トップ
論文・著書など
  • Numajiri Y., Yoshida S., Hayashi T., Uga Y. (in press) Three-dimensional image analysis specifies the root distribution for drought avoidance in the early growth stage of rice. Annals of Botany, mcae101, doi:10.1093/aob/mcae101.
  • Teramoto S., Uga Y. (2024) Convolutional neural networks combined with conventional filtering to semantically segment plant roots in rapidly scanned X-ray computed tomography volumes with high noise levels. Plant Methods, 20(1), 73. doi:10.1186/s13007-024-01208-0.
  • Tei M., Soma F., Barbieri E., Uga Y., Kawahito Y. (2024) Non-destructive real-time monitoring of underground root development with distributed fiber optic sensing. Plant Methods 20: 1-10.
  • Wei S., Tanaka R., Kawakatsu T., Teramoto S., Tanaka N., Shenton M., Uga Y., Yabe S. (2023) Genome- and transcriptome-wide association studies to discover candidate genes for diverse root phenotypes in cultivated rice. Rice 16: 55.
  • Soma F., Kitomi Y., Kawakatsu T., Uga Y. (2023) Life-cycle multiomics of rice shoots reveals growth stage-specific effects of drought stress and time-lag drought responses. Plant and Cell Physiology, 65: 156-168.
  • Nagata K. Uga Y. et al. (2023) Development of 12 sets of chromosome segment substitution lines that enhance allele mining in Asian cultivated rice. Breeding Science, 73: 332-342.
  • Kuya N., Nishijima R., Kitomi Y., Kawakatsu T., Uga Y. (2023) Transcriptome profiles of rice roots under simulated microgravity conditions and following gravistimulation. Frontiers in Plant Science. 14:1193042. doi:10.3389/fpls.2023.1193042.
  • Soma F., Takahashi F., Kidokoro S., Kameoka H., Suzuki T., Uga Y., Shinozaki K., Yamaguchi-Shinozaki K. (2023) Constitutively active B2 Raf-like kinases are required for drought-responsive gene expression upstream of ABA-activated SnRK2 kinases. PNAS, 120: e2221863120.
  • Takai, T., Taniguchi, Y., Takahashi, M., Nagasaki, H., Yamamoto, E., Hirose, S., Hara, N., Akashi, H., Ito, J., Arai-Sanoh, Y., Hori, K., Fukuoka, S., Sakai, H., Tokida, T., Usui, Y., Nakamura, H., Kawamura, K., Asai, H., Ishizaki, T., Maruyama, K., Mochida, K., Kobayashi, N., Kondo, M., Tsuji, H., Tsujimoto, Y., Hasegawa, T., Uga, Y. (2023) MORE PANICLES 3, a natural allele of OsTB1/FC1, impacts rice yield in paddy fields at elevated CO2 levels. The Plant Journal. 114: 729-742. doi:10.1111/tpj.16143.
  • Miyoshi Y., Soma F., Yin Y.-G., Suzui N., Noda Y., Enomoto K., Nagao Y., Yamaguchi M., Kawachi N., Yoshida E., Tashima H., Yamaya T., Kuya N., Teramoto S., Uga Y. (2023) Rice immediately adapts the dynamics of photosynthates translocation to roots in response to changes in soil water environment. Frontiers in Plant Science, 13:1024144. doi: 10.3389/fpls.2022.1024144.
  • Teramoto S., Uga Y. (2022) Four-dimensional measurement of root system development using time-series three-dimensional volumetric data analysis by backward prediction. Plant Methods 18:133. doi:10.1186/s13007-022-00968-x
    RSAtrace4D (Program): Github
  • Teramoto S., Uga Y. (2022) Improving the efficiency of plant root system phenotyping through digitization and automation. Breeding Science. doi:10.1270/jsbbs.21053
  • Teramoto S., Yamasaki M., Uga Y. (2022) Identification of a unique allele in the quantitative trait locus for crown root number in japonica rice from Japan using genome-wide association studies. Breeding Science 72: 222-231. doi:10.1270/jsbbs.22010
  • Tei M., Barbieri E., Soma F., Uga Y., Kawahito Y. (2022) Agritech imaging of underground plant root growth using a distributed fiber optic sensor. Proceeding of SPIE, 11953: 119530I-1. doi.10.1117/12.2606308
  • Miyoshi Y., Nagao Y., Yamaguchi M., Suzui N., Yin Y.-G., Kawachi N., Yoshida E., Takyu S., Tashima H., Yamaya T., Kuya N., Teramoