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Affiliation |
Faculty of Agriculture Department of Animal and Grassland Sciences |
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TANAKA Hidenori
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Degree 【 display / non-display 】
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Doctor (Agriculture) ( 2006.3 Kagoshima University )
Research Interests 【 display / non-display 】
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Plant Genetic Resources and Breedings
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Institutional Research
Research Areas 【 display / non-display 】
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Environmental Science/Agriculture Science / Science in plant genetics and breeding
Papers 【 display / non-display 】
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Li F., Sayama T., Yokota Y., Hiraga S., Hashiguchi M., Tanaka H., Akashi R., Ishimoto M.
DNA Research 31 ( 2 ) 2024.4
Publishing type：Research paper (scientific journal) Publisher：DNA Research
Wild soybean (Glycine soja), the ancestor of the cultivated soybean (G. max), is a crucial resource for capturing the genetic diversity of soybean species. In this study, we used a set of 78 genome-wide microsatellite markers to analyse the genetic diversity and geographic differentiation patterns in a global collection of 2,050 G. soja accessions and a mini-core collection of G. max stored in two public seed banks. We observed a notable reduction in the genetic diversity of G. max compared with G. soja and identified a close phylogenetic relationship between G. max and a G. soja subpopulation located in central China. Furthermore, we revealed substantial genetic divergence between northern and southern subpopulations, accompanied by diminished genetic diversity in the northern subpopulations. Two clusters were discovered among the accessions from north-eastern China-one genetically close to those from South Korea and Southern Japan, and another close to those from Amur Oblast, Russia. Finally, 192 accessions were assigned to a mini-core collection of G. soja, retaining 73.8% of the alleles detected in the entire collection. This mini-core collection is accessible to those who need it, facilitating efficient evaluation and utilization of G. soja genetic resources in soybean breeding initiatives.
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Ng H.M., Gondo T., Tanaka H., Akashi R.
Plant Cell Reports 43 ( 2 ) 2024.2
Language：English Publishing type：Research paper (scientific journal) Publisher：Plant Cell Reports
Key Message: Genome editing by CRISPR/Cas9 can be applied to Z. matrella ‘Wakaba’, and knockout mutants of ZmNYC1 gene exhibited stay-green phenotype and reduced tillering. Abstract: Zoysia matrella is a widely used C4 warm-season turfgrass for landscaping, golf courses, and sports fields. Here, we used the CRISPR/Cas9 system to target the Non-Yellow Coloring1 (ZmNYC1) gene in the highly heterozygous allotetraploid Z. matrella ‘Wakaba’, aiming to generate a novel stay-green variety. Of 441 Agrobacterium-infected calli, 22 (5.0%) were transformed, and 14 of these (63.6%) showed targeted mutations through cleaved amplified polymorphic sequences analysis. Sequencing analysis revealed mutations mostly consisting of 1 or 2 bp indels, occurring 2 to 4 bp upstream of the PAM sequence. Regenerated plants exhibited five ZmNYC1 target locus genotypes, including homozygous mutants with a complete knockout of all four alleles in the T0 generation. Under dark treatment, ZmNYC1-mutated plants displayed suppressed chlorophyll b (Chl b) degradation, leading to higher chlorophyll content and Chl b, with a lower chlorophyll a/chlorophyll b ratio compared to the wild type (WT). However, the ZmNYC1 mutation also inhibited plant growth in homozygous mutant genotypes, exhibiting reduced tillering compared to WT. Additionally, during winter simulation, mutant with a complete knockout retained greenness longer than the WT. This is the first successful use of CRISPR/Cas9 genome editing in zoysiagrass. The mutants of the ZmNYC1 gene would serve as valuable breeding material for developing improved zoysiagrass varieties that can maintain their green color for longer periods, even during winter dormancy.
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Bungsrisawat P., Tumwasorn S., Loongyai W., Nakthong S., Nitthaisong P., Tanaka H., Akashi R., Sopannarath P.
