植物ゲノム・遺伝学研究室 発表論文
発表論文
2022 2021 2020 2019 2018 2017 2016 2015 2014以前
Development of a plant conveyance system using an AGV and a self-designed plant-handling device: A case study of DIY plant phenotyping
Takanari Tanabata, Kunihiro Kodama, Takuyu Hashiguchi, Daisuke Inomata, Hidenori Tanaka, Sachiko Isobe
Breed Sci. 2022;72(1):85-95.
doi:10.1270/jsbbs.21070
Plant GARDEN: a portal website for accessing plant genome, DNA marker, and SNP information
H. Ichihara, H. Hirakawa, A. Ghelfi, M. Kohara, M. Yamada, T. Tamura, A. Nakaya, Y. Nakamura, S. Shirasawa, E. Sugihara, S. Tabata, S. Isobe
Acta Hortic. 2022;1339:415-418.
doi:10.17660/ActaHortic.2022.1339.52
Cherry Blossom Forecast Based on Transcriptome of Floral Organs Approaching Blooming in the Flowering Cherry ( Cerasus × yedoensis) Cultivar ‘Somei-Yoshino’
Kenta Shirasawa, Tomoya Esumi, Akihiro Itai, Sachiko Isobe
Front Plant Sci. 2022;13:802203. Published 2022 Jan 26.
doi:10.3389/fpls.2022.802203
De novo whole-genome assembly in an interspecific hybrid table grape, ‘Shine Muscat’
Kenta Shirasawa, Hideki Hirakawa, Akifumi Azuma, Fumiya Taniguchi, Toshiya Yamamoto, Akihiko Sato, Andrea Ghelfi, Sachiko N Isobe
DNA Res. 2022;29(6):dsac040.
doi:10.1093/dnares/dsac040
Chromosome-scale genome assembly of a Japanese chili pepper landrace, Capsicum annuum ‘Takanotsume’
Kenta Shirasawa, Munetaka Hosokawa, Yasuo Yasui, Atsushi Toyoda, Sachiko Isobe
DNA Res. 2023;30(1):dsac052.
doi:10.1093/dnares/dsac052
Chromosome-scale genome assembly of Eustoma grandiflorum, the first complete genome sequence in the genus Eustoma
Kenta Shirasawa, Ryohei Arimoto, Hideki Hirakawa, Motoyuki Ishimori, Andrea Ghelfi, Masami Miyasaka, Makoto Endo, Saneyuki Kawabata, Sachiko N Isobe
G3 (Bethesda). 2023;13(2):jkac329.
doi:10.1093/g3journal/jkac329
Chromosome-scale haplotype-phased genome assemblies of the male and female lines of wild asparagus (Asparagus kiusianus), a dioecious plant species
Kenta Shirasawa, Saki Ueta, Kyoko Murakami, Mostafa Abdelrahman, Akira Kanno, Sachiko Isobe
DNA Res. 2022;29(1):dsac002.
doi:10.1093/dnares/dsac002
Identification of QTLs for root color and carotenoid contents in Japanese orange carrot F2 populations
Taeko Shibaya, Chika Kuroda, Hisano Tsuruoka, Chiharu Minami, Akiko Obara, Shinobu Nakayama, Yoshie Kishida, Takayoshi Fujii, Sachiko Isobe
Sci Rep. 2022;12(1):8063. Published 2022 May 16.
doi:10.1038/s41598-022-11544-7
All-around 3D plant modeling system using multiple images and its composition
Nobuo Kochi, Atsushi Hayashi, Yota Shinohara, Takanari Tanabata, Kunihiro Kodama, Sachiko Isobe
Breed Sci. 2022;72(1):75-84.
doi:10.1270/jsbbs.21068
Effect of differences in light source environment on transcriptome of leaf lettuce (Lactuca sativa L.) to optimize cultivation conditions
Soichiro Nagano, Naoya Mori, Yukiko Tomari, Noriko Mitsugi, Ayumi Deguchi, Makoto Kashima, Ayumi Tezuka, Atsushi J Nagano, Hitohide Usami, Takanari Tanabata, Hiroyuki Watanabe
PLoS One. 2022;17(3):e0265994. Published 2022 Mar 29.
doi:10.1371/journal.pone.0265994
Construction of prediction models for growth traits of soybean cultivars based on phenotyping in diverse genotype and environment combinations
Andi Madihah Manggabarani 1, Takuyu Hashiguchi 2, Masatsugu Hashiguchi 2, Atsushi Hayashi 3, Masataka Kikuchi 4, Yusdar Mustamin 1, Masaru Bamba 1, Kunihiro Kodama 3, Takanari Tanabata 3, Sachiko Isobe 3, Hidenori Tanaka 2, Ryo Akashi 2, Akihiro Nakaya 4 5, Shusei Sato 1
DNA Res. 2022;29(4):dsac024.
doi:10.1093/dnares/dsac024
Establishing an efficient protoplast transient expression system for investigation of floral thermogenesis in aroids
Haruhiko Maekawa, Miyabi Otsubo, Mitsuhiko P Sato, Tomoko Takahashi, Koichiro Mizoguchi, Daiki Koyamatsu, Takehito Inaba, Yasuko Ito-Inaba
Plant Cell Rep. 2022;41(1):263-275.
doi:10.1007/s00299-021-02806-1
Global population structure of the Serratia marcescens complex and identification of hospital-adapted lineages in the complex
Tomoyuki Ono, Itsuki Taniguchi, Keiji Nakamura, Debora Satie Nagano, Ruriko Nishida, Yasuhiro Gotoh, Yoshitoshi Ogura, Mitsuhiko P Sato, Atsushi Iguchi, Kazunori Murase, Dai Yoshimura, Takehiko Itoh, Ayaka Shima, Damien Dubois, Eric Oswald, Akira Shiose, Naomasa Gotoh, Tetsuya Hayashi
Microb Genom. 2022;8(3):000793.
doi:10.1099/mgen.0.000793
Species–genetic diversity correlations depend on ecological similarity between multiple moorland plant species
Naohiro I. Ishii, Shun K. Hirota, Ayumi Matsuo, Mitsuhiko P. Sato, Takehiro Sasaki, Yoshihisa Suyama
Oikos. 2022;2022(9):e09023.
doi: 10.1111/oik.09023
Assessing the effectiveness of DNA barcoding for exploring hidden genetic diversity in deep-sea fishes
Akinori Teramura, Keita Koeda, Ayumi Matsuo, Mitsuhiko P. Sato, Hiroshi Senou, Hsuan-Ching Ho, Yoshihisa Suyama, Kiyoshi Kikuchi, Shotaro Hirase
Mar Ecol Prog Ser. 2022;701:83-98.
doi: 10.3354/meps14193
Genome-wide structural and functional features of single nucleotide polymorphisms revealed from the whole genome resequencing of 179 accessions of Arachis
Ramesh S Bhat, Kenta Shirasawa, Shwetha D Chavadi
Physiol Plant. 2022;174(1):e13623.
doi:10.1111/ppl.13623
Genomics-Assisted Breeding for Resistance to Leaf Spots and Rust Diseases in Peanut
R. S. Bhat, Venkatesh, M. P. Jadhav, P. V. Patil, K. Shirasawa
Accelerated Plant Breeding. 2022;4:239-278.
doi: 10.1007/978-3-030-81107-5_8
Artificial selection in the expansion of rice cultivation
Kenji Fujino, Yoshihiro Kawahara, Kenta Shirasawa
Theor Appl Genet. 2022;135(1):291-299.
doi:10.1007/s00122-021-03966-0
Genetic diversity among the varieties exhibiting early heading date in rice
Kenji Fujino, Yoshihiro Kawahara, Kenta Shirasawa
Euphytica. 2022;218:18.
doi: 10.1007/s10681-021-02965-y
Fine-scale genetic structure of the rice landrace population in Japan
Kenji Fujino, Kenta Shirasawa
Mol Genet Genomics. 2022;297(3):711-718.
doi:10.1007/s00438-022-01880-8
Control of awn length in rice breeding programs in Hokkaido
Kenji Fujino, Utako Yamanouchi, Yoshihiro Kawahara, Kenta Shirasawa
Euphytica. 2022;218:105.
doi: 10.1007/s10681-022-03053-5
Genetic mapping of drought tolerance traits phenotyped under varying drought stress environments in peanut (Arachis hypogaea L.)
