Papers - TANAKA Hidenori
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Varietal differences in flavonoid and antioxidant activity in Japanese soybean accessions Reviewed
Hana Akari Arifin, Takuyu Hashiguchi, Kiyoko Nagahama, Masatsugu Hashiguchi, Melody Muguerza, Yoichi Sakakibara, Hidenori Tanaka, Ryo Akashi
Bioscience, Biotechnology and Biochemistry 2020.12
Authorship：Corresponding author Language：English Publishing type：Research paper (scientific journal)
DOI： 10.1093/bbb/zbaa104
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Extreme genetic signatures of local adaptation during Lotus japonicus colonization of Japan Reviewed
Shah N., Wakabayashi T., Kawamura Y., Skovbjerg C., Wang M., Mustamin Y., Isomura Y., Gupta V., Jin H., Mun T., Sandal N., Azuma F., Fukai E., Seren Ü., Kusakabe S., Kikuchi Y., Nitanda S., Kumaki T., Hashiguchi M., Tanaka H., Hayashi A., Sønderkær M., Nielsen K., Schneeberger K., Vilhjalmsson B., Akashi R., Stougaard J., Sato S., Schierup M., Andersen S.
Nature Communications 11 ( 1 ) 2020.12
Language：English Publishing type：Research paper (scientific journal) Publisher：Nature Communications
© 2020, The Author(s). Colonization of new habitats is expected to require genetic adaptations to overcome environmental challenges. Here, we use full genome re-sequencing and extensive common garden experiments to investigate demographic and selective processes associated with colonization of Japan by Lotus japonicus over the past ~20,000 years. Based on patterns of genomic variation, we infer the details of the colonization process where L. japonicus gradually spread from subtropical conditions to much colder climates in northern Japan. We identify genomic regions with extreme genetic differentiation between northern and southern subpopulations and perform population structure-corrected association mapping of phenotypic traits measured in a common garden. Comparing the results of these analyses, we find that signatures of extreme subpopulation differentiation overlap strongly with phenotype association signals for overwintering and flowering time traits. Our results provide evidence that these traits were direct targets of selection during colonization and point to associated candidate genes.
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Yamanaka A., Kirino Y., Fujimoto S., Ueda N., Himeji D., Miura M., Sudaryatma P.E., Sato Y., Tanaka H., Mekata H., Okabayashi T.
Emerging Infectious Diseases 26 ( 12 ) 2994 - 2998 2020.12
Language：English Publishing type：Research paper (scientific journal) Publisher：Emerging Infectious Diseases
© 2020 Centers for Disease Control and Prevention (CDC). All rights reserved. Two veterinary personnel in Japan were infected with severe fever with thrombocytopenia syndrome virus (SFTSV) while handling a sick cat. Whole-genome sequences of SFTSV isolated from the personnel and the cat were 100% identical. These results identified a nosocomial outbreak of SFTSV infection in an animal hospital without a tick as a vector.
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国立大学法人事務職員の職場環境満足度に関するアンケート調査報告 Reviewed
田中 秀典,小竹 成人,山本 鉱,三宅 智実
大学評価とIR ( 11 ) 2020.11
Authorship：Lead author Language：Japanese Publishing type：Research paper (scientific journal)
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Comparative analysis of seed proteome of Glycine max and Glycine soja Reviewed
Hashiguchi T., Hashiguchi M., Tanaka H., Gondo T., Akashi R.
Crop Science 60 ( 3 ) 1530 - 1540 2020.5
Language：English Publishing type：Research paper (scientific journal) Publisher：Crop Science
© 2020 The Authors. Crop Science © 2020 Crop Science Society of America Soybean, a globally important grain legume, contains large amounts of proteins, lipids, and secondary metabolites and, when ingested, has a wide array of physiological functions that may improve human health. In the development of cultivated soybean [Glycine max (L.) Merr.] with improved abiotic and biotic stress resistance, high yield, and seed quality, wild soybean (Glycine soja Siebold & Zucc.) has been an excellent source of germplasm, owing to its genetic diversity. Although genomic differences between the two species have been intensively studied, the differences in seed protein expression remain poorly understood. In the present study, we used a shotgun proteomic comparative analysis approach to further characterize the seed proteome in cultivated and wild soybean. Protamine sulfate-mediated precipitation successfully decreased the levels of two major proteins that had previously masked the detection of low-abundant proteins. We identified 65 differentially expressed proteins between the two species, with 39 proteins expressed more highly in G. soja and 26 proteins expressed more highly in G. max. Among these proteins, various stress tolerance-related proteins were found in wild soybean, perhaps reflecting its adaptation to diverse ecological conditions. Cultivated soybean expressed high levels of sucrose and lipid biosynthesis proteins, and this was also confirmed at the transcriptional level. Bioinformatic analyses revealed that cellular and metabolic process was the functional category most frequently linked to the differentially expressed proteins. These data provide valuable information that will contribute to a better understanding of soybean seed biology and help to promote G. max breeding for improved agronomic traits using wild relatives.
