci.2018.10.019 (January 1, 2019).
  28. Toshiya Ando, Takeshi Matsuda, Kumiko Goto, Kimiko Hara, Akinori Ito, Junya Hirata, Joichiro Yatomi, Rei Kajitani, Miki Okuno, Katsushi Yamaguchi, Masaaki Kobayashi, Tomoyuki Takano, Yohei Minakuchi, Masahide Seki, Yutaka Suzuki, Kentaro Yano, Takehiko Itoh, Shuji Shigenobu, Atsushi Toyoda, and Teruyuki Niimi (2018) Repeated inversions within a pannier intron drive diversification of intraspecific colour patterns of ladybird beetles. Nature Communications, 9(1):3843. doi:10.1038/s41467-018-06116-1 (September 21, 2018).
  29. Saishu Yoshida, Naoto Nishimura, Hideaki Yurino, Masaaki Kobayashi, Kotaro Horiguchi, Kentaro Yano, Shin-ichi Hashimoto, Takako Kato, Yukio Kato (2018) Differentiation capacities of PS-clusters, adult pituitary stem/progenitor cell clusters located in the parenchymal-niche, of the rat anterior lobe. PLOS ONE, 13(4):e0196029. doi:10.1371/journal.pone.0196029 (April 23, 2018).
  30. Takatoshi Kiba, Jun Inaba, Toru Kudo, Nanae Ueda, Mineko Konishi, Nobutaka Mitsuda, Yuko Takiguchi, Youichi Kondou, Takeshi Yoshizumi, Masaru Ohme-Takagi, Minami Matsui, Kentaro Yano, Shuichi Yanagisawa, Hitoshi Sakakibara (2018) Repression of Nitrogen Starvation Responses by Members of the Arabidopsis GARP-Type Transcription Factor NIGT1/HRS1 Subfamily. The Plant Cell, 30(4):925-945. doi:10.1105/tpc.17.00810 (April 5, 2018).
  31. William O. Asiche, Oscar W. Mitalo, Yuka Kasahara, Yasuaki Tosa, Eric G. Mworia, Willis O. Owino, Koichiro Ushijima, Ryohei Nakano, Kentaro Yano, Yasutaka Kubo (2018) Comparative transcriptome analysis reveals distinct ethylene-independent regulation of ripening in response to low temperature in kiwifruit. BMC Plant Biol, 18(1):47. doi:10.1186/s12870-018-1264-y. (March 21, 2018)
  32. Saneyoshi Ueno†*, Yukino Nakamura†, Masaaki Kobayashi, Shin Terashima, Wataru Ishizuka, Kentaro Uchiyama, Yoshihiko Tsumura, Kentaro Yano*, Susumu Goto (2018) (†; Contributed equally to this study, *; Corresponding authors) TodoFirGene: Developing transcriptome resources for genetic analysis of Abies sachalinensis. Plant Cell Physiol, 59(6):1276-1284. doi:10.1093/pcp/pcy058. (March 15, 2018)
  33. Kohei Mishina, Kanako Kawaura, Yoko Kamiya, Yuki Kajita, Keiichi Mochida, Hiroshi Tarui, Michihira Tagami, Naoko Suzuki, Jun Kawai, Yukino Nakamura, Kentaro Yano, Yasunari Ogihara (2018) Transcriptome of homoeologous genes deduced from the full-length cDNA clones of common wheat, Triticum aestivum L. J. Genet. Genomic Sci, 2018 3: 007 doi:10.24966/GGS-2485/100007 (February 16, 2018).
  34. Masaaki Kobayashi, Hajime Ohyanagi, Hideki Takanashi, Satomi Asano, Toru Kudo, Hiromi Kanegae, Atsushi J. Nagano, Hitoshi Tainaka, Tsuyosi Tokunaga, Takashi Sazuka, Hiroyoshi Iwata, Nobuhiro Tsutsumi, Kentaro Yano* (*; Corresponding author) (2017) Heap: a highly sensitive and accurate SNP detection tool for low-coverage high-throughput sequencing data. DNA Research, 24(4):397-405. doi: 10.1093/dnares/dsx012. (May 11, 2017).
  35. Kakeru Watanabe, Wei Guo, Keigo Arai, Hiromi Kajiya-Kanegae, Hideki Takanashi, Masaaki Kobayashi, Kentaro Yano, Tsuyoshi Tokunaga, Toru Fujiwara, Nobuhiro Tsutsuimi, Hiroyoshi Iwata (2017) High-throughput phenotyping of sorghum plant height using an unmanned aerial vehicle and its application to genomic prediction modeling. Frontiers in Plant Science, 8 :421 doi:10.3389/fpls.2017.00421 (Epub: March 13, 2017)
  36. Yaichi Kawakatsu, Hokuto Nakayama, Kaori Kaminoyama, Kaori Igarashi, Masaki Yasugi, Hiroshi Kudoh, Atsushi J. Nagano, Kentaro Yano, Nakao Kubo, Seisuke Kimura (2017) A GLABRA1 ortholog on LG A9 controls trichome number in the Japanese leafy vegetables Mizuna and Mibuna (Brassica rapa subsp. nipposinica): evidence from QTL analysis. Journal of Plant Research, 130(3):539-550. doi:10.1007/s10265-017-0917-5 (Epub: March 3, 2017).
  37. Chisato Endo, Naoki Yamamoto, Masaaki Kobayashi, Yukino Nakamura, Koji Yokoyama, Takamitsu Kurusu, Kentaro Yano, Yuichi Tada (2017) Development of simple sequence repeat markers in the halophytic turf grass Sporobolus virginicus and transferable genotyping across multiple grass genera/species/genotypes. Euphytica, 213(2):56 doi:10.1007/s10681-017-1846-z (February 2017, Epub: February 3, 2017).
  38. Toru Kudo, Shin Terashima, Yuno Takaki, Ken Tomita, Misa Saito, Maasa Kanno, Koji Yokoyama, and Kentaro Yano* (*; Corresponding author) (2017) PlantExpress: A Database Integrating OryzaExpress and ArthaExpress for Single-species and Cross-species Gene Expression Network Analyses with Microarray-Based Transcriptome Data. Plant & Cell Physiology, 58(1):e1 doi.org/10.1093/pcp/pcw208 (January 2017, Epub: January 27, 2017).
  39. Toru Kudo†, Masaaki Kobayashi†, Shin Terashima, Minami Katayama, Soichi Ozaki, Maasa Kanno, Misa Saito, Koji Yokoyama, Hajime Ohyanagi, Koh Aoki, Yasutaka Kubo and Kentaro Yano* (†; Contributed equally to this study, *; Corresponding author) (2017) TOMATOMICS: A Web Database for Integrated Omics Information in Tomato. Plant & Cell Physiology, 58(1):e8 doi.org/10.1093/pcp/pcw207 (January 2017, Epub: January 27, 2017).
  40. Yukino Nakamura, Toru Kudo, Shin Terashima, Misa Saito, Eiji Nambara, Kentaro Yano* (*; Corresponding author) (2017) CATchUP: A web database for spatiotemporally regulated genes. Plant & Cell Physiology, 58(1):e3. doi:10.1093/pcp/pcw199 (January 2017, Epub: December 23, 2016).