Subhasini Ghosh, Supriya S. Mahadevaiah, S. Anjan Gowda, Sunil S. Gangurde, Mangesh P. Jadhav, Anil A. Hake, P. Latha, T. Anitha, V. P. Chimmad, Kiran K. Mirajkar, Vinay Sharma, Manish K. Pandey, Kenta Shirasawa, Spurthi N. Nayak, Rajeev K. Varshney, Ramesh S. Bhat
Euphytica. 2022;218:168.
doi: 10.1007/s10681-022-03120-x
Quantitative Trait Loci Analysis Based on High-Density Mapping of Single-Nucleotide Polymorphisms by Genotyping-by-Sequencing Against Pine Wilt Disease in Japanese Black Pine ( Pinus thunbergii)
Tomonori Hirao, Koji Matsunaga, Kenta Shirasawa
Front Plant Sci. 2022;13:850660. Published 2022 Apr 5.
doi:10.3389/fpls.2022.850660
Genetic diversity analysis and core collection construction for Amaranthus tricolor germplasm based on genome-wide single-nucleotide polymorphisms
Ken Hoshikawa, Ya-Ping Lin, Roland Schafleitner, Kenta Shirasawa, Sachiko Isobe, Duc Chinh Nguyen, Ryo Ohsawa, Yosuke Yoshioka
Scientia Horticulturae. 2022;307:111428.
doi: 10.1016/j.scienta.2022.111428
Fig Genetics, Genomics and Transcriptomics
H. Ikegami, K. Shirasawa
In:Moshe A. Flaishman, Uygun Aksoy (eds) Advances in Fig Research and Sustainable Production, Stylus Publishing. 2022 Chapter 20 pp341-342.
Physical mapping of qDTH3 for heading date reveals the evolutionary history of cultivated rice
Tomohito Ikegaya, Kenta Shirasawa, kenji Fujino
Euphytica under review.
doi: 10.21203/rs.3.rs-1460166/v2
Modification of tomato breeding traits and plant hormone signaling by target-AID, the genome-editing system inducing efficient nucleotide substitution
Sachiko Kashojiya, Yu Lu, Mariko Takayama, Hiroki Komatsu, Luyen Hieu Thi Minh, Keiji Nishida, Kenta Shirasawa, Kenji Miura, Satoko Nonaka, Jun-Ichiro Masuda, Akihiko Kondo, Hiroshi Ezura, Tohru Ariizumi
Hortic Res. 2022;9:uhab004.
doi:10.1093/hr/uhab004
orf137 triggers cytoplasmic male sterility in tomato
Kosuke Kuwabara, Shin-Ichi Arimura, Kenta Shirasawa, Tohru Ariizumi
Plant Physiol. 2022;189(2):465-468.
doi:10.1093/plphys/kiac082
Gene prediction for leaf margin phenotype and fruit flesh color in pineapple (Ananas comosus) using haplotype-resolved genome sequencing
Kenji Nashima, Kenta Shirasawa, Sachiko Isobe, Naoya Urasaki, Kazuhiko Tarora, Ayaka Irei, Moriyuki Shoda, Makoto Takeuchi, Yuta Omine, Yoichi Nishiba, Terumi Sugawara, Miyuki Kunihisa, Chikako Nishitani, Toshiya Yamamoto
Plant J. 2022;110(3):720-734.
doi:10.1111/tpj.15699
Detecting a novel locus associated with pellicle peelability in Japanese chestnut populations preselected for a major peelability gene
Sogo Nishio, Takeshi Hayashi, Kenta Shirasawa, Shingo Terakami, Norio Takada, Yukie Takeuchi, Atsushi Imai, Toshihiro Saito
Scientia Horticulturae. 2022;306:111446.
doi: 10.1016/j.scienta.2022.111446.
Mapping of Nematode Resistance in Hexaploid Sweetpotato Using an Next-Generation Sequencing-Based Association Study
Nozomi Obata, Hiroaki Tabuchi, Miyu Kurihara, Eiji Yamamoto, Kenta Shirasawa, Yuki Monden
Front Plant Sci. 2022;13:858747. Published 2022 Mar 18.
doi:10.3389/fpls.2022.858747
Bayesian estimation of multi-allele QTLs for agricultural traits in tomato using recombinant inbred lines derived from two F1 hybrid cultivars
Akio Ohyama, Hiroshi Matsunaga, Yasushi Kawasaki, Kenta Shirasawa, Satomi Negoro, Koji Miyatake, Hirotaka Yamaguchi, Tsukasa Nunome, Hiroyoshi Iwata, Hiroyuki Fukuoka & Takeshi Hayashi
Euphytica. 2022;219:21.
doi: 10.1007/s10681-022-03152-3
Recent Advances in Genetics, Genomics, and Breeding for Nutritional Quality in Groundnut
Sejal Parmar, Vinay Sharma, Deekshitha Bomireddy, Pooja Soni, Pushpesh Joshi, Sunil S. Gangurde, Jianping Wang, Sandip K. Bera, Ramesh S. Bhat, Haile Desmae, Kenta Shirasawa, Baozhu Guo, Rajeev K. Varshney, Manish K. Pandey
In: Gosal, S.S., Wani, S.H. (eds) Accelerated Plant Breeding, Volume 4. Springer, Cham.
doi: 10.1007/978-3-030-81107-5_4
A genome-wide association and fine-mapping study of white rust resistance in hexaploid chrysanthemum cultivars with a wild diploid reference genome
Katsuhiko Sumitomo, Kenta Shirasawa, Sachiko Isobe, Hideki Hirakawa, Akiho Harata, Michiharu Nakano, Yoshihiro Nakano, Masafumi Yagi, Tamotsu Hisamatsu, Hiroyasu Yamaguchi, Fumiya Taniguchi
Hortic Res. 2022;9:uhac170. Published 2022 Aug 3.
doi:10.1093/hr/uhac170
Chromosome-scale genome assembly of Glycyrrhiza uralensis revealed metabolic gene cluster centred specialized metabolites biosynthesis
Amit Rai, Hideki Hirakawa, Megha Rai, Yohei Shimizu, Kenta Shirasawa, Shinji Kikuchi, Hikaru Seki, Mami Yamazaki, Atsushi Toyoda, Sachiko Isobe, Toshiya Muranaka, Kazuki Saito
DNA Res. 2022;29(6):dsac043.
doi:10.1093/dnares/dsac043
Elucidation of drought tolerance potential of horsegram (Macrotyloma uniflorum Var.) germplasm using genome wide association studies
Sunny Choudhary, Sachiko Isobe, Rakesh Kumar Chahota
Gene. 2022;819:146241.
doi:10.1016/j.gene.2022.146241
All-around 3D plant modeling system using multiple images and its composition
Nobuo Kochi, Atsushi Hayashi, Yota Shinohara, Takanari Tanabata, Kunihiro Kodama, Sachiko Isobe
Breed Sci. 2022;72(1):75-84.
doi:10.1270/jsbbs.21068
Organelle genome assembly uncovers the dynamic genome reorganization and cytoplasmic male sterility associated genes in tomato
Kosuke Kuwabara, Issei Harada, Yuma Matsuzawa, Tohru Ariizumi, Kenta Shirasawa
Hortic Res. 2021;8(1):250. Published 2021 Dec 1.
doi:10.1038/s41438-021-00676-y
A chromosome-scale draft genome sequence of horsegram ( Macrotyloma uniflorum)
Kenta Shirasawa, Rakesh Chahota, Hideki Hirakawa, Soichiro Nagano, Hideki Nagasaki, Tilak Sharma, Sachiko Isobe
GigaByte. 2021;2021:gigabyte30. Published 2021 Oct 8.
doi:10.46471/gigabyte.30
Chromosome-level de novo genome assemblies of over 100 plant species
Kenta Shirasawa, Daijiro Harada, Hideki Hirakawa, Sachiko Isobe, Chittaranjan Kole
Breed Sci. 2021;71(2):117-124.
doi:10.1270/jsbbs.20146
Chromosome-scale genome assembly of Japanese pear (Pyrus pyrifolia) variety ‘Nijisseiki’
Kenta Shirasawa, Akihiro Itai, Sachiko Isobe
DNA Res. 2021;28(2):dsab001.
doi:10.1093/dnares/dsab001
Genome sequencing and analysis of two early-flowering cherry (Cerasus × kanzakura) varieties, ‘Kawazu-zakura’ and ‘Atami-zakura’
Kenta Shirasawa, Akihiro Itai, Sachiko Isobe
DNA Res. 2021;28(6):dsab026.