Animal Science Journal 95 ( 1 ) 2024.1
Publishing type：Research paper (scientific journal) Publisher：Animal Science Journal
Betong chicken (KU line) is a slow-growing Thai native chicken used for meat production. The objectives of this study were to identify polymorphisms of the calpain1 (CAPN1) and calpain3 (CAPN3) genes and to investigate their effects on growth, carcass, and meat quality traits in Betong chickens (KU line). A sample of 252 Betong chickens (KU line) was screened for CAPN1 and CAPN3 polymorphisms. The polymorphisms of CAPN1 were detected using gel electrophoresis and DNA sequencing, whereas the polymorphisms of CAPN3 were identified using restriction fragment length polymorphism. Polymorphisms were detected in both CAPN1 (AA, AB, and BB genotypes) and CAPN3 (CC, CT, and TT genotypes). The frequency of the B allele was higher than for the A allele (0.78 and 0.22, respectively) in CAPN1, while the C allelic frequency was higher than for the T allele (0.54 and 0.46, respectively) in CAPN3. The CAPN1 genotype and the combination of the CAPN1 and CAPN3 genotypes could be used as genetic markers for meat lightness. The CAPN3 could be useful for increasing body weight, live weight, and breast meat weight in Betong chickens (KU line).
DOI： 10.1111/asj.13986
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Ng H.M., Gondo T., Yamada T., Tanaka H., Akashi R.
Grassland Science 2024
Publishing type：Research paper (scientific journal) Publisher：Grassland Science
Bahiagrass (Paspalum notatum Flügge) is a warm-season grass where high lignin content limits its forage quality, negatively affecting animal performance. To create a new breeding method by genome editing, isolation and characterization of lignin biosynthesis genes and identification of their molecular relationships are essential. The caffeic acid O-methyltransferase (COMT) and cinnamyl alcohol dehydrogenase (CAD) cDNA clones were isolated from bahiagrass, and their protein sequences showed high similarity to other C4 monocot species through phylogenetic analysis. Gene expression analysis of phenylalanine ammonia-lyase (PAL), COMT and CAD, involved in crucial stages of lignin biosynthesis and lignin content, was conducted at different plant developmental stages. The highest gene expression levels of these genes were observed in the vegetative (V) and early reproductive stages, while the lignin content increased until the middle reproductive stage and remained constant thereafter. Additionally, to further understand the molecular relationships in lignin biosynthesis, the effect of CAD downregulation was analyzed in transgenic bahiagrass lines introduced with sorghum CAD antisense and RNAi vector obtained from a previous report. This led to a reduced lignin content and affected the expression of PAL and COMT working upstream of CAD. In the V stage, PAL expression was lower in transgenic lines compared to wild type (WT), while COMT expression showed no significant differences. However, PAL and COMT expression of transgenic lines in the middle reproductive stage (R2) was significantly higher than in the WT. These findings suggest that the downregulation of CAD gene expression affects PAL and COMT expression and induces a feedback system in the R2 stage. Lignin content influenced the phenotype of the transgenic plants with significantly reduced lignin, exhibiting a dwarf phenotype with shorter plant heights. The findings of this study can be applied to genome editing for the development of practical new breeding materials with improved digestibility in bahiagrass.
DOI： 10.1111/grs.12419
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Development of a digital phenotyping system using 3D model reconstruction for zoysiagrass Reviewed
Pongpiyapaiboon S., Tanaka H., Hashiguchi M., Hashiguchi T., Hayashi A., Tanabata T., Isobe S., Akashi R.