  41. Tomohiro Suzuki, Naoki Yamamoto, Jae-Hoon Choi, Tomoyuki Takano, Yohei Sasaki, Yurika Terashima, Akinobu Ito, Hideo Dohra, Hirofumi Hirai, Yukino Nakamura, Kentaro Yano*, Hirokazu Kawagishi* (*; Corresponding authors) (2016) The biosynthetic pathway of 2-azahypoxanthine in fairy-ring forming fungus. Scientific Reports, 6:39087. doi:10.1038/srep39087 (December 2016, Epub: December 19, 2016).
  42. Toru Kudo, Yohei Sasaki, Shin Terashima, Noriko Matsuda-Imai, Tomoyuki Takano, Misa Saito, Maasa Kanno, Soichi Ozaki, Keita Suwabe, Go Suzuki, Masao Watanabe, Makoto Matsuoka, Seiji Takayama, Kentaro Yano* (*; Corresponding author) (2016) Identification of reference genes for quantitative expression analysis using large-scale RNA-seq data of Arabidopsis thaliana and model crop plants. Genes & Genetic Systems, 91(2):111-125. doi:10.1266/ggs.15-00065 (October 2016, Epub: April 1, 2016).
  43. Shunsuke Maeda, Satomi Sakazono, Hiromi Masuko-Suzuki, Midori Taguchi, Kaori Yamamura, Kuniaki Nagano, Takashi Endo, Kenichi Saeki, Masaaki Osaka, Moe Nabemoto, Kana Ito, Toru Kudo, Masaaki Kobayashi, Mizuho Kawagishi, Kotomi Fujita, Hikaru Nanjo, Tomoe Shindo, Kentaro Yano, Go Suzuki, Keita Suwabe, and Masao Watanabe (2016) Comparative analysis of microRNA profiles of rice anthers between cool-sensitive and cool-tolerant cultivars under cool-temperature stress. Genes & Genetic Systems, 91(2):97-109. doi:10.1266/ggs.15-00056 (October 2016, Epub: March 25, 2016).
  44. Chonprakun Thagun, Shunsuke Imanishi, Toru Kudo, Ryo Nakabayashi, Kiyoshi Ohyama, Tetsuya Mori, Koichi Kawamoto, Yukino Nakamura, Minami Katayama, Satoko Nonaka, Chiaki Matsukura, Kentaro Yano, Hiroshi Ezura, Kazuki Saito, Takashi Hashimoto, and Tsubasa Shoji (2016) Jasmonate-responsive ERF transcription factors regulate steroidal glycoalkaloid biosynthesis in tomato. Plant & Cell Physiology, 57(5):961-975 doi:10.1093/pcp/pcw067 (May 2016, Epub: April 15, 2016).
  45. Naoki Yamamoto†, Toru Kudo†, Shoko Fujiwara†*, Yukiko Takatsuka, Yasutaka Hirokawa, Mikio Tsuzuki, Tomoyuki Takano, Masaaki Kobayashi, Kunihiro Suda, Erika Asamizu, Koji Yokoyama, Daisuke Shibata, Satoshi Tabata and Kentaro Yano* († These authors contributed equally to this work, *; Corresponding authors) (2016) Pleurochrysome: A web-database of Pleurochrysis transcripts and orthologues among heterogeneous algae. Plant & Cell Physiology, 57(1):e6 doi:10.1093/pcp/pcv195 (January 2016, Epub: January 7, 2016).
  46. Yoshitsugu Hirose, Kunihiro Suda, Yao-Guang Liu, Shusei Sato, Yukino Nakamura, Koji Yokoyama, Naoki Yamamoto, Shigeru Hanano, Eiji Takita, Nozomu Sakurai, Hideyuki Suzuki, Yasukazu Nakamura, Takakazu Kaneko, Kentaro Yano, Satoshi Tabata and Daisuke Shibata (2015) The Arabidopsis TAC Position Viewer: a high-resolution map of transformation-competent artificial chromosome (TAC) clones aligned with the Arabidopsis thaliana Columbia-0 genome. The Plant Journal, 83(6):1114-1122. doi: 10.1111/tpj.12949 (September 8, 2015, Epub: July 30, 2015).
  47. Naoki Yamamoto†, Tomoyuki Takano†, Keisuke Tanaka, Taichiro Ishige, Shin Terashima, Chisato Endo, Takamtisu Kurusu, Shunsuke Yajima, Kentaro Yano*, Yuichi Tada* († These authors contributed equally to this work. *Corresponding authors) (2015) Comprehensive analysis of transcriptome response to salinity stress in the halophytic turf grass Sporobolus virginicus. Frontiers in Plant Science, 6: 241 doi:10.3389/fpls.2015.00241 (21 April 2015, Epub: March 26, 2015).
  48. Koichiro Aya, Masaaki Kobayashi, Junmu Tanaka, Hajime Ohyanagi, Takayuki Suzuki, Kenji Yano, Tomoyuki Takano, Kentaro Yano, Makoto Matsuoka (2015) De Novo Transcriptome Assembly of a Fern, Lygodium japonicum, and a Web Resource Database, Ljtrans DB. Plant & Cell Physiology, 56(1):e5 doi:10.1093/pcp/pcu184 (January 2015, Epub: December 4, 2014).
  49. Hajime Ohyanagi†, Tomoyuki Takano†, Shin Terashima†, Masaaki Kobayashi, Maasa Kanno, Kyoko Morimoto, Hiromi Kanegae, Yohei Sasaki, Misa Saito, Satomi Asano, Soichi Ozaki, Toru Kudo, Koji Yokoyama, Koichiro Aya, Keita Suwabe, Go Suzuki, Koh Aoki, Yasutaka Kubo, Masao Watanabe, Makoto Matsuoka, Kentaro Yano* († These authors contributed equally to this work. *Corresponding author) (2015) Plant Omics Data Center: An Integrated Web Repository for Interspecies Gene Expression Networks with NLP-based Curation. Plant & Cell Physiology, 56(1):e9 doi:10.1093/pcp/pcu188 (January 2015, Epub: December 11, 2014).
  50. Naoki Yamamoto†, Tomohiro Suzuki†, Masaaki Kobayashi, Hideo Dohra, Yohei Sasaki, Hirofumi Hirai, Koji Yokoyama, Hirokazu Kawagishi*, Kentaro Yano* († These authors contributed equally to this work. *Corresponding authors) (2014) A-WINGS: an integrated genome database for Pleurocybella porrigens (Angel's wing oyster mushroom, Sugihiratake). BMC Research Notes, 7:866. doi:10.1186/1756-0500-7-866 (December 3, 2014).
  51. Akira Nakatsuka, Tsuyoshi Nakagawa, Kentaro Yano, Ningjing Sun, Hiroaki Sakata, Kayoko Koyama, Nobuo Kobayashi, Tomoya Esumi, Hiroyuki Itamura (2014) Gene Expression of Pectic Polysaccharide Degrading Enzymes in On-tree Softened 'Hiratanenashi' Persimmon Fruit. Food Preservation Science, 40(4):185-193. (July 31, 2014).