doi:10.1093/dnares/dsab026
Whole-genome sequencing and analysis of two azaleas, Rhododendron ripense and Rhododendron kiyosumense
Kenta Shirasawa, Nobuo Kobayashi, Akira Nakatsuka, Hideya Ohta, Sachiko Isobe
DNA Res. 2021;28(5):dsab010.
doi:10.1093/dnares/dsab010
Genome features of common vetch ( Vicia sativa) in natural habitats
Kenta Shirasawa, Shunichi Kosugi, Kazuhiro Sasaki, Andrea Ghelfi, Koei Okazaki, Atsushi Toyoda, Hideki Hirakawa, Sachiko Isobe
Plant Direct. 2021;5(10):e352. Published 2021 Oct 7.
doi:10.1002/pld3.352
Chromosome-level genome assembly of Japanese chestnut (Castanea crenata Sieb. et Zucc.) reveals conserved chromosomal segments in woody rosids
Kenta Shirasawa, Sogo Nishio, Shingo Terakami, Roberto Botta, Daniela Torello Marinoni, Sachiko Isobe
DNA Res. 2021;28(5):dsab016.
doi:10.1093/dnares/dsab016
Genomic region associated with pod color variation in pea (Pisum sativum)
Kenta Shirasawa, Kazuhiro Sasaki, Hideki Hirakawa, Sachiko Isobe
G3 (Bethesda). 2021;11(5):jkab081.
doi:10.1093/g3journal/jkab081
Development of PCR-based DNA marker for detection of white carrot contamination caused by Y2 locus
Taeko Shibaya, Chika Kuroda, Shinobu Nakayama, Chiharu Minami, Akiko Obara, Takayoshi Fujii, Sachiko Isobe
Breed Sci. 2021;71(2):201-207.
doi:10.1270/jsbbs.20120
Whole-genome sequence diversity and association analysis of 198 soybean accessions in mini-core collections
Hiromi Kajiya-Kanegae, Hideki Nagasaki, Akito Kaga, Ko Hirano, Eri Ogiso-Tanaka, Makoto Matsuoka, Motoyuki Ishimori, Masao Ishimoto, Masatsugu Hashiguchi, Hidenori Tanaka, Ryo Akashi, Sachiko Isobe, Hiroyoshi Iwata
DNA Res. 2021;28(1):dsaa032.
doi:10.1093/dnares/dsaa032
Genomic Selection for F1 Hybrid Breeding in Strawberry ( Fragaria × ananassa)
Eiji Yamamoto, Sono Kataoka, Kenta Shirasawa, Yuji Noguchi, Sachiko Isobe
Front Plant Sci. 2021;12:645111. Published 2021 Mar 4.
doi:10.3389/fpls.2021.645111
MIG-seq 法によるシイタケの品種識別技術開発
佐藤光彦, 松尾歩, 廣田峻, 陶山佳久, 木下晃彦, 宮崎和弘, 福井陸夫
DNA 多型 2021 vol.29 No. 1 p55-57
Identification of resistance locus and characterization of effector genes toward breeding for resistance to Phytophthora infestans
R.A. Arafa, M.T. Rakha, S.M. Kamel, N.E.K. Soliman, O.M. Moussa, K. Shirasawa
Acta Hortic. 2021;1316:9-14 doi:10.17660/ActaHortic.2021.1316.2
doi:10.17660/ActaHortic.2021.1316.2
Genome sequence of Hydrangea macrophylla and its application in analysis of the double flower phenotype
Kenji Nashima, Kenta Shirasawa, Andrea Ghelfi, Hideki Hirakawa, Sachiko Isobe, Takuro Suyama, Takuya Wada, Takeshi Kurokura, Tatuya Uemachi, Mirai Azuma, Midori Akutsu, Masaharu Kodama, Yoshiko Nakazawa, Kiyoshi Namai
DNA Res. 2021;28(1):dsaa026.
doi:10.1093/dnares/dsaa026
De novo genome assembly of two tomato ancestors, Solanum pimpinellifolium and Solanum lycopersicum var. cerasiforme, by long-read sequencing
Hitomi Takei, Kenta Shirasawa, Kosuke Kuwabara, Atsushi Toyoda, Yuma Matsuzawa, Shinji Iioka, Tohru Ariizumi
DNA Res. 2021;28(1):dsaa029.
doi:10.1093/dnares/dsaa029
Establishing an efficient protoplast transient expression system for investigation of floral thermogenesis in aroids
Haruhiko Maekawa , Miyabi Otsubo , Mitsuhiko P Sato, Tomoko Takahashi, Koichiro Mizoguchi, Daiki Koyamatsu, Takehito Inaba, Yasuko Ito-Inaba
Plant Cell Rep. 2022;41(1):263-275.
doi:10.1007/s00299-021-02806-1
Revegetation in Japan overlooks geographical genetic structure of native Artemisia indica var. maximowiczii populations
Satoshi Wagatsuma, Junichi Imanishi, Yoshihisa Suyama, Ayumi Matsuo, Mitsuhiko P. Sato, Chika Mitsuyuki, Yoshihiro Tsunamoto, Tohru Tominaga, Yoshiko Shimono
Restoration Ecology 2022;30(7):e13567 First Published: 24 September 2021.
doi:10.1111/rec.13567
Genetic consequences of habitat fragmentation in a perennial plant Trillium camschatcense are subjected to its slow-paced life history
Yoichi Tsuzuki, Mitsuhiko P. Sato, Ayumi Matsuo, Yoshihisa Suyama, Masashi Ohara
Population Ecology 2022;64(1):5-18. First Published: 07 July 2021.
doi:10.1002/1438-390X.12093
Positive selective sweeps of epigenetic mutations regulating specialized metabolites in plants
Kazumasa Shirai, Mitsuhiko P Sato, Ranko Nishi, Masahide Seki, Yutaka Suzuki, Kousuke Hanada
Genome Res. 2021;31(6):1060-1068.
doi:10.1101/gr.271726.120
MIG-seq法によるツバキ品種識別の試み
吉川ひとみ, 松尾歩, 佐々木崇徳, 佐藤光彦, 陶山佳久, 柘浩一郎
DNA 多型 2021 vol.29 No. 1 p25-31
Strawberry fruit shape: quantification by image analysis and QTL detection by genome-wide association analysis
Shiro Nagamatsu, Masao Tsubone, Takuya Wada, Koichiro Oku, Miyuki Mori, Chiharu Hirata, Atsushi Hayashi, Takanari Tanabata, Sachiko Isobe, Kinuko Takata, Katsumi Shimomura
Breed Sci. 2021;71(2):167-175.
doi:10.1270/jsbbs.19106
Quantitative trait loci for leaf inclination angle in rice detected using reciprocal mapping populations
Nan Su San, Kazuya Soda, Yosuke Ootsuki, Masahiro Yamashita, Ryoji Karimata, Kasumi Suzuki, Shunsuke Adachi, Toshio Yamamoto, Takanari Tanabata, Tadamasa Ueda, Taiichiro Ookawa, Tadashi Hirasawa
Field Crops Research 2021;266:108128.
doi:10.1016/j.fcr.2021.108128.
iPOTs: Internet of Things-based pot system controlling optional treatment of soil water condition for plant phenotyping under drought stress
Yuko Numajiri, Kanami Yoshino, Shota Teramoto, Atsushi Hayashi, Ryo Nishijima, Tsuyoshi Tanaka, Takeshi Hayashi, Taiji Kawakatsu, Takanari Tanabata, Yusaku Uga
Plant J. 2021;107(5):1569-1580.
doi:10.1111/tpj.15400
RSAtrace3D: robust vectorization software for measuring monocot root system architecture
Shota Teramoto, Takanari Tanabata, Yusaku Uga
BMC Plant Biol. 2021;21(1):398. Published 2021 Aug 25.
doi:10.1186/s12870-021-03161-9
Population Genomics of Peanut
Ramesh S. Bhat, Kenta Shirasawa, Vinay Sharma, Sachiko N. Isobe, Hideki Hirakawa, Chikara Kuwata, Manish K. Pandey, Rajeev K. Varshney, M. V. Channabyre Gowda
In: Population Genomics. Springer, Cham. 2021
doi: 10.1007/13836_2021_88
Analysis of the Segregation Distortion of FcRAN1 Genotypes Based on Whole-Genome Resequencing of Fig ( Ficus carica L.) Breeding Parents
Hidetoshi Ikegami, Kenta Shirasawa, Hiroshi Yakushiji, Shiori Yabe, Masaru Sato, Takeshi Hayashi, Kosuke Tashiro, Hitoshi Nogata
Front Plant Sci. 2021;12:647599. Published 2021 Aug 10.