Plant Phenome Journal 6 ( 1 ) 2023.6
Authorship：Corresponding author Language：English Publishing type：Research paper (scientific journal) Publisher：Plant Phenome Journal
Digital phenotyping, particularly the use of plant 3D models, is a promising method for high-throughput plant evaluation. Although many recent studies on the topic have been published, further research is needed to apply it to breeding research and other related fields. In this study, using a 3D model phenotyping system we developed, we reconstructed and analyzed 20 accessions of zoysiagrass (Zoysia spp.), including three species and their hybrid, over a period of 1 year. Artificial neural network with three hidden layers was able to effectively remove nonplant parts while retaining plant parts that were incorrectly removed using the cropping method, offering a robust and flexible approach for post-processing of 3D models. The system also demonstrated its ability to accurately evaluate a range of traits, including height, area, and color using red green blue (RGB)-based vegetation indices. The results showed a high correlation between the estimated volume obtained from voxel 3D model and dry weight, enabling its use as a non-destructive method for measuring plant volume. In addition, we found that the green red normalized difference index from RGB-based indices was similar to the commonly used normalized difference vegetation index in controlled illumination conditions. These results demonstrate the potential for three-dimensional model phenotyping to facilitate plant breeding, particularly in the field of turfgrass and feed crops.
DOI： 10.1002/ppj2.20076
Books 【 display / non-display 】
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形質転換プロトコール《植物編》
田部井 豊 編（ Role： Joint author , セイヨウミヤコグサ）
化学同人 2012.9
Language：Japanese Book type：Scholarly book
MISC 【 display / non-display 】
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Actual Status of Research Equipment Usage Inside and Outside the University and Analysis of Research Papers Published by on-Campus Use of Research Equipment at the University of Miyazaki
SAKAI Kentaro, TANAKA Hidenori
The Journal of Science Policy and Research Management 39 ( 1 ) 26 - 34 2024.5
Language：Japanese Publishing type：Rapid communication, short report, research note, etc. (scientific journal) Publisher：Japan Society for Research Policy and Innovation Management
In order to improve research capabilities of Japan, it is necessary to strategically maintain, operate, and share research facilities and equipment based on university management strategies. In this situation, it is important to establish institutional research (IR) of research infrastructure that quantitatively analyzes and evaluates how the use of research equipment contributes to the research capabilities of universities, but this is still in the development stage. Therefore, it is necessary to improve its functions and establish a methodology. In this paper, we report the usage of research equipment inside and outside the university obtained from the equipment management system developed at the University of Miyazaki, and analyze the research fields, analysis contents, and regional characteristics of analysis request commissioned from outside the university. Moreover, we will analyze the number and quality of papers published through the use of research facilities, and describe an example of research infrastructure IR at our university, which is a local/regional university.
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田中秀典
大学時報 ( 405 ) 78 - 83 2022.7
Authorship：Lead author Language：Japanese Publishing type：Article, review, commentary, editorial, etc. (trade magazine, newspaper, online media)
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NBRPミヤコグサ・ダイズにおけるバイオリソース整備 Invited
橋口 正嗣，田中 秀典，橋口 拓勇，明石 良
農業および園芸 96 ( 2 ) 153 - 162 2021.2
Language：Japanese Publishing type：Article, review, commentary, editorial, etc. (scientific journal)