  52. Haruyasu Hamada, Takamitsu Kurusu, Hiroshi Nokajima, Masahiro Kiyoduka, Kentaro Yano, Kazuyuki Kuchitsu (2014) Regulation of xylanase elicitor-induced expression of defense-related genes involved in phytoalexin biosynthesis by a cation channel OsTPC1 in suspension-cultured rice cells. Plant Biotechnology, 31(4):329-334. doi:10.5511/plantbiotechnology.14.0805b (December 2014, Epub: November 15, 2014).
  53. Tsuyoshi Habu, Hisayo Yamane, Ryuta Sasaki, Kentaro Yano, Hiroshi Fujii, Tokurou Shimizu, Toshiya Yamamoto, Ryutaro Tao (2013) Custom Microarray Analysis for Transcript Profiling of Dormant Vegetative Buds of Japanese Apricot during Prolonged Chilling Exposure. Journal of the Japanese Society for Horticultural Science, 83(1):1-16. doi:10.2503/jjshs1.CH-077 (March 20, 2014, Epub: December 7, 2013).
  54. Masaaki Kobayashi, Hideki Nagasaki, Virginie Garcia, Daniel Just, Cecile Bres, Jean-Philippe Mauxion, Marie-Christine Le Paslier, Dominique Brunel, Kunihiro Suda, Yohei Minakuchi, Atsushi Toyoda, Asao Fujiyama, Hiromi Toyoshima, Takayuki Suzuki, Kaori Igarashi, Christophe Rothan, Eli Kaminuma, Yasukazu Nakamura, Kentaro Yano, Koh Aoki (2013) Genome-wide analysis of intraspecific DNA polymorphism in 'Micro-Tom', a model cultivar of tomato (Solanum lycopersicum). Plant & Cell Physiology, 55(2): 445-454. doi:10.1093/pcp/pct181 (February 3, 2014, E-pub: December 5, 2013).
  55. Rui Yan, Naoki Yokotani, Tatsuya Yamaoka, Kohichiro Ushijima, Ryohei Nakano, Kentaro Yano, Koh Aoki, Yasutaka Kubo (2013) Characterization of ripening-associated genes using a tomato DNA macroarray, 1-methylcyclopropene, and ripening-impaired mutants. Postharvest Biology and Technology, 86: 159-170. doi:10.1016/j.postharvbio.2013.06.028 (December 2013, Epub: July 21, 2013).
  56. Masaaki Osaka, Tomoki Matsuda, Satomi Sakazono, Hiromi Masuko-Suzuki, Shunsuke Maeda, Misato Sewaki, Mikako Sone, Hirokazu Takahashi, Mikio Nakazono, Megumi Iwano, Seiji Takayama, Kentaro K. Shimizu, Kentaro Yano, Yong Pyo Lim, Go Suzuki, Keita Suwabe, Masao Watanabe (2013) Cell type-specific transcriptome of Brassicaceae stigmatic papilla cells from a combination of laser microdissection and RNA sequencing. Plant & Cell Physiology, 54 (11) : 1894-1906. doi:10.1093/pcp/pct133 (October 31, 2013, Epub: September 20, 2013).
  57. Akira Nakatsuka, Hiroyuki Itamura, Kentaro Yano, Reina Abe, Takumi Someya, Tsuyoshi Nakagawa (2013). ANALYSIS OF EXPRESSED SEQUENCE TAGS FROM RAPIDLY SOFTENED PULP OF PERSIMMON (DIOSPYROS KAKI THUNB.). Acta Horticulturae (International Society for Horticultural Science), 996:111-116 (June 12, 2013).
  58. Tomohiro Suzuki, Kaori Igarashi, Hideo Dohra, Takumi Someya, Tomoyuki Takano, Kiyonori Harada, Saori Omae, Hirofumi Hirai, Kentaro Yano*, Hirokazu Kawagishi* (*Corresponding authors) (2013) A New Omics Data Resource of Pleurocybella porrigens for Gene Discovery. PLOS ONE, 8 (7): e69681. doi:10.1371/journal.pone.0069681 (Epub: July 23, 2013).
  59. Hiroyuki Itamura, Akira Nakatsuka, NingJing Sun, Tomoya Esumi, Ayako Yamada, Kentaro Yano, Tsuyoshi Nakagawa (2013) EFFECT OF ASCORBATE ON PROLONGING SHELF LIFE OF PERSIMMON (DIOSPYROS KAKI THUNB.) FRUIT. Acta Horticulturae (International Society for Horticultural Science), 989:131-138 (May 1, 2013).
  60. Erika Asamizu, Kenta Shirasawa, Hideki Hirakawa, Shusei Sato, Satoshi Tabata, Kentaro Yano, Tohru Ariizumi, Daisuke Shibata, Hiroshi Ezura (2012) Mapping of Micro-Tom BAC-end Sequences to the Reference Tomato Genome Reveals Possible Genome Rearrangements and Polymorphisms. International Journal of Plant Genomics, 8 pages. doi:10.1155/2012/437026 (November 27, 2012).
  61. Fabien Mounet, Annick Moing, Mariusz Kowalczyk, Johannes Rohrmann, Johann Petit, Virginie Garcia, Mickael Maucourt, Kentaro Yano, Catherine Deborde, Koh Aoki, Hélène Bèrges, Antonio Granell, Alisdair R. Fernie, Catherine Bellini, Christophe Rothan, Martine Lemaire-Chamley (2012) Down-regulation of a Single Auxin Efflux Transport Protein in Tomato Induces Precocious Fruit Development. Journal of Experimental Botany, 63 (13): 4901-4917. doi:10.1093/jxb/ers167 (August 24, 2012, Epub: July 27, 2012).
  62. Tsuyoshi Habu, Hisayo Yamane, Kaori Igarashi, Kazuki Hamada, Kentaro Yano, Ryutaro Tao (2012) 454-Pyrosequencing of the Transcriptome in Leaf and Flower Buds of Japanese Apricot (Prunus mume Sieb. et Zucc.) at Different Dormant Stages. Journal of the Japanese Society for Horticultural Science, 81 (3): 239-250. doi:10.2503/jjshs1.81.239 (July 21, 2012).
  63. The Tomato Genome Consortium (2012) The Tomato Genome Sequence Provides Insights into Fleshy Fruit Evolution. Nature, 485: 635- 641. doi:10.1038/nature11119 (May 31, 2012, Epub: May 30, 2012).
  64. Alagu Manickavelu, Kanako Kawaura, Kazuko Oishi, Tadasu Shin-I, Yuji Kohara, Nabila Yahiaoui, Beat Keller, Reina Abe, Ayako Suzuki, Taishi Nagayama, Kentaro Yano, Yasunari Ogihara (2012) Comprehensive Functional Analyses of Expressed Sequence Tags in Common Wheat (Triticum aestivum). DNA Research, 19 (2): 165-177. doi:10.1093/dnares/dss001 (April 2, 2012, Epub: February 14, 2012).