doi:10.3389/fpls.2021.647599
Genotyping-by-Sequencing Based Genetic Mapping Identified Major and Consistent Genomic Regions for Productivity and Quality Traits in Peanut
Mangesh P Jadhav, Sunil S Gangurde, Anil A Hake, Arati Yadawad, Supriya S Mahadevaiah, Santosh K Pattanashetti, M V Channabyre Gowda, Kenta Shirasawa, Rajeev K Varshney, Manish K Pandey, Ramesh S Bhat
Front Plant Sci. 2021;12:668020. Published 2021 Sep 23.
doi:10.3389/fpls.2021.668020
Enhancing oleic acid content in two commercially released peanut varieties through marker-assisted backcross breeding
Mangesh Pralhad Jadhav, Malagouda D. Patil, Mahesh Hampannavar, Venkatesh, Pavana Dattatreya, Kenta Shirasawa, Janila Pasupuleti, Manish K. Pandey, Rajeev K. Varshney, Ramesh S. Bhat
Crop Sci. 2021;61(4):2435-2443.
doi:10.1002/csc2.20512
Genome-Wide Identification of Loci Associated With Phenology-Related Traits and Their Adaptive Variations in a Highbush Blueberry Collection
Kyoka Nagasaka, Soichiro Nishiyama, Mao Fujikawa, Hisayo Yamane, Kenta Shirasawa, Ebrahiem Babiker, Ryutaro Tao
Front Plant Sci. 2022;12:793679. Published 2022 Jan 21.
doi:10.3389/fpls.2021.793679
A chromosome-level genome sequence of Chrysanthemum seticuspe, a model species for hexaploid cultivated chrysanthemum
Michiharu Nakano, Hideki Hirakawa, Eigo Fukai, Atsushi Toyoda, Rei Kajitani, Yohei Minakuchi, Takehiko Itoh, Yohei Higuchi, Toshiaki Kozuka, Hidemasa Bono, Kenta Shirasawa, Ippei Shiraiwa, Katsuhiko Sumitomo, Tamotsu Hisamatsu, Michio Shibata, Sachiko Isobe, Kenji Taniguchi, Makoto Kusaba
Commun Biol. 2021;4(1):1167. Published 2021 Oct 7.
doi:10.1038/s42003-021-02704-y
Genome-wide association study of individual sugar content in fruit of Japanese pear (Pyrus spp.)
Sogo Nishio, Takeshi Hayashi, Kenta Shirasawa, Toshihiro Saito, Shingo Terakami, Norio Takada, Yukie Takeuchi, Shigeki Moriya, Akihiko Itai
BMC Plant Biol. 2021;21(1):378. Published 2021 Aug 16.
doi:10.1186/s12870-021-03130-2
Genomic insight into the developmental history of southern highbush blueberry populations
Soichiro Nishiyama, Mao Fujikawa, Hisayo Yamane, Kenta Shirasawa, Ebrahiem Babiker, Ryutaro Tao
Heredity (Edinb). 2021;126(1):194-205.
doi:10.1038/s41437-020-00362-0
Chromosome-scale genome assembly of the transformation-amenable common wheat cultivar ‘Fielder’
Kazuhiro Sato, Fumitaka Abe, Martin Mascher, Georg Haberer, Heidrun Gundlach, Manuel Spannagl, Kenta Shirasawa, Sachiko Isobe
DNA Res. 2021;28(3):dsab008.
doi:10.1093/dnares/dsab008
DNA marker for resistance to Puccinia horiana in chrysanthemum ( Chrysanthemum morifolium Ramat.) “Southern Pegasus”
Katsuhiko Sumitomo, Kenta Shirasawa, Sachiko N Isobe, Hideki Hirakawa, Akiho Harata, Masato Kawabe, Masafumi Yagi, Masaaki Osaka, Miyuki Kunihisa, Fumiya Taniguchi
Breed Sci. 2021;71(2):261-267.
doi:10.1270/jsbbs.20063
Comparative QTL mapping for male sterility of cultivated strawberry ( Fragaria × ananassa Duch.) using different reference genome sequences
Takuya Wada, Hiyori Monden, Sachiko Isobe, Kenta Shirasawa, Takayuki Sueyoshi, Chiharu Hirata, Miyuki Mori, Shiro Nagamatsu, Yoshiki Tanaka
[published correction appears in Breed Sci. 2022 Apr;72(2):188]. Breed Sci. 2021;71(4):456-466.
doi:10.1270/jsbbs.20151
Comparative analysis of the relationship between translation efficiency and sequence features of endogenous proteins in multiple organisms
Naoyuki Tajima, Toshitaka Kumagai, Yutaka Saito, Tomoshi Kameda
Genomics. 2021;113(4):2675-2682.
doi:10.1016/j.ygeno.2021.05.037
Identification of a major QTL for root thickness in diploid wild sweetpotato (Ipomoea trifida) using QTL-seq
Keisuke Suematsu, Masaru Tanaka, Sachiko Isobe
Plant Production Sci. 2022;25(1):120-129 Published 2021 May 24,
doi:10.1080/1343943X.2021.1927766
Translation of continuous artificial selection on phenotype into genotype during rice breeding programs
Kenji Fujino, Yoshihiro Kawahara, Kanako O Koyanagi, Kenta Shirasawa
Breed Sci. 2021;71(2):125-133.
doi:10.1270/jsbbs.20089
Identification of resistance locus and characterization of effector genes toward breeding for resistance to Phytophthora infestans.
Arafa RA, Rakha MT, Kamel SM, Soliman NEK, Moussa OM, Shirasawa KAct Hortic,
in press(2020)
Construction of a framework linkage map and genetic dissection of drought- and yield-related QTLs in horsegram (Macrotyloma uniflorum).
Chahota RK, Sharma V, Rana M, Sharma R, Choudhary S, Sharma TR, Shirasawa K, Hirakawa H, Isobe SN
Euphytica 216: 61(2020)
Genome sequence of Hydrangea macrophylla and its application in analysis of the double flower phenotype.
Nashima K, Shirasawa K, Ghelfi A, Hirakawa H, Isobe S, Suyama T, Wada T, Kurokura T, Uemachi T, Azuma M, Akutsu M, Kodama M, Nakazawa Y, Namai K
DNA Res 10.1093/dnares/dsaa026(2020)
Four genetic loci control compact plant size with yellow pear-shaped fruit in ornamental tomato (Solanum lycopersicum L.).
Safaei M, Olfati JA, Hamidoghli Y, Rabiei B, Yamamoto E, Shirasawa K
Plant Genome 13: e20017(2020)
Genome sequence and analysis of a Japanese radish (Raphanus sativus) cultivar named ‘Sakurajima Daikon’ possessing giant root.
Shirasawa K, Hirakawa H, Fukino N, Kitashiba H, Isobe S
DNA Res 10.1093/dnares/dsaa010(2020)
The Ficus erecta genome aids Ceratocystis canker resistance breeding in common fig (F. carica).
Shirasawa K, Yakushiji H, Nishimura R, Morita T, Jikumaru S, Ikegami H, Toyoda A, Hirakawa H, Isobe S
Plant J 102: 1313-1322(2020)
De novo genome assembly of two tomato ancestors, Solanum pimpinellifolium and S. lycopersicum var. cerasiforme, by long-read sequencing..
Takei H, Shirasawa K, Kuwabara K, Toyoda A, Matsuzawa Y, Iioka S, Ariizumi T
DNA Res 10.1093/dnares/dsaa029(2020)
Genetic mapping in autohexaploid sweet potato with low-coverage NGS-based genotyping data.
Yamamoto E, Shirasawa K, Kimura T, Monden Y, Tanaka M, Isobe S
G3 10: 2661-2670(2020)
Chromosome-level de novo genome assemblies of over 100 plant species.
Shirasawa K, Harada D, Hirakawa H, Isobe S, Kole C
Breed Sci, in press(2020)
Advances of whole genome sequencing in strawberry with NGS technologies.
Isobe S, Shirasawa K, Hirakawa H
Hort J 89: 108-114(2020)
Root-knot nematode genetic diversity associated with host compatibility to sweetpotato cultivars.
Asamizu E, Shirasawa K, Hirakawa H, Iwahori H
Mol Plant Pathol doi: 10.1111/mpp.12961(2020)
DNA methylation and expression analyses reveal epialleles for the foliar disease resistance genes in peanut (Arachis hypogaea L.).
Bhat RS, Rockey J, Shirasawa K, Tilak IS, Patil MPB, Lachagari VBR
BMC Research Notes 13: 20 doi: 10.1186/s13104-020-4883-y.(2020)
Translation of continuous artificial selection on phenotype into genotype during rice breeding programs.
Fujino K, Kawahara Y, Koyanagi K, Shirasawa K
Breed Sci, in press(2020)
Genetic analyses of anthocyanin content using polyploid GWAS followed by QTL detection in the sweetpotato (Ipomoea batatas L.) storage root.
Haque E, Yamamoto E, Shirasawa K, Tabuchi H, Yoon U, Isobe S, Tanaka M
Plant Root 14: 11-21(2020)
Foliar disease resistant and productive mutants from the introgression lines of peanut (Arachis hypogaea).
Joshi P, Jadhav MP, Shirasawa K, Yadawad A, Bhat RS
Plant Breed 139: 148-155(2020)
Identification of genome-wide SNPs among geographically diverse radish accessions.
Kobayashi H, Shirasawa K, Fukino N, Hirakawa H, Akanuma T, Kitashiba H
DNA Res 10.1093/dnares/dsaa001(2020)
Development of high-density genetic linkage maps and identification of loci for chestnut gall wasp resistance in Castanea spp.
Marinoni DT, Nishio S, Valentini N, Shirasawa K, Acquadro A, Portis E, Alma A, Akkak A, Pavese V, Cavalet-Giorsa E, Botta R
Plants 9: 1048(2020)
Genome-wide study on the polysomic genetic factors conferring plasticity of flower sexuality in hexaploid persimmon.
Masuda K, Yamamoto E, Shirasawa K, Onoue K, Kono A, Ushijima K, Kubo Y, Tao R, Henry I, Akagi T
DNA Res 10.1093/dnares/dsaa012(2020)
CURLED LATER1 encoding the largest subunit of the Elongator complex has a unique role in leaf development and meristem function in rice.
Matsumoto H, Yasui Y, Ohmori Y, Tanaka W, Ishikawa T, Numa H, Shirasawa K, Taniguchi Y, Tanaka J, Suzuki Y, Hirano HY
Plant J 104: 351-364(2020)
Genomic insight into the developmental history of southern highbush blueberry populations.
Nishiyama S, Fujikawa M, Yamane H, Shirasawa K, Babiker E, Tao R
Heredity 126: 194-205(2020)
High-throughput three-dimensional visualization of root system architecture of rice using X-ray computed tomography.
Teramoto S, Takayasu S, Kitomi Y, Arai-Sanoh Y, Tanabata T, Uga Y
Plant Methods 16, Article number: 66.(2020)
Genome-wide Association Study of Strawberry Fruit Quality-related Traits Using a MAGIC Population Derived from Crosses Involving Six Strawberry Cultivars.
Wada, T., Tsubone, M., Mori, M., Hirata, C., Nagamatsu, S., Oku, K., Nagano, S., Isobe, S., Suzuki, H., Shimomura, K., Baba, N., Hirashima, K., Sueyoshi, T., Obu, K.-i., Ikegami, H., Uchimura, Y. and Hayashida, T.
The Horticulture Journal, DOI: 10.2503/hortj.UTD-180(2020)
QTL analysis for flowering time in carnation (Dianthus caryophyllus L.).
Yagi M, Shirasawa K, Hirakawa H, Isobe S, Matsuno J, Uno Y, Tanase K, Onozaki T, Yamaguchi H
Sci Hortic 262: 109053(2020)
Transgressive segregation and gene regions controlling thermotolerance of fruit set and pollen germination in Capsicum chinense.
Yamazaki A, Shirasawa K, Hosokawa M
Euphytica 216, 179(2020)
「品種育成」にコミットするゲノム研究とは.
藤野賢治, 白澤健太
育種学研究 22: 68-74(2020)
Detection of Chromosomal Regions for Male Sterility in the Cultivated Strawberry Fragaria ananassa Duch.
Wada, T., Sueyoshi, T., Hirata, C., Takata, K., Noguchi, Y., Kataoka, S., Isobe, S., Mori, M., Nagamatsu, S., Tanaka, Y. and Shimomura, K.
The Horticulture Journal, DOI: 10.2503/hortj.UTD-136(2020)
RNA-seq Analysis of Meristem Cells Identifies the FaFT3 Gene as a Common Floral Inducer in Japanese Cultivated Strawberry.
Koembuoy, K., Hasegawa, S., Otagaki, S., Takahashi, H., Nagano, S., Isobe, S., Shiratake, K. and Matsumoto, S.
The Horticulture Journal, doi.org/10.2503/hortj.UTD-126(2020)
QTL analysis and GWAS of agronomic traits in sweetpotato (Ipomoea batatasL.) using genome wide SNPs
Haque E., Tabuchi H., Monden Y, Suematsu K, Shirasawa K, Isobe S, Tanaka M
Breeding Science Volume 70 Issue 3(2020)
Developing Transposable Element Marker System for Molecular Breeding
R. S. Bhat , Shirasawa K. , Monden Y. ,Yamashita H.
Methods Mol Biol. 2020;2107:233-251. doi: 10.1007/978-1-0716-0235-5_11.(2020)
Analysis of the lineage of Phytophthora infestans isolates using mating type assay, traditional markers, and next generation sequencing technologies
Ramadan A Arafa , Said M Kamel , Mohamed T Rakha , Nour Elden K Soliman , Olfat M Moussa , Kenta Shirasawa
PLoS One. 2020 Jan 21;15(1):e0221604. doi: 10.1371/journal.pone.0221604. eCollection(2020)
Correction: The persimmon genome reveals clues to the evolution of a lineage-specific sex determination system in plants
Akagi T, Shirasawa K, Nagasaki H, Hirakawa H, Tao R, Comai L, Isabelle M Henry
PLoS Genet. 2020 May 26;16(5):e1008845. (2020)
Mapping of a novel clubroot resistance QTL using ddRAD-seq in Chinese cabbage (Brassica rapa L.).
Laila R, Park JI, Robin AHK, Natarajan S, Vijayakumar H, Shirasawa K, Isobe S, Kim HT, Nou IS
BMC Plant Biol. 19(1): 13. (2019)
A pure line derived from a self-compatible Chrysanthemum seticuspe mutant as a model strain in the genus Chrysanthemum.
Nakano M, Taniguchi K, Masuda Y, Kozuka T, Aruga Y, Han J, Motohara K, Nakata M, Sumitomo K, Hisamatsu T, Nakano Y, Yagi M, Hirakawa H, Isobe SN, Shirasawa K, Nagashima Y, Na H, Chen L, Liang G, Chen R, Kusaba M
Plant Sci. 287: 110174. (2019)
The genome sequence of segmental allotetraploid peanut Arachis hypogaea.
Bertioli DJ, Jenkins J, Clevenger J, Dudchenko O, Gao D, Seijo G, Leal-Bertioli SCM, Ren L, Farmer AD, Pandey MK, Samoluk SS, Abernathy B, Agarwal G, Ballén-Taborda C, Cameron C, Campbell J, Chavarro C, Chitikineni A, Chu Y, Dash S, El Baidouri M, Guo B, Huang W, Kim KD, Korani W, Lanciano S, Lui CG, Mirouze M, Moretzsohn MC, Pham M, Shin JH, Shirasawa K, Sinharoy S, Sreedasyam A, Weeks NT, Zhang X, Zheng Z, Sun Z, Froenicke L, Aiden EL, Michelmore R, Varshney RK, Holbrook CC, Cannon EKS, Scheffler BE, Grimwood J, Ozias-Akins P, Cannon SB, Jackson SA, Schmutz J
Nat Genet. 51(5): 877-884. (2019)
A reference-grade wild soybean genome
Min Xie, Claire Yik-Lok Chung, Man-Wah Li, Fuk-Ling Wong, Xin Wang, Ailin Liu, Zhili Wang, Alden KY Leung, Tin-Hang Wong, Suk-Wah Tong, Zhixia Xiao, Kejing Fan, Ming-Sin Ng, Xinpeng Qi, Linfeng Yang, Tianquan Deng, Lijuan He, Lu Chen, Aisi Fu, Qiong Ding, Junxian He, Gyuhwa Chung, Sachiko Isobe, Takanari Tanabata, Babu Valliyodan, Henry Nguyen, Steven Cannon, Christine Foyer, Ting-Fung Chan, and Hon-Ming Lam
Nat Commun. 10(1): 1216. (2019)
De novo whole-genome assembly in Chrysanthemum seticuspe, a model species of Chrysanthemums, and its application to genetic and gene discovery analysis.
Hirakawa H, Sumitomo K, Hisamatsu T, Nagano S, Shirasawa K, Higuchi Y, KusabaM, Koshioka M, Nakano Y, Yagi M, Yamaguchi H, Taniguchi K, Nakano M, Isobe SN.
DNA Res. 26(3): 195-203. (2019)
Genome-Wide Association Studies (GWAS) for Yield and Weevil Resistance in Sweet potato (Ipomoea batatas (L.) Lam).
Okada Y, Monden Y, Nokihara K, Shirasawa K, Isobe S, Tahara M
Plant Cell Rep. 38(11): 1383-1392. (2019)
Current status in whole genome sequencing and analysis of Ipomoea spp.
Isobe S, Shirasawa K, Hirakawa H
Plant Cell Rep.38(11): 1365-1371. (2019)
Genome-wide association study overcomes the genome complexity in autohexaploid chrysanthemum and tags SNP markers onto the flower color genes.
Sumitomo K, Shirasawa K, Isobe S, Hirakawa H, Hisamatsu T, Nakano Y, Yagi M, Ohmiya A
Sci Rep. 9(1): 13947. (2019)
Development of molecular markers associated with resistance to Meloidogyne incognita by performing quantitative trait locus analysis and genome-wide association study in sweetpotato.
Sasai R, Tabuchi H, Shirasawa K, Kishimoto K, Sato S, Okada Y, Kuramoto A, Kobayashi A, Isobe S, Tahara M, Monden Y
DNA Res. 26(5): 399-409. (2019)
Phased genome sequence of an interspecific hybrid flowering cherry, Somei-Yoshino (Cerasus-yedoensis).
Shirasawa K, Esumi T, Hirakawa H, Tanaka H, Itai A, Ghelfi A, Nagasaki H, Isobe S
DNA Res.26(5): 379-389. (2019)
Construction of genetic linkage map and identification of a novel major locus for resistance to pine wood nematode in Japanese black pine (Pinus thunbergii).
Hirao T, Matsunaga K, Hirakawa H, Shirasawa K, Isoda K, Mishima K, Tamura M, Watanabe A
BMC Plant Biol. 19(1): 424. (2019)
Foliar disease resistant and productive mutants from the introgression lines of peanut (Arachis hypogaea).
Pushpesh Joshi, Mangesh P. Jadhav, Kenta Shirasawa, Arati Yadawad, Ramesh S. Bhat
PLANT BREEDING. 139(1): 148-155. (2019)
Hayai-Annotation Plants: an ultra-fast and comprehensive functional gene annotation system in plants.
Ghelfi A, Shirasawa K, Hirakawa H, Isobe S
Bioinformatics. 35(21): 4427-4429. (2019)
Evaluation of a new recombinant inbred line mapping population for genetic mapping in groundnut (Arachis hypogaea L.).
Sukruth M, Shirasawa K, Bhat R
Int J Curr Mocrobiol App Sci 8: 2956-2965. (2019)
Impact of Genomics on Capsicum breeding.
Shirasawa K, Ban T, Nagata N, Murakana T
The Capsicum Genome Springer: 209-219. (2019)
Development of DNA marker for distinguishing flesh colour in sweet cherry (Prunus avium L.).
Saito Y, Adachi E, Isuzugawa K, Shirasawa K, Ikenaga M, Sato H
Acta Horticulturae 1235 15-25. (2019)
Development of DNA markers for breeding yellow cherries.
Sato S, Saito Y, Shirasawa K, Ikeda K
Acta Horticulturae 1235 27-32. (2019)
Genomic diversity in old and recent carrot cultivars and breeding populations at a Japanese seed company.
Shibaya T, Kuroda C, Fujii T, Nakayama S, Minami C, Shirasawa K, Isobe S
Acta Horticulturae 1264 249-254. (2019)
QTL analysis and candidate gene SNP for harvest day in sweet cherry (Prunus avium L.).
Isuzugawa K, Shirasawa K, Kurosaka S, Takahashi Y, Saito Y, Adachi E, Ikenaga M, Yamamoto T
Acta Horticulturae 1235 33-40. (2019)
The persimmon genome reveals clues to the evolution of a lineage-specific sex determination system in plants.
Akagi T, Shirasawa K, Nagasaki H, Hirakawa H, Tao R, Comai L, Henry IM
doi: https://doi.org/10.1101/628537
SNP判別PCRによる落花生ahFAD2B遺伝子の変異の判別
渡辺学、桑田主悦、白澤健太、磯部祥子、深見正信
DNA多型 26(1): 77-80. (2019)
アグリゲノム産業研究会-アカデミアと産業会の交流を目指して-
磯部祥子・岩田洋佳・布目司
バイオサイエンスとインダストリー 77(1): 78-80. (2019)
イチゴのDNA分析からわかること
磯部祥子
自費出版書籍. (2019)
倍数性作物におけるNGS利用
田中剛、磯部祥子、門田有希、石川吾郎、瀬々潤
育種学研究 21(1): 55-60. (2019)
Development of AhMITE1 markers through genome-wide analysis in peanut (Arachis hypogaea L.)
Mani, G., Shirasawa, K., Varshney, R.K., Pandey, M.K., and Bhat, R.S. 2018
BMC Res. Notes, 11:10
Characterization of Egyptian Phytophthora infestans population using simple sequence repeat markers
Arafa, R.A., Soliman, N.E.K., Moussa, O.M., Kamel, S.M., and Shirasawa, K. 2018
J. Gen. Plant Pathol., Volume 84, Issue 2, pp 104–107
A 3D Shape-Measuring System for Assessing Strawberry Fruits
Kochi, N., Tanabata, T., Hayashi, A., Isobe, S. 2018
International J of Automation Technology, 12(3) pp 395-404
Genome-wide structural mutations among the lines resulting from genetic instability in peanut (Arachis hypogaea L.)
Hake, A.A., Shirasawa, K., Yadawad, A., Nadaf, H.L., Gowda, M.V.C., and Bhat, R.S. 2018
Plant Gene, 13, 1-7.
Derivation of Linear Models for Quantitative Traits by Bayesian Estimation with Gibbs Sampling.
Nakaya, A., Isobe, S. 2017
In: Varshney R., Roorkiwal M., Sorrells M. (eds) Genomic Selection for Crop Improvement. Springer, pp 23-53
Rapid identification of candidate genes for resistance to tomato late blight disease using next-generation sequencing technologies
Arafa, R.A., Rakha, M.T., Soliman, N.E.K., Moussa, O.M., Kamel, S.M., and Shirasawa, K. 2017
Plos One, 12, e0189951.
Identification of transposable element markers associated with yield and quality traits from an association panel of independent mutants in peanut (Arachis hypogaea L.)
Hake, A.A., Shirasawa, K., Yadawad, A., et al. 2017
Euphytica, 213, 283.
Marker-assisted backcrossing to develop foliar disease-resistant genotypes in TMV 2 variety of peanut (Arachis hypogaea L.)
Kolekar, R.M., Sukruth, M., Shirasawa, K., et al. 2017
Plant Breed., Volume 136, Issue 6, pages 948–953
Sequence analysis of cultivated strawberry (Fragaria × ananassa Duch.)using microdissected single somatic chromosomes
Yanagi, T., Shirasawa, K., Terachi, M., and Isobe, S. 2017
Plant Methods, 13, 91.
Mapping of important taxonomic and productivity traits using genic and non-genic transposable element markers in peanut (Arachis hypogaea L.)
Hake, A.A., Shirasawa, K., Yadawad, A., et al. 2017
Plos One, 12, e0186113.
Climate clever clovers: new paradigm to reduce the environmental footprint of ruminants by breeding low methanogenic forages utilising haplotype variation
Kaur, P., Appels, R., Bayer, P. E., Keeble-Gagnere, G., Wang, J., Hideki, H., Shirasawa, K., Vercoe, P., Stefanova, K., Durmic, Z., Nichols, P., Revell, C., Isobe, S. N., Edwards, D., Erskine, W. 2017
Front. Plant Sci., 8, 1463.
Resistance to Phytophthora infestans in tomato wild relatives
Arafa, R.A., Moussa, O.M., Soliman, N.E.K., Shirasawa, K., Kamel, S.M., and Rakha, M.T. 2017
Afr. J. Agric. Res., 12, 2188-2196.
Discrimination of candidate subgenome-specific loci by linkage map construction with an S1 population of octoploid strawberry (Fragaria × ananassa)
Nagano, S., Shirasawa, K., Hirakawa, H., Maeda, F., Ishikawa, M., and Isobe, S.N. 2017
BMC Genomics, 18, 374.