DOI： 10.1002/csc2.20131
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学生アンケートの結果からみる宮崎大学の学部生の傾向—2年次生の学生生活とGPAの相関—
田中 秀典, 武方 壮一
宮崎大学教育・学生支援センター紀要 ( 4 ) 1 - 9 2020.3
Authorship：Lead author Language：Japanese Publishing type：Research paper (bulletin of university, research institution)
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Puspasari R., Hashiguchi M., Ushio R., Ishigaki G., Tanaka H., Akashi R.
Plant and Soil 446 ( 1-2 ) 613 - 625 2020.1
Language：English Publishing type：Research paper (scientific journal) Publisher：Plant and Soil
© 2019, Springer Nature Switzerland AG. Aim: “Super-Root” (SR) is a fast-growing root culture established in the legume forage species Lotus corniculatus that displays vigorous growth and high embryogenic capacity, uniquely allowing for continuous root cloning, direct somatic embryogenesis, and mass regeneration of plants under hormone-free culture conditions. This study’s primary aim was to verify the possibility of introducing the SR trait to another legume species as a means of enhancing root traits. Our previous research produced a F1-generation hybrid between the colchicine-doubled form of the diploid Lotus japonicus ‘Miyakojima’ MG-20 and SR-derived Lotus corniculatus. The current study’s focus was to evaluate the root phenotype of the F2-generation to confirm the introduction of SR characteristics to Lotus japonicus. Methods: We assessed 242 rooted F2-hybrid progeny using cluster analysis, concentrating on four morphological root traits: root fresh weight, total root length, maximum root length, and root diameter. Principal Component Analysis (PCA) was used to determine the correlations among eight traits of the F2-progeny of the WinRhizo root morphological measurement data and to identify what traits contributed most to their root variation. Results: The 242-hybrid progeny and both parents were grouped into eight different clusters using a similarity phenogram. One cluster consisted of lines 36, 82, 86 and 184 that considerably exceeded the RFW, TRL, and MRL values of the L. japonicus and SR parents. Conclusion: The results confirmed the introduction of SR traits to the F2-hybrid progeny and identified potential candidates for breeding and gene isolation that will be conducted to expand the scope of this research.
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Nitthaisong P., Ishigaki G., Suenaga K., Muguerza M., Tanaka H., Akashi R.,
Crop Science 59 ( 4 ) 1648 - 1656 2019.7
Language：English Publishing type：Research paper (scientific journal) Publisher：Crop Science
© 2019 The Author(s). Urochloa species are a rich source of quality forage in the tropical and subtropical areas, and cultivated species are predominantly facultative apomictic. They are well adapted to poor soil conditions, resistant to heavy grazing, and drought tolerant, but some Urochloa species produce poor pasture and seed yield. Therefore, it is important to complement and to combine characteristics of different species in breeding programs. We have conducted interspecific crosses between diploid U. ruziziensis (R. Germ. & C. M. Evrard) Crins ‘Kennedy’ (2n = 2x = 18) with apomictic tetraploids U. decumbens (Stapf) R. D. Webster ‘Basilisk’ (2n = 4x = 36) and U. brizantha (Hochst. ex A. Rich.) R. D. Webster ‘Marandu’ (2n = 4x = 36). Diploid, triploid, and tetraploid plants were obtained from these crosses. The triploid plants were further crossed with ‘Basilisk’ to produce a BC1F1 generation. Although no seeds were produced by self-pollination of the F1 triploid hybrids, backcrossing eventually produced triploid, tetraploid, and pentaploid plants (BC1F1). Only the pentaploid plants produced seeds by self-pollination. This is the first report of the production of apomictic pentaploid progenies from interspecific crosses in Urochloa.
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学生アンケートの結果からみる宮崎大学の学部生の傾向-ポリシーの周知度と身につけた資質・能力の相関-
田中 秀典, 武方 壮一
宮崎大学教育・学生支援センター紀要 ( 3 ) 1 - 6 2019.3
Authorship：Lead author Language：Japanese Publishing type：Research paper (bulletin of university, research institution)
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Turf quality trait and genetic fingerprinting of a new zoysiagrass cultivar in Japan Reviewed
Pattamavadee Kunwanlee, Hidenori Tanaka, Takayasu Inoue, Masatsugu Hashiguchi, Melody Muguerza, Ryo Akashi
Journal of Japanese Society of Turfgrass Science 47 ( 1 ) 15 - 24 2018.10
Authorship：Lead author Language：English Publishing type：Research paper (scientific journal)
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Lotus japonicus genetic, mutant, and germplasm resources Reviewed
Hashiguchi M., Tanaka H., Muguerza M., Akashi R., Sandal N., Andersen S., Sato S.
Current protocols in plant biology 3 ( 2 ) e20070 2018.6
Language：English Publishing type：Research paper (scientific journal) Publisher：Current protocols in plant biology
Copyright © 2018 John Wiley & Sons, Inc. A quarter of a century has passed since Lotus japonicus was proposed as a model legume because of its suitability for molecular genetic studies. Since then, a comprehensive set of genetic resources and tools has been developed, including recombinant inbred lines, a collection of wild accessions, published mutant lines, a large collection of mutant lines tagged with LORE1 insertions, cDNA clones with expressed sequence tag (EST) information, genomic clones with end-sequence information, and a reference genome sequence. Resource centers in Japan and Denmark ensure easy access to data and materials, and the resources have greatly facilitated L. japonicus research, thereby contributing to the molecular understanding of characteristic legume features such as endosymbiosis. Here, we provide detailed instructions for L. japonicus cultivation and describe how to order materials and access data using the resource center websites. The comprehensive overview presented here will make L. japonicus more easily accessible as a model system, especially for research groups new to L. japonicus research. © 2018 by John Wiley & Sons, Inc.
DOI： 10.1002/cppb.20070
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Molecular epidemiological survey and phylogenetic analysis of bovine influenza D virus in Japan Reviewed
Mekata H., Yamamoto M., Hamabe S., Tanaka H., Omatsu T., Mizutani T., Hause B.M., Okabayashi T.
Transboundary and Emerging Diseases 65 ( 2 ) e355 - e360 2018.4
Language：English Publishing type：Research paper (scientific journal) Publisher：Transboundary and Emerging Diseases
© 2017 Blackwell Verlag GmbH The influenza D virus, a new member of the Orthomyxoviridae family, is predominantly found in cattle. Although viral pathology and clinical disease in cattle appear mild, this virus plays an important role as a trigger of bovine respiratory disease (BRD). BRD is a costly illness worldwide. Thus, epidemiological surveys of the influenza D virus are necessary. Here, we conducted a molecular epidemiological survey for the influenza D virus in healthy and respiratory-diseased cattle in Japan. We found that 2.1% (8/377) of the cattle were infected with influenza D. The cattle with and without respiratory symptoms had approximately equal amounts of the virus. A full-genome sequence analysis revealed that the influenza D virus that was isolated in Japan formed an individual cluster that was distinct from the strains found in other countries. These results suggest that this virus might have evolved uniquely in Japan over a long period of time and that the viral pathology of Japanese strains might be different from the strains found in other countries. Continuous surveillance is required to determine the importance of this virus and to characterize its evolution.
DOI： 10.1111/tbed.12765
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田中 秀典, 武方 壮一
宮崎大学教育・学生支援センター紀要 2 1 - 9 2018.3
Authorship：Lead author Language：Japanese Publishing type：Research paper (bulletin of university, research institution)
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Kunwanlee P., Tanaka H., Hashiguchi M., Gondo T., Muguerza M., Inoue T., Akashi R.
Crop Science 57 ( 6 ) 3310 - 3318 2017.11
Language：English Publishing type：Research paper (scientific journal) Publisher：Crop Science
© Crop Science Society of America. Zoysia matrella (L.) Merr. is a homoploid turfgrass that possesses intermediate traits between Z. japonica Steudel and Z. pacifica (Goudswaard) M. Hotta and Kuroki [syn. Z. matrella (L.) Merr. var. pacifica Goudswaard]. Consequently, it contributes to the growing range of variation that exists within this species. Self-pollination reduces genetic load and can express genetic variance, enabling easy identification and selection for desired traits. The aim of this study was to evaluate the effects of self-pollination of Z. matrella ‘Wakaba’ on morphological traits, genetic structure, and the possible selection of lines with superior traits in S 1 progeny. Nine morphological characteristics (plant height, leaf width and length, stolon diameter and internode length, inflorescence number, ground covering, normalized difference vegetation index, and leaf color) were evaluated in the 364 S 1 progeny. We have obtained S 1 progeny exhibiting wide variation in morphological characteristics and moderate inbreeding depression in almost all traits after self-pollination. To infer genetic structure, a total of 26 simple sequence repeat markers were used, and Bayesian-based structure analysis grouped the progeny into three clusters. Genetic markers revealed that the level of homozygosity increased in S 1 progeny caused by inbreeding. Superior progeny that exhibited high ground covering, late winter dormancy, and stay green throughout the entire winter season were selected. Self-pollination can be used for the selection of desirable traits from highly heterozygous species such as Z. matrella. Moreover, we expect that these superior progeny could be used in further study on quantitative trait loci analysis.
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Hashiguchi M., Puspasari R., Suematsu Y., Muguerza M., Tanaka H., Suzuki A., Hoffmann F., Akashi R.
Crop Science 57 ( 5 ) 2387 - 2394 2017.7
Language：English Publishing type：Research paper (scientific journal) Publisher：Crop Science
© Crop Science Society of America. Super-roots (SR), a unique in vitro cloning system of fast and continuously growing roots, has been isolated from self-incompatible Lotus corniculatus L. The objective of this research was to develop self-fertile SR plants by hybridizing SR forms of tetraploid L. corniculatus (2n = 4x = 24) with cholchicine-doubled forms of the diploid, self-fertile L. japonicus (Regel) K. Larsen (2n = 2x = 12) species. Tetraploid forms of L. japonicus ‘Miyakojima’ MG-20 (MG-20) were induced by treating seeds with 0, 0.05, 0.1, and 0.2% (w/v) colchicine solutions for 12 or 24 h. The rate of tetraploidization as determined by flow cytometry was most efficient at the lowest colchicine concentration for both treatment durations. Induced tetraploids of MG-20 had thicker stems with larger flowers and leaves compared with diploid forms of MG-20. Seeds produced by tetraploid MG-20 were also larger than those of the diploids; however, pod lengths and grain numbers were reduced. Two putative F 1 –interspecific hybrid plants were recovered, using embryo rescue, from hand-pollinated crosses between tetraploid forms of MG-20 and SR. The F 1 –interspecific hybrids displayed morphological features that were intermediate between the parental species. The root-growth rate of hybrid-derived root cultures was slightly reduced compared with the original SR. The hybrid plants are self-compatible and able to produce seeds. The interspecific hybrids obtained in this study demonstrate the potential to combine self-fertility and SR traits in Lotus forage breeding programs.
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Interlaboratory validation data on real-time polymerase chain reaction detection for unauthorized genetically modified papaya line PRSV-YK Reviewed
Nakamura K, Kondo K, Akiyama H, Ishigaki T, Noguchi A, Katsumata H, Takasaki K, Futo S, Sakata K, Fukuda N, Mano J, Kitta K, Tanaka H, Akashi R, Nishimaki-Mogami T
Data in Brief 7 1165 - 1170 2016.6
Language：English Publishing type：Research paper (scientific journal)
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Determination of genome size, chromosome number, and genetic variation using inter-simple sequence repeat markers in Lotus spp. Reviewed
Tanaka H, Chotekajorn A, Kai S, Ishigaki G, Hashiguchi M, Akashi R
Cytologia 81 ( 1 ) 95 - 102 2016.4
Authorship：Lead author Language：English Publishing type：Research paper (scientific journal)
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The complete chloroplast genome sequence of Zoysia matrella (L.) Merr. Reviewed
Tanaka H, Hirakawa H, Muguerza M, Hashiguchi M, Tabata S, Akashi R, Sato S
Crop Science 56 ( 3 ) 1206 - 1212 2016.3
Authorship：Lead author Language：English Publishing type：Research paper (scientific journal)
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Sequencing and comparative analyses of the genomes of zoysiagrasses Reviewed
Tanaka H, Hirakawa H, Kosugi S, Nakayama S, Ono A, Watanabe A, Hashiguchi M, Gondo T, Ishigaki G, Muguerza M, Shimizu K, Sawamura N, Inoue T, Shigeki Y, Ohno N, Tabata S, Akashi R, Sato S
DNA Research 23 ( 2 ) 171 - 180 2016.3
Authorship：Lead author Language：English Publishing type：Research paper (scientific journal)
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Whole genome sequence analysis of unidentified genetically modified papaya for development of a specific detection method Reviewed
Nakamura K, Kondo K, Akiyama H, Ishigaki T, Noguchi A, Katsumata H, Takasaki K, Futo S, Sakata K, Fukuda N, Mano J, Kitta K, Tanaka H, Akashi R, Nishimaki-Mogami T
Food Chemistry 205 272 - 279 2016.3
Language：English Publishing type：Research paper (scientific journal)