  65. Hiromi Nishida, Reina Abe, Taishi Nagayama, Kentaro Yano (2012) Genome Signature Difference Between Deinococcus radiodurans and Thermus thermophilus. International Journal of Evolutionary Biology, 6 pages. doi:10.1155/2012/205274 (Epub: March 4, 2012).
  66. Kentaro Hamamoto, Toshihiko Aki, Mikao Shigyo, Shigeru Sato, Tetsuya Ishida, Kentaro Yano, Tadakatsu Yoneyama, Shuichi Yanagisawa (2012) Proteomic Characterization of the Greening Process in Rice Seedlings Using the MS Spectral Intensity-based Label Free Method. Journal of Proteome Research, 11 (1): 331-347. doi:10.1021/pr200852q (January 1, 2012, Epub: November 11, 2011).
  67. Koichiro Aya, Go Suzuki, Keita Suwabe, Tokunori Hobo, Hirokazu Takahashi, Katsuhiro Shiono, Kentaro Yano, Nobuhiro Tsutsumi, Mikio Nakazono, Yoshiaki Nagamura, Makoto Matsuoka, Masao Watanabe (2011) Comprehensive Network Analysis of Anther-expressed Genes in Rice by the Combination of 33 Laser Microdissection and 143 Spatiotemporal Microarrays. PLOS ONE, 6 (10): e26162. doi:10.1371/journal.pone.0026162 (Epub: October 26, 2011).
  68. Sota Fujii, Takushi Toda, Shunsuke Kikuchi, Ryutaro Suzuki, Koji Yokoyama, Hiroko Tsuchida, Kentaro Yano, Kinya Toriyama (2011) Transcriptome Map of Plant Mitochondria Reveals Islands of Unexpected Transcribed Regions. BMC Genomics, 12: 279. doi:10.1186/1471-2164-12-279 (Jun 1, 2011).
  69. Kazuki Hamada, Kohei Hongo, Keita Suwabe, Akifumi Shimizu, Taishi Nagayama, Reina Abe, Shunsuke Kikuchi, Naoki Yamamoto, Takaaki Fujii, Koji Yokoyama, Hiroko Tsuchida, Kazumi Sano, Takako Mochizuki, Nobuhiko Oki, Youko Horiuchi, Masahiro Fujita, Masao Watanabe, Makoto Matsuoka, Nori Kurata, Kentaro Yano* (*; Corresponding author) (2011) OryzaExpress : An Integrated Database of Gene Expression Networks and Omics Annotations in Rice. Plant & Cell Physiology, 52 (2): 220-229. doi:10.1093/pcp/pcq195 (February 2, 2011, Epub: December 23, 2010).
  70. Takayuki Ohnishi, Hideki Takanashi, Mirai Mogi, Hirokazu Takahashi, Shunsuke Kikuchi, Kentaro Yano, Takashi Okamoto, Masahiro Fujita, Nori Kurata, Nobuhiro Tsutsumi (2011) Distinct Gene Expression Profiles in Egg and Synergid Cells of Rice as Revealed by Cell Type-Specific Microarrays. Plant Physiology, 155 (2): 881-891. doi:10.1104/pp.110.167502 (February 2011, Epub: November 24, 2010).
  71. Takeshi Oshino, Shinya Miura, Syunsuke Kikuchi, Kazuki Hamada, Kentaro Yano, Masao Watanabe, Atsushi Higashitani (2011) Auxin Depletion in Barley Plants Under High-temperature Conditions Represses DNA Proliferation in Organelles and Nuclei via Transcriptional Alterations. Plant, Cell & Environment, 34 (2): 284-290. doi:10.1111/j.1365-3040.2010.02242.x (February 2011, Epub: November 12, 2010).
  72. Nozomu Sakurai, Takeshi Ara, Yoshiyuki Ogata, Ryosuke Sano, Takashi Ohno, Kenjiro Sugiyama, Atsushi Hiruta, Kiyoshi Yamazaki, Kentaro Yano, Koh Aoki, Asaph Aharoni, Kazuki Hamada, Koji Yokoyama, Shingo Kawamura, Hirofumi Otsuka, Toshiaki Tokimatsu, Minoru Kanehisa, Hideyuki Suzuki, Kazuki Saito, Daisuke Shibata (2011) KaPPA-View4 : a Metabolic Pathway Database for Representation and Analysis of Correlation Networks of Gene Co-expression and Metabolite Co-accumulation and Omics Data. Nucleic Acids Research, 39 (suppl 1): D677-D684. doi:10.1093/nar/gkq989 (January 2011, Epub: November 19, 2010).
  73. Masahiro Fujita, Youko Horiuchi, Yayoi Ueda, Yoko Mizuta, Takahiko Kubo, Kentaro Yano, Shinichiro Yamaki, Katutoshi Tsuda, Toshifumi Nagata, Mitsuru Niihama, Hirotaka Kato, Shunsuke Kikuchi, Kazuki Hamada, Takako Mochizuki, Takeshi Ishimizu, Hiroaki Iwai, Nobuhiro Tsutsumi, Nori Kurata (2010) Rice Expression Atlas in Reproductive Development. Plant & Cell Physiology, 51 (12): 2060-2081. doi:10.1093/pcp/pcq165 (December 2010, Epub: November 9, 2010).
  74. Alagu Manickavelu, Kanako Kawaura, Kazuko Oishi, Tadasu Shin-I, Yuji Kohara, Nabila Yahiaoui, Beat Keller, Ayako Suzuki, Kentaro Yano, Yasunari Ogihara (2010) Comparative Gene Expression Analysis of Susceptible and Resistant Near-isogenic Lines in Common Wheat Infected by Puccinia triticina. DNA Research, 17 (4): 211-222. doi:10.1093/dnares/dsq009 (August 2010, Epub: April 1, 2010).
  75. Susumu Oda†, Fumi Kaneko† († These authors contributed equally to this work.), Kentaro Yano, Tomoaki Fujioka, Hiromi Masuko, Jong-In Park, Shunsuke Kikuchi, Kazuki Hamada, Makoto Endo, Kuniaki Nagano, Yoshiaki Nagamura, Makiko Kawagishi-Kobayashi, Keita Suwabe, Go Suzuki, Masao Watanabe (2010) Morphological and Gene Expression Analysis Under Cool Temperature Conditions in Rice Anther Development. Genes & Genetic Systems, 85 (2): 107-120. doi:10.1266/ggs.85.107 (Jun 15, 2010).
  76. Sota Fujii, Mari Yamada, Masahiro Fujita, Etsuko Itabashi, Kazuki Hamada, Kentaro Yano, Nori Kurata, Kinya Toriyama (2010) Cytoplasmic-Nuclear Genomic Barriers in Rice Pollen Development Revealed by Comparison of Global Gene Expression Profiles Among Five Independent Cytoplasmic Male Sterile Lines. Plant & Cell Physiology, 51 (4): 610-620. doi:10.1093/pcp/pcq026 (April 2010, Epub: March 4, 2010).