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マメ科植物研究のためのミヤコグサバイオリソース Invited Reviewed
橋口正嗣，佐藤修正，橋口拓勇，田中秀典，明石 良
植物科学の最前線（BSJ-Review） 10 179 - 189 2019.7
Language：Japanese Publishing type：Article, review, commentary, editorial, etc. (scientific journal) Publisher：日本植物学会
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ダイズ成長過程における形質・環境計測値の相互関係のネットワーク解析
七夕高也, 磯部祥子, 林篤司, 田中秀典, 橋口正嗣, 明石良, 長谷川舞衣, 菊地正隆, 中谷明弘, 佐藤修正, 七夕小百合
育種学研究 20 97 2018.3
Language：Japanese Publishing type：Research paper, summary (national, other academic conference)
Presentations 【 display / non-display 】
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Development of a small-scale imaging system for plant 3D model reconstruction using zoysiagrass International conference
Pongpiyapaiboon Sorawich, Hidenori Tanaka
11th International Conference on Agriculture 2024 (AGRICO 2024)
Event date： 2024.9.23 - 2024.9.24
Language：English Presentation type：Oral presentation (general)
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Effects of dust-coated water-retaining agent on the rooting of soybean (Glycine max) seeds under dry conditions International conference
Rikako Umino, Kanade Kawaguchi, Hidenori Tanaka, Genki Ishigaki
11th International Conference on Agriculture 2024 (AGRICO 2024)
Event date： 2024.9.23 - 2024.9.24
Language：English Presentation type：Poster presentation
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イネのデジタル3Dモデルによる計測法の開発
Sorawich Pongpiyapaiboon, 田中 秀典, 平野 翔也, 貴島 祐治, 明石 良
日本育種学会第144回講演会 2023.9.17
Event date： 2023.9.16 - 2023.9.18
Presentation type：Oral presentation (general)
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デジタル3Dモデルを用いた同一イネ品種の2倍体と4倍体成長パターンの比較
平野 翔也, Sorawich Pongpiyapaiboon, 笹川 静香, 高牟禮 逸朗, 田中 秀典, 明石 良, 貴島 祐治
日本育種学会第144回講演会 2023.9.17
Event date： 2023.9.16 - 2023.9.18
Presentation type：Oral presentation (general)
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シバ属における3Dモデルから抽出した葉色情報とNDVIの相関
Pongpiyapaiboon Sorawich, 田中 秀典, 橋口 拓勇, 橋口 正嗣, 明石 良
日本育種学会第142回講演会 2022.9.23
Event date： 2022.9.23 - 2022.9.24
Language：English Presentation type：Oral presentation (general)
Grant-in-Aid for Scientific Research 【 display / non-display 】
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ゲノム編集食品が遺伝子組み換え食品と同じ轍を踏まないために
Grant number：23K05404 2023.04 - 2027.03
独立行政法人日本学術振興会 科学研究費補助金 基盤研究(C)
Authorship：Coinvestigator(s)
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学生の学業継続および退学予測モデルの構築に関する実証的研究
Grant number：22H01025 2022.04 - 2025.03
独立行政法人日本学術振興会 科学研究費補助金 基盤研究(B)
Authorship：Coinvestigator(s)
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大学の数量的な「共通知」から分析マインドを涵養する人材育成プラットフォームの開発
Grant number：18K02706 2018.04 - 2022.03
科学研究費補助金 基盤研究(C)
Authorship：Coinvestigator(s)
Available Technology 【 display / non-display 】
Social Activities 【 display / non-display 】
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山形大学・履修証明プログラム（IR担当者向け実践プログラム）担当講師
Role(s)： Lecturer
山形大学 2024.5 - 2024.10
Audience： Teachers, Researchesrs, General, Governmental agency
Type：Certification seminar
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山形大学・履修証明プログラム（IR担当者向け実践プログラム）担当講師
Role(s)： Lecturer
山形大学 2023.5 - 2023.10
Audience： Teachers, Researchesrs, General, Governmental agency
Type：Certification seminar
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山形大学・履修証明プログラム（IR担当者向け実践プログラム）担当講師
Role(s)： Lecturer
山形大学 2022.5 - 2022.9
Audience： Teachers, Researchesrs, General, Governmental agency
Type：Certification seminar
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山形大学・履修証明プログラム（IR担当者向け実践プログラム）担当講師
Role(s)： Lecturer
山形大学 2021.5 - 2021.9
Audience： Teachers, Researchesrs, General, Governmental agency
Type：Certification seminar
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山形大学・履修証明プログラム（IR担当者向け実践プログラム）ゲスト講師
Role(s)： Lecturer
山形大学 2020.11.28
Audience： Teachers, Researchesrs, General, Governmental agency
Type：Certification seminar