Bayesian QTL mapping using genome-wide SSR markers and segregating population derived from a cross of two commercial F1 hybrids of tomato
Ohyama, A., Shirasawa, K., Matsunaga, H., et al. 2017
Theor. Appl. Genet., 130, 1601-1616.
The genome sequence of sweet cherry (Prunus avium) for use in genomics-assisted breeding
Shirasawa, K., Isuzugawa, K., Ikenaga, M., et al. 2017
DNA Res., 24, 499-508.
A system for distinguishing octoploid strawberry cultivars using high-throughput SNP genotyping
Jung, H.J., Veerappan, K., Natarajan, S., Jeong, N., Hwang, I., Nagano, S., Shirasawa, K., Isobe, S., Nou, I.S. 2017
Trop. Plant Biol., 10, 68-76.
A high-density SNP genetic map consisting of a complete set of homologous groups in autohexaploid sweetpotato (Ipomoea batatas)
Shirasawa, K., Tanaka, M., Takahata, Y., et al. 2017
Sci. Rep., 7, 44207.
Identification of RAN1 orthologue associated with sex determination through whole genome sequencing analysis in fig (Ficus carica L.)
Mori, K., Shirasawa, K., Nogata, H., et al. 2017
Sci. Rep., 7, 41124.
Construction of an SSR and RAD marker-based genetic linkage map for carnation (Dianthus caryophyllus L.)
Yagi, M., Shirasawa, K., Waki, T., et al. 2017
Plant Mol. Biol. Rep., 35, 110.
Challenges to genome sequence dissection in sweetpotato
Isobe, S., Shirasawa, K., and Hirakawa, H. 2017
Breed. Sci., 67, 35-40.
Genetic maps and whole genome sequences of radish.
Shirasawa, K. and Kitashiba, H. 2017
In: Nishio, T. and Kitashiba, H. (eds) Compendium of Plant Genomes The Radish Genome, Springer, Cham, pp. 31-42.
Crop genome research toward genomics-assisted breeding
Shirasawa, K. 2017
Agric. Biotechnol., 1, 76-82.
Development and characterization of a strawberry MAGIC population derived from crosses with six strawberry cultivars.
Wada, T., Oku, K., Nagano, S., Isobe, S. Suzuki, H., Mori, M., Takata, K. Hirata, C., Shimomura, K., Tsubone, M. et al. 2017
Breed Sci, 67(4):370-381
Verification of linkage group using PRINS labeling technique in cultivated strawberry.
Tantivit, K, Isobe, S, Nathewet, P, Okuda, N, Yanagi T. 2017
Acta Horticulturae 1156: VIII International Strawberry Symposium, 10.17660/ActaHortic.2017.1156.22
Effect of insect pollinator on inbreeding versus outbreeding in open pollinated strawberry seeds.
Yanagi, T., Miura, H., Isobe, S., Okuda, N., Yoshida, Y. 2017
Scientia Horticulturae 215 (27):112-116.
Altered regulation of TERMINAL FLOWER 1 causes the unique vernalisation response in an arctic woodland strawberry accession.
Koskela E. A., Kurokura, T., Toivainen, T., Sønsteby, A., Heide, O. M., Sargent, D. J., Isobe S., Jaakola, L., Hilmarsson, H., Elomaa P., Hytönen, T.
New Phytologist DOI: 10.1111/nph.14734
Development of Genome-wide SSR Markers in Horsegram and Their Utilization for Genetic Diversity and Cross-transferability Analysis.
Kaldate, R., Maneet, R., Sharma, R., Hirakawa, H., Kumar, R., Singh, G., Chahota, R. K., Isobe, S. N., Sharma, T., R.
Mol Beed 31:103 (2017)
Development of a Core Collection of Strawberry Cultivars Based on SSR and CAPS Marker Polymorphisms.
Wada, T., Noguchi, Y., Isobe, S., Kunihisa, M., Sueyoshi, T., Shimomura, K. 2017
The Horticulture Journal doi: 10.2503/hortj.MI-142
When the 3rd generation sequencing technologies go marching in.
Isobe, S., Koyanagi, R., Osaki, K. 2017
Ikuysyugakukenkyu, (in Japanese), 19:30-34
2016
Construction of a high-resolution digital map to support citrus breeding using an autonomous multicopter.
Haris, M., Ishii, K., Ziyang, L., Sugiura, T., Qi, M., Watanabe, T., Sukisaki S., Tanabata, T., Isobe, S., Shimizu, T., Yoshioka, T., Nobuhara, H. 2016
ISHS Acta Horticulturae 1135: III International Symposium on Citrus Biotechnology 10.17660/ActaHortic.2016.1135.9
Current SNP genotyping methods for genetics and molecular breeding.
Isobe, S., Kaga, A., Teuzuka, A., Ishikawa, G., Nakamura, T. 2016
Ikuysyugakukenkyu, (in Japanese), 18:21-26
Target amplicon sequencing for genotyping genome-wide single nucleotide polymorphisms identified by whole genome resequencing in peanut
Shirasawa, K., Kuwata, C., Watanabe, M., Fukami, M., Hirakawa, and H., Isobe, S. 2016
Plant Genome, 9, 10.3835/plantgenome2016.06.0052.
The development of a primed in-situ hybridization technique for chromosome labeling in cultivated strawberry (Fragaria × ananassa).
Tantvit, K., Isobe, S., Nathewet, P., Okuda, N., Yanagi, T. 2016
Cytologia 81(4): 439–446
Draft genome sequence of subterranean clover, a reference for genus Trifolium
Hirakawa, H., Kaur, P., Shirasawa, K., Nichols, P., Nagano, S., Appels, R., Erskine, W., Isobe, S.N. 2016
Sci. Rep., 6, 30358.
QTL mapping for late leaf spot and rust resistance using an improved genetic map and extensive phenotypic data on a recombinant inbred line population in peanut (Arachis hypogaea L.)
Kolekar, R.M., Sujay, V., Shirasawa, K., et al. 2016
Euphytica, 209, 147-156.
Larg-scale development of simple sequence repeat (SSR) marker using RNA-seq and SSR-enrichment library for Chinese chive (Allium ramosum syn. A. fuberosum).
Tasaki, K., Wakamasu, M., Namai, K., Hirakawa, H., Sasamoto, S., Tsuruoka, H., Minami, C., Isobe, S. 2016
I. DNA polymorphism 24(1):127-133 in Japanese.
Analytical workflow of double-digest restriction site-associated DNA sequencing based on empirical and in silico optimization in tomato
Shirasawa, K., Hirakawa, H., and Isobe, S. 2016
DNA Res., 23, 145-153.
The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut
Bertioli, D.J., Cannon, S.B., Froenicke, L., Huang, G., Farmer, A.D., Cannon, E.K.S., Liu, X., Gao, D., Clevenger, J., Dash, S., Ren, L., Moretzsohn, M.C., Shirasawa, K., Huang, W., Vidigal, B., Abernathy, B., Chu, Y., Niederhuth, C.E., Umale, P., Araujo, A.C.G., Kozik, A., Kim, K.D., Burow, M.D., Varshney, R.K., Wang, X., Zhang, X., Barkley, N., Guimarães, P.M., Isobe, S., Guo, B., Liao, B., Stalker, H.T., Schmitz, R.J., Scheffler, B.E., Leal-Bertioli, S.C.M., Xun, X., Jackson, S.A., Michelmore, R.,
Nat. Genet., 48, 438-446.
A simulation-based breeding design that uses whole-genome prediction in tomato
Yamamoto, E., Matsunaga, H., Onogi, A., et al. 2016
Sci. Rep., 6, 19454.
Genome-wide survey of artificial mutations induced by ethyl methanesulfonate and gamma rays in tomato
Shirasawa, K., Hirakawa, H., Nunome, T., Tabata, S., and Isobe, S. 2016
Plant Biotechnol. J., 14, 51-60.
Genomics research and development of genome-based breeding technologies in vegetable crops
Shirasawa, K. 2016
Breed. Res., 18, 124-129.
2015
Leal-Bertioli, S.C.M., Cavalcante, U., Gouvea, E.G., et al. 2015
G3, 5, 1403-1413.
Survey of genome sequences in a wild sweet potato, Ipomoea trifida (H. B. K.) G. Don
Hirakawa, H., Okada, Y., Tabuchi, H., et al. 2015
DNA Res., 22, 171-179.