  77. Koh Aoki†, Kentaro Yano† († These authors contributed equally to this work.), Ayako Suzuki, Shingo Kawamura, Nozomu Sakurai, Kunihiro Suda, Atsushi Kurabayashi, Tatsuya Suzuki, Taneaki Tsugane, Manabu Watanabe, Kazuhide Ooga, Maiko Torii, Takanori Narita, Tadasu Shin-I, Yuji Kohara, Naoki Yamamoto, Hideki Takahashi, Yuichiro Watanabe, Mayumi Egusa, Motoichiro Kodama, Yuki Ichinose, Mari Kikuchi, Sumire Fukushima, Akiko Okabe, Tsutomu Arie, Yuko Sato, Katsumi Yazawa, Shinobu Satoh, Toshikazu Omura, Hiroshi Ezura, Daisuke Shibata (2010) Large-scale Analysis of Full-length cDNAs from the Tomato (Solanum lycopersicum) Cultivar Micro-Tom, a Reference System for the Solanaceae Genomics. BMC Genomics, 11 (1): 210. doi:10.1186/1471-2164-11-210 (March 30, 2010).
  78. Akifumi Shimizu, Kentaro Yano (2010) Gene Discovery Methods from Large-Scale Gene Expression Data. In Quantum Bio-Informatics III From Quantum Information to Bio-Informatics, 1: 489-496. doi:10.1142/9789814304061_0040 (January 1, 2010).
  79. Makoto Endo, Tohru Tsuchiya, Kazuki Hamada, Shingo Kawamura, Kentaro Yano, Masahiro Ohshima, Atsushi Higashitani, Masao Watanabe, Makiko Kawagishi-Kobayashi (2009) High Temperatures Cause Male Sterility in Rice Plants with Transcriptional Alterations During Pollen Development. Plant & Cell Physiology, 50 (11): 1911- 1922. doi:10.1093/pcp/pcp135 (November 2009, Epub: October 6, 2009).
  80. Koichiro Aya, Miyako Ueguchi-Tanaka, Maki Kondo, Kazuki Hamada, Kentaro Yano, Mikio Nishimura, Makoto Matsuoka (2009) Gibberellin Modulates Anther Development in Rice via the Transcriptional Regulation of GAMYB. The Plant Cell, 21 (5): 1453-1472. doi:10.1105/tpc.108.062935 (March 2009, Epub: May 19, 2009).
  81. Kentaro Yano, Koh Aoki, Hideyuki Suzuki, Daisuke Shibata (2009) DAGViz : a Directed Acyclic Graph Browser That Supports Analysis of Gene Ontology Annotation. Plant Biotechnology, 26 (1): 9-13. doi:10.5511/plantbiotechnology.26.9 (March 27, 2009).
  82. Tokunori Hobo, Keita Suwabe, Koichiro Aya, Go Suzuki, Kentaro Yano, Takeshi Ishimizu, Masahiro Fujita, Shunsuke Kikuchi, Kazuki Hamada, Masumi Miyano, Tomoaki Fujioka, Fumi Kaneko, Tomohiko Kazama, Yoko Mizuta, Hirokazu Takahashi, Katsuhiro Shiono, Mikio Nakazono, Nobuhiro Tsutsumi, Yoshiaki Nagamura, Nori Kurata, Masao Watanabe, Makoto Matsuoka (2008) Various Spatiotemporal Expression Profiles of Anther-Expressed Genes in Rice. Plant & Cell Physiology, 49 (10): 1417-1428. doi:10.1093/pcp/pcn128 (October 2008, Epub: September 6, 2008).
  83. Keita Suwabe, Go Suzuki, Hirokazu Takahashi, Katsuhiro Shiono, Makoto Endo, Kentaro Yano, Masahiro Fujita, Hiromi Masuko, Hiroshi Saito, Tomoaki Fujioka, Fumi Kaneko, Tomohiko Kazama, Yoko Mizuta, Makiko Kawagishi-Kobayashi, Nobuhiro Tsutsumi, Nori Kurata, Mikio Nakazono, Masao Watanabe (2008) Separated Transcriptomes of Male Gametophyte and Tapetum in Rice : Validity of a Laser Microdissection (LM) Microarray. Plant & Cell Physiology, 49 (10): 1407-1416. doi:10.1093/pcp/pcn124 (October 2008, Epub: August 28, 2008).
  84. Nobuhiko Oki†, Kentaro Yano†, Yutaka Okumoto, Takuji Tsukiyama, Masayoshi Teraishi, Takatoshi Tanisaka († These authors contributed equally to this work.) (2008) A Genome-Wide View of Miniature Inverted-repeat Transposable Elements (MITEs) in Rice, Oryza Sativa Ssp. Japonica. Genes & Genetic Systems, 83 (4): 321-329. doi:10.1266/ggs.83.321 (October 19, 2008).
  85. Tsuyoshi Nakagawa, Akira Nakatsuka, Kentaro Yano, Shiho Yasugahira, Ryoko Nakamura, Ningjing Sun, Akihiro Itai, Takamasa Suzuki, Hiroyuki Itamura (2008) Expressed Sequence Tags from Persimmon at Different Developmental Stages. Plant Cell Reports, 27 (5): 931-938. doi:10.1007/s00299-008-0518-9 (May 2008, Epub: February 27, 2008).
  86. Yoichi Ogawa†, Tomoko Dansako†, Kentaro Yano, Nozomu Sakurai, Hideyuki Suzuki, Koh Aoki, Masaaki Noji, Kazuki Saito, Daisuke Shibata († These authors contributed equally to this work.) (2008) Efficient and High-throughput Vector Construction and Agrobacterium-mediated Transformation of Arabidopsis Thaliana Suspension-cultured Cells for Functional Genomics. Plant & Cell Physiology, 49 (2): 242-250. doi:10.1093/pcp/pcm181 (February 2008, Epub: January 4, 2008).
  87. Koh Aoki, Kentaro Yano, Nozomu Sakurai, Taneaki Tsugane, Manabu Watanabe, Yong-Gen Yin, Chiaki Matsukura, Daisuke Shibata (2007) EXPRESSION-BASED APPROACH TOWARD FUNCTIONAL CHARACTERIZATION OF TOMATO GENES THAT HAVE NO OR WEAK SIMILARITY TO ARABIDOPSIS GENES. Acta Horticulturae (International Society for Horticultural Science), 745:457-464 (June 30, 2007).
  88. Ken Naito, Eunyoung Cho, Guojun Yang, Matthew Campbell, Kentaro Yano, Yutaka Okumoto, Takatoshi Tanisaka, Susan R. Wessler (2006) Dramatic Amplification of a Rice Transposable Element During Recent Domestication. Proceedings of the National Academy of Sciences, 103 (47): 17620-17625. doi:10.1073/pnas.0605421103 (November 21, 2006, Epub: November 13, 2006).
  89. Kyoko Yamane, Kentaro Yano, Taihachi Kawahara (2006) Pattern and Rate of Indel Evolution Inferred from Whole Chloroplast Intergenic Regions in Sugarcane, Maize and Rice. DNA Research, 13 (5): 197-204. doi:10.1093/dnares/dsl012 (October 17, 2006, Epub: November 16, 2006).
  90. Kentaro Yano†*, Kazuhide Imai†, Akifumi Shimizu†, Takao Hanashita† († These authors contributed equally to this work. *Corresponding author) (2006) A New Method for Gene Discovery in Large-Scale Microarray Data. Nucleic Acids Research, 34 (5): 1532-1539. doi:10.1093/nar/gkl058 (March 2006, Epub: March 14, 2006).
  91. Kentaro Yano, Taneaki Tsugane, Manabu Watanabe, Fumi Maeda, Koh Aoki, Daisuke Shibata (2006) Non-Biased Distribution of Tomato Genes with No Counterparts in Arabidopsis thaliana in Expression Patterns During Fruit Maturation. Plant Biotechnology, 23 (2): 199-202. doi:10.5511/plantbiotechnology.23.199 (August 30, 2006).
  92. Kentaro Yano, Manabu Watanabe, Naoki Yamamoto, Taneaki Tsugane, Koh Aoki, Nozomu Sakurai, Daisuke Shibata (2006) MiBASE : a Database of a Miniature Tomato Cultivar Micro-Tom. Plant Biotechnology, 23 (2): 195-198. doi:10.5511/plantbiotechnology.23.195 (August 30, 2006).
  93. Kentaro Yano, Tomoko Dansako, Nozomu Sakurai, Hideyuki Suzuki, Daisuke Shibata (2005) KATANA : A Web-Based Guide to Public Databases for Arabidopsis Genomic Information. Plant Biotechnology, 22 (3): 225-229. doi:10.5511/plantbiotechnology.22.225 (September 25, 2005).
  94. Naoki Yamamoto, Taneaki Tsugane, Manabu Watanabe, Kentaro Yano, Fumi Maeda, Chikara Kuwata, Torki Moez, Yusuke Ban, Shigeo Nishimura, Daisuke Shibata (2005) Expressed Sequence Tags from the Laboratory-grown Miniature Tomato (Lycopersicon esculentum) Cultivar Micro-Tom and Mining for Single Nucleotide Polymorphisms and Insertions/deletions in Tomato Cultivars. Gene, 356: 127-134. doi:10.1016/j.gene.2005.04.026 (August 15, 2005).
  95. Taneaki Tsugane, Manabu Watanabe, Kentaro Yano, Nozomu Sakurai, Hideyuki Suzuki, Daisuke Shibata (2005) Expressed Sequence Tags of Full-length cDNA Clones from the Miniature Tomato (Lycopersicon esculentum) Cultivar Micro-Tom. Plant Biotechnology, 22 (2): 161-165. doi:10.5511/plantbiotechnology.22.161 (July 20, 2005).
  96. Kentaro Yano, Ryo Ohsawa, Katsuei Yonezawa (2002) Cost Efficiency of Spatial Error Control in Single Plant Selection. Breeding Science, 52 (3): 177-184. doi:10.1270/jsbbs.52.177 (September 10, 2002).
  97. Katsuei Yonezawa, Takuro Ishii, Kentaro Yano (2000) Definition of the Probability Efficiency Index for Optimization of the Stepwise Yield Selection Procedures of Plant Varieties. Biometrics, 56 (4): 1213-1217. doi:10.1111/j.0006-341X.2000.01213.x (December 2000, Epub: May 24, 2004).
  98. Kentaro Yano, Takuro Ishii, Hiroshi Ikehashi, Katsuei Yonezawa (2000) Optimization of the Number of Cycles and Intensity of Selection, and Population Size in Mass Selection : Selection for Single Traits in Outcrossing Plant Populations. Breeding Science, 50 (1): 37-43. doi:10.1270/jsbbs.50.37 (March 2000, Epub: July 21, 2000).
  99. Katsuei Yonezawa, Kentaro Yano, Takuro Ishii, Tetsuro Nomura (1999) A Theoretical Basis for Measuring the Efficiency of Selection in Plant Breeding. Heredity, 82 (4): 401-408. doi:10.1038/sj.hdy.6884950 (April 1, 1999).

■Book

  1. Hajime Ohyanagi, Eiji Yamamoto, Ai Kitazumi, Kentaro Yano edit (2022) “Plant Omics: Advances in Big Data Biology”, Hardback: ISBN : 978-1-78924-751-0270 pages2022, CABI.
  2. Ai Kitazumi, Isaiah C.M. Pabuayon, Kevin R. Cushman, Kentaro Yano, Benildo G. de los Reyes (2022) Plant Transcriptomics: Data-driven global approach to understand cellular processes and their regulation in model and non-model plants. Plant Omics: Advances in Big Data Biology, Chapter 2. Pages: 10-29, CABI.
  3. Miyu Asari, Ai Kitazumi, Eiji Nambara, Benildo G. de los Reyes, Kentaro Yano(2022)Chapter 10 Plant Gene Expression Network. Plant Omics: Advances in Big Data Biology, Chapter 10. Pages: 137-150, CABI.
  4. Eiji Nambara, Dawei Yan, Jing Wen, Arjun Sharma, Frederik Nguyen ,Ange Yan, Karin Uruma, Kentaro Yano(2022)Plant Hormones: Gene Family Organization and Homolog Interactions of Genes for Gibberellin Metabolism and Signaling in Allotetraploid Brassica napus. Plant Omics: Advances in Big Data Biology, Chapter 11, Pages: 151-171, CABI.
  5. Saad Hussain, Malaika Maraya Gomes, Kentaro Yano, Eiji Nambara (2019) Interactions between abscisic acid and other hormones. Advances in Botanical Research Abscisic Acid in Plants, Volume 92 1st Edition Annie Marion-Poll Mitsunori Seo (Serial Volume Editors), Elsevier, pp.255-280. 20 November 2019
  6. Matt Shenton, Toru Kudo, Masaaki Kobayashi, Yukino Nakamura, Hajime Ohyanagi, and Kentaro Yano (2019) Plant Omics Data Center and CATchUP: web databases for effective gene mining utilizing public RNA-Seq-based transcriptome data. The Model Legume Medicago truncatula. Frans J. de Bruijn (Editor), Wiley-Blackwell, pp.1137-1146. November 2019
  7. Toru Kudo, Shin Terashima, Yuno Takaki, Yukino Nakamura, Masaaki Kobayashi and Kentaro Yano* (*; Corresponding author) (2017) Practical Utilization of OryzaExpress and Plant Omics Data Center Databases to Explore Gene Expression Networks in Oryza Sativa and Other Plant Species. Plant Genomics Databases. Editors: van Dijk, Aalt-Jan, Springer, pp.229-240.
  8. Masaaki Kobayashi, Hajime Ohyanagi, Kentaro Yano (2016) Databases for Solanaceae and Cucurbitaceae Research. Functional Genomics and Biotechnology in Solanaceae and Cucurbitaceae Crops. Ezura H., Ariizumi T., Garcia-Mas J., Rose J. (Editors), Springer, pp.31-42. 5 January 2016
  9. Masaaki Kobayashi, Hajime Ohyanagi, Kentaro Yano (2015) Expression Analysis and Genome Annotations with RNA Sequencing. Advances in the Understanding of Biological Sciences Using Next Generation Sequencing (NGS) Approaches. Sablok, G. etal. (Editors), Springer, pp.1-12. 29 August 2015
  10. Masaaki Kobayashi, Hajime Ohyanagi, Kentaro Yano (2015) Omics Analysis and Databases for Plant Science. Genomics, Proteomics and Metabolomics in Nutraceuticals and Functional Foods, Second Edition. Debasis Bagchi, Anand Swaroop, Manashi Bagchi. (Editors), John Wiley & Sons, Ltd., Published Online, pp.150-159. 14 August 2015
  11. Masaaki Kobayashi, Hajime Ohyanagi, Kentaro Yano (2014) Omics databases and gene expression networks in plant sciences. Omics Technologies and Crop Improvement. Noureddine Benkeblia (Editor), CRC Press, pp.1-14. 14 October 2014

■Review/Commentary (peer reviewed)

  1. Koh Aoki, Yoshiyuki Ogata, Kaori Igarashi, Kentaro Yano, Hideki Nagasaki, Eli Kaminuma, Atsushi Toyoda (2013) Functional genomics of tomato in a post-genome-sequencing phase. Breeding Science, 63 (1): 14-20. doi:10.1270/jsbbs.63.14 (March 2013, Epub: March 1, 2013).
  2. Ayako Suzuki†, Keita Suwabe†, Kentaro Yano* († These authors contributed equally to this work. *Corresponding author) (2009) Web Databases for Omics Data in Tomato. Journal of the Japanese Society for Horticultural Science, 78 (1): 23-31. doi:10.2503/jjshs1.78.23 (January 28, 2009).
  3. Keita Suwabe†, Kentaro Yano†* († These authors contributed equally to this work. *Corresponding author) (2008) Omics databases in plant science : key to systems biology. Plant Biotechnology, 25 (5): 413-422. doi:10.5511/plantbiotechnology.25.413 (September 26, 2008).
  4. Kentaro Yano, Koh Aoki, Daisuke Shibata (2007) Genomic Databases for Tomato. Plant Biotechnology, 24 (1): 17-25. doi:10.5511/plantbiotechnology.24.17 (December 10, 2007).

■Invited lectures at international conferences, etc. (international symposiums, conferences, lectures)

  1. Shizuka Koshimizu, Aria Hisaoka, Misao Senbokuya, Yukino Nakamura, Misa Saito, Maasa Kanno, Eiji Nambara, Hajime Ohyanagi, Koh Aoki and  Kentaro Yano (2018) Plant Omics Databases: Plant Omics Data Center (PODC), CATchUP and TOMATOMICS. The 15th Solanaceae Conference, September 30-October 4, 2018, Chiang Mai, Thailand.
  2. Shizuka Koshimizu, Aria Hisaoka, Misao Senbokuya, Yukino Nakamura, Misa Saito, Maasa Kanno, Eiji Nambara, Hajime Ohyanagi, Koh Aoki and Kentaro Yano (2018) Statistical Analyses, Text-Mining and Web Databases for Plant Science. The PAG Asia Conference, Plant Omics Workshop, May 30-June 1, 2018, Conrad Seoul, South Korea.
  3. Toru Kudo, Yukino Nakamura, Masaaki Kobayashi, Kentaro Yano "Current status of bio-databases for plant and Solanaceae research", The 14th Annual Meeting of the Japanese Solanaceae Consortium, Nihon University College of Bioresource Sciences, September 12-13, 2017 (Invited Talks).
  4. Yukino Nakamura, Misa Saito, Maasa Kanno, Toru Kudo, Masaaki Kobayashi, Hajime Ohyanagi, Eiji Nambara, Kentaro Yano (2017) Lage-Scale Analyses for Genome, Transcriptome and Knowledgeome in Plant Science. The PAG Asia Conference, Gene Mapping by Segregation Workshop, May 29-31, 2017, Conrad Seoul, South Korea.
  5. Eiji Nambara, Masato Otani, Dawei Yan, Yohei Sasaki, Kentaro Yano (2017) Transcriptome Analysis on Growth Regulation in Dormant Organs of Arabidopsis. The PAG Asia Conference, Plant Omics Workshop, May 29-31, 2017, Conrad Seoul, South Korea.
  6. Kentaro Yano (2016) Omics- and Knowledge-based approaches for the exploration of plant genetic resources. East Asia Agricultural Genome Scientist Forum 2016, December 19-20, Busan, Korea.
  7. Kentaro Yano (2016) Omics- and Knowledge-based approaches for the exploration of plant genetic resources. Toronto University, November 1st 2016, Canada.
  8. Kentaro Yano, Shin Terashima, Yukino Nakamura, Toru Kudo, Maasa Kanno, Misa Saito, Satomi Asano, Koji Yokoyama, Masaaki Kobayashi, Hajime Ohyanagi (2016) Omics- and Knowledge-based approaches for new advances in the use of valuable genetic resources of crops. The PAG Asia Conference, Finding Function in Crop Genomes Workshop, June 6-8, 2016, Grand Copthorne Waterfront Hotel, Singapore.
  9. Kentaro Yano (2016) Systems biology for new advances in the use of valuable genetic resources of crops. Institute of Tropical Plant Sciences, March, 29th, 2016, National Cheng Kung University, Taiwan.
  10. Kentaro Yano, Hiroko Tsuchida, Koji Yokoyama, Hiroshi Chiba, Yoshifumi Tada, Takako Mochizuki, Keita Suwabe, Akifumi Shimizu, Masao Watanabe, Makoto Matsuoka, Nori Kurata (2012) OryzaExpress for Rice Omics Information Resources. -A New Statistical Method for Gene Expression Network Analysis-. 10th International Symposium on Rice Functional Genomics, November 26-29, 2012, Chiang Mai, Thailand.
  11. Hajime Ohyanagi, Takahiko Kubo, Atsushi Toyoda, Asao Fujiyama, Masahiro Fujita, Kaori Igarashi, Kentaro Yano, Jose Luis Goicoechea, Rod A. Wing, Nori Kurata (2012) CC genome pseudomolecule construction by BAC-Supported Super Scaffolding. 10th International Symposium on Rice Functional Genomics, November 26-29, 2012, Chiang Mai, Thailand.
  12. Kentaro Yano (2012) Integrated omics analysis and web-database construction in crops. 10th International Congress on Plant Molecular Biology. International Convention Center Jeju, October 21-26, 2012, Jeju, Korea.
  13. Kentaro Yano (2011) Bioinformatics challenges as the driving force in plant and agricultural science. International Symposium, Biotechnology Research Center, The University of Tokyo. Future prospects of plant Biotechnology, Tokyo University, November 15, 2011, Tokyo, Japan.
  14. Kentaro Yano (2011) A large-scale analysis for omics data in model plants. Japan-China International Forum of Advanced Research on Biotechnology 2011, Tokyo University of Marine Science and Technology, November 10-11, 2011, Tokyo, Japan.
  15. Kentaro Yano (2009) Transcriptome studies and databases for model plants. ICQBIC'09 (International Conference in Quantum Bio-Informatics Center), Tokyo University of Science, March 11-14, 2009, Noda, Japan.
  16. Kentaro Yano, Koh Aoki, Kunihiro Suda, Tatsuya Suzuki, Nozomu Sakurai, Takanori Narita, Tadasu Shin-i, Yuji Kohara, Hiroshi Ezura, Daisuke Shibata (2007) KaFTom and MiBASE: tomato genomic databases. The 3rd JSOL Tomato Workshop, March 20-21, 2007, Chiba, Japan.
  17. Kentaro Yano, Manabu Watanabe, Naoki Yamamoto, Taneaki Tsugane, Koh Aoki, Nozomu Sakurai, Daisuke Shibata (2006) MiBASE : A database of the Miniature Tomato Cultivar ”MICRO-TOM”. International Symposium on Tomato Genome Research, February 4-5, 2006, Tsukuba, Japan.

■Domestic Invited Lectures

  1. The Japanese Society of Plant Physiologists The 3rd Plasma Seed Science Research Conference, "Bioinformatics foundations for plant transomics", Ishigaki Seaside Hotel, January 7, 2025
  2. Suntory Global Innovation Center Limited Seminar, "Development of systems biology that combines large-scale omics and knowledge information to discover useful plant genetic resources", Suntory Global Innovation Center Limited, November 29, 2016
  3. Okayama University Graduate School of Environmental and Life Science Seminar, "Development of an omics information analysis platform for the search for useful plant genetic resources", Okayama University, August 5, 2016
  4. "New developments in life science based on genome sequencing and omics analysis", Osaka Shin-Ai gakuin High School, June 16, 2016
  5. "Lectures by working professionals", Osaka Shin-Ai gakuin Junior High School, June 16, 2016
  6. 2015 Horticultural Society Autumn Meeting Use of next-generation sequencers in horticultural research (Public Symposium), "Sequence analysis and gene expression network analysis using next-generation sequencers", Tokushima University Josanjima Campus, September 26, 2015,13:00-17:00
  7. The 12th Annual Meeting of the Japanese Solanaceae Consortium, "Development of strategies for the seamless integration of large-scale omics and knowledge-based information", Meiji University Ikuta Campus, Septembar 4-5, 2015
  8. "New developments in life science based on genome sequencing and omics analysis", Osaka Shin-Ai gakuin High School, December 18, 2014
  9. New academic seminar on "cell wall functions", "Establishment of systems biology for advanced utilization of useful plant genetic resources", Nara Institute of Science and Technology Division of Biological Science, December 12, 2014
  10. Kyoto Sangyo University Faculty of Life Sciences Bioforum2014, "Establishment of systems biology for advanced utilization of useful plant genetic resources", Kyoto Sangyo University, December 11, 2014
  11. The 86th Annual Meeting of The Genetics Society of Japan (Nagahama Meeting), "Large-scale omics information analysis and web databases for systems biology research", Nagahama Institute of Bio-Science and Technology, September 19, 2014
  12. The 55th Annual Meeting of the Japanese Society of Plant Physiologists Symposium 17, "Large-scale data analysis and bioinformatics for systems biology research", University of Toyama, March 19, 2014
  13. The 55th Annual Meeting of the Japanese Society of Plant Physiologists Symposium 5, "Constructing gene expression databases for non-model ferns by de novo assembly", University of Toyama, March 18, 2014
  14. 10th JSOL International Symposium on Solanaceae Genomics, "High-throughput genotyping and large-scale expression network analysis of crops", Osaka Prefecture University, November 29, 2013
  15. Chiba University Graduate School of Horticulture Seminar, "Bioinformatics paves the way for agricultural research", hiba University Graduate School of Horticulture, June 21, 2013
  16. CLC Bio User Meeting 2013, "Gene discovery methods using large-scale transcriptomes", Nihonbashi Koukaido, May 27, 2013
  17. Gene Research Center University of Tsukuba Results presentation, "Establishment of methods to identify the signal transduction pathways and expression control mechanisms of novel genes with unknown functions", University of Tsukuba, April 4, 2013
  18. The 2nd Next-generation Omics Information Integrated Analysis Research Group using R, "Gene discovery methods based on large-scale gene expression information", RIKEN Yokohama Institute, March 8, 2013
  19. The 164th Agriculture and Forestry Exchange Center Workshop "Sequence analysis and data analysis using next-generation sequencers", "Analytical methods for large-scale gene expression data", Ministry of Agriculture, Forestry and Fisheries, Agriculture, Forestry and Fisheries Research Council Secretariat Tsukuba Office and Information and Communications Joint Use Center (Dennokan), September 7, 2012
  20. The 202th Humanosphere Symposium  "The intersection of biotechnology and information science: What information science is needed in cutting-edge biology, agriculture, and biotechnology?", "How to use the plant genetic information database", Kyoto University, March 5, 2012
  21. Plant Global Education Project Workshop "New research approaches using high-throughput sequencing", "Gene discovery methods from large-scale gene expression data", Nara Institute of Science and Technology, July 8, 2011
  22. Japanese Society of Grassland Science Symposium  "Breeding strategies for improving pasture quality using genomic information", "Trends in plant omics information analysis", Utsunomiya University, March 27, 2011
  23. Fruit Tree Informatics Camp 2010, "Experimental design and analysis methods for microarray experiments", Fruit Tree Research Institute (Tsukuba), October 2010
  24. Global COE "Development of systems life science: Design of life functions" Seminar, "Large-scale plant omics data analysis and database construction", Nagoya University, October 19, 2010
  25. The University of Shiga Prefecture, Environmental Science Seminar, "Expression profiling - How to find genes that change with the environment", The University of Shiga Prefecture, February 3, 2010
  26. 8th Metabolome Informatics Workshop, "A method for discovering genes from large-scale transcriptomes", Institute for Advanced Biosciences, Keio University , January 28-29, 2010
  27. Important trait area database seminar, "Efficient information extraction using the Web", Dennokan (Tsukuba), July 2-3, 2009
  28. Faculty of Agriculture, Tottori University, Research Strengthening Seminar, "How to use plant omics information", Tottori University, March 6, 2009
  29. Tohoku University Graduate School Life Science Seminar, "How to use plant omics data - Mining from experimental data and web information", Tohoku University, November 28, 2007
  30. Plant Science Research and Education Promotion Workshop,"The whole picture of the omics world: from genomics to metabolomics", Nara Institute of Science and Technology, September 28, 2007
  31. Research Seminar, "Statistical genetic approaches in the post-genome era: What can we do now and to what extent?", Tsukuba Research Gallery, March 15, 2007
  32. Okayama University COE "Plant Medical Science" The 31st Special Seminar, "How to use plant genetic information databases through bioinformatics", Okayama University, February 2007
  33. The 109th Lectures of The Japanese Society of Breeding, Group Study Meeting I "Don't get swamped in data -Breeding Informatics research I-", "Examples of using genetic information from databases and web tools", Tokyo University of Agriculture and Technology, March 30, 2006
  34. The 106th Lectures of The Japanese Society of Breeding, Group Study Meeting I  "Considering the future of breeding and agriculture XII", "Applications and prospects of bioinformatics for plant breeding", Mie University, September 22, 2004