Tetrasomic recombination is surprisingly frequent in allotetraploid Arachis
Leal-Bertioli, S.C.M., Shirasawa, K., Abernathy, B., et al. 2015
Genetics, 199, 1093-1105.
A reference genetic linkage map of apomictic Hieracium species based on expressed markers derived from developing ovule transcripts
Shirasawa, K., Hand, M.L., Henderson, S.T., et al. 2015
Ann. Bot., 115, 567-580.
Development of F1-hybrid Strawberry of Seed Propagation Type Named ‘Yotsuboshi’
Mori, T., Kohori, J., Kitamura, H., Inokuchi, T., Kato, I., Sone, K., Ishikawa, M., Maeda, F., Fukami, M., Isobe, S., Sato S. 2015
Hort. Res. (in Japanese) 14 (4)：409–418．
A Novel Phenolic Compound, Chloroxynil, Improves Agrobacterium-Mediated Transient Transformation in Lotus japonicas
Kimura, M., Cutler, S., Isobe, S., 2015
PLOS ONE 10.1371/journal.pone.0131626.
Draft genome sequence of eggplant (Solanum melongena L.): the representative Solanum species indigenous to the Old World
Hirakawa, H., Shirasawa, K., Miyakate, K., et al. 2014
DNA Res., 21, 649-660.
Development of EST-SSR markers and construction of a linkage map in faba bean (Vicia faba)
El-Rodeny, W., Kimura, M., Hirakawa, H., et al. 2014
Breed. Sci., 64, 252-263.
Identification of the carotenoid modifying gene PALE YELLOW PETAL 1 as an essential factor in xanthophyll esterification and yellow flower pigmentation in tomato (Solanum lycopersicum)
Ariizumi, T., Kishimoto, S., Kakami, R., Maoka, T., Hirakawa, H., Suzuki, Y., Ozeki, Y., Shirasawa, K., Bernillon, S., Okabe, Y., Moing, A., Asamizu, E., Rothan, C., Ohmiya, A., Ezura, H. 2014
Plant J., 79, 453-465.
Kazusa Marker DataBase: a database for genomics, genetics, and molecular breeding in plants
Shirasawa, K., Isobe, S., Tabata, S., and Hirakawa, H. 2014
Breed. Sci., 64, 264-271.
Genome-wide comparative analysis of 20 miniature inverted-repeat transposable element families in Brassica rapa and B. oleracea
Sampath, P., Murukarthick, J., Izzah, N.K., Lee, J., Choi, H. I., Shirasawa, K., Choi, B.S., Liu, S., Nou, I. S. Yang, T.J. 2014
Plos One, 9, e94499.
Draft sequences of the radish (Raphanus sativus L.) genome
Kitashiba, H., Li, F., Hirakawa, H., et al. 2014
DNA Res., 21, 481-490.
Transcriptome-based single nucleotide polymorphism markers for genome mapping in Japanese pear (Pyrus pyrifolia Nakai)
Terakami, S., Nishitani, C., Kunihisa, M., Shirasawa, K., Sato, S., Tabata, S., Kurita, K., Kanamori, H., Katayose, Y., Takada, N., Saito, T., Yamamoto, T. 2014
Tree Genet. Genomics, 10, 853-863.
Regulatory change in cell division activity and genetic mapping of a tomato (Solanum lycopersicum L.) elongated-fruit mutant
Chusreeaeom, K., Ariizumi, T., Asamizu, E., Okabe, Y., Shirasawa, K., and Ezura, H. 2014
Plant Biotechnol., 31, 149-158.
A novel tomato mutant, Solanum lycopersicum elongated fruit1 (Slelf1), exhibits an elongated fruit shape caused by increased cell layers in the proximal region of the ovary
Chusreeaeom, K., Ariizumi, T., Asamizu, E., Okabe, Y., Shirasawa, K., and Ezura, H. 2014
Mol. Genet. Genomics, 289, 399-409.
Sequence analysis of the genome of carnation (Dianthus caryophyllus L.)
Yagi, M., Kosugi, S., Hirakawa, H., et al. 2014
DNA Res., 21, 231-241.
Dissection of the octoploid strawberry genome by deep-sequencing of Fragaria species
Hirakawa, H., Shirasawa, K., Kosugi, S., et al. 2014
DNA Res., 21, 169-181.
Development of NILs from heterogeneous inbred families for validating the rust resistance QTLs in peanut (Arachis hypogaea L.)
Yeri, S.B., Shirasawa, K., Pandey, M.K., et al. 2014
Plant Breed., 133, 80-85.
An Overview of Peanut Genome Structure.
Bertioli, D.J., Araujo, A.C.G., Nielen, S., Heslop-Harrison, P., Guimarães P.M., Schwarzacher, T., Isobe, S., Shirasawa, K. Leal-Bertioli, S.C.M. 2014
In: Mallikarjuna, N. and Varshney, R.K. (eds) Genetics, Genomics and Breeding of Peanuts, CRC Press, Florida, pp. 114-138.
Breeding of red clover ‘Ryokuyu’ and its charcteristics.
Okumura, K., Isobe, S., Gau, M., Yamaguchi, H., Sawai, A., Takada, H., Hiroi, K., Uchiyama, K., Matsumura, T., Hayashi, T., Sato, N., Makino, T., Deguchi, K., Yamakawa, M., Sawada, Y., Fujii, H. 2014
Res. Bull. NARO Hokkaido Agric. Res. Cent. 203:1-14.
Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing.
Qi, X., Li, M.W., Xie, M., Liu, X., Ni, M., Shao, G., Song, C., Kay-Yuen Yim, A., Tao, Y., Wong, F.L., Isobe, S., Wong, C.F., Wong, K.S., Xu, C., Li, C., Wang, Y., Guan, R., Sun, F., Fan, G., Xiao, Z., Zhou, F., Phang, T.H., Liu, X., Tong, S.W., Chan, T.F., Yiu, S.M., Tabata, S., Wang, J., Xu, X., Lam, H.M..
Nat Commun. 5:4340.
Genome-wide association studies using single nucleotide polymorphism markers developed by re-sequencing of the genomes of cultivated tomato
Shirasawa, K., Fukuoka, H., Matsunaga, H., et al. 2013
DNA Res., 20, 593-603.
Genome-wide SNP genotyping to infer the effects on gene functions in tomato
Hirakawa, H., Shirasawa, K., Ohyama, A., et al. 2013
DNA Res., 20, 221-233.
Analysis of a tomato introgression line, IL8-3, with increased Brix content
Ikeda, H., Hiraga, M., Shirasawa, K., Nishiyama, M., Kanahama, K., and Kanayama, Y. 2013
Sci. Hortic., 153, 103-108.
Integrated consensus map of cultivated peanut and wild relatives reveals structures of the A and B genomes of Arachis and divergence of the legume genomes
Shirasawa, K., Bertioli, D.J., Varshney, R.K., et al. 2013
DNA Res., 20, 173-184.
Construction of an integrated high density simple sequence repeat linkage map in cultivated strawberry (Fragaria × ananassa) and its applicability
Isobe, S.N., Hirakawa, H., Sato, S., et al. 2013
DNA Res., 20, 79-92.
Development of Capsicum EST-SSR markers for species identification and in silico mapping onto the tomato genome sequence
Shirasawa, K., Ishii, K., Kim, C., et al. 2013
Mol. Breed., 31, 101-110.
Structural analyses of the tomato genome
Sato, S., Shirasawa, K., and Tabata, S. 2013
Plant Biotechnol., 3, 257-263.
DNA marker applications to molecular genetics and genomics in tomato
Shirasawa, K. and Hirakawa, H. 2013
Breed. Sci., 63, 21-30.
Marker-assisted backcrossing selection for high O/L ratio in cultivated peanut.
Koilkonda, P., Kuwata, C., Fukami, M., Shirasawa, K., Aoki, K., Tabata, S., Hasegawa, M., Kiyoshima, H., Suzuki, S., Sasamoto, S., Kurabayashi, A., Tsuruoka, H., Wada, T., Isobe, 2013
In: Varshney, R. and Tuberosa, R. (eds) Translational Genomics for Crop Breeding: Abiotic Stress, Yield and Quality, Vol. 2. John Wiley & Sons Ltd, Chichester, pp. 177-192.
Genome-wide SNP marker development and QTL identification for genomic selection in red clover.
Isobe, S., Boller, B., Klimenko, I., et al. 2013
In: Barth, S. and Milbourne, D. (eds) Breeding Strategy for Sustainable Forage and Turf Grass Improvement, Springer, Dordrecht, pp. 29-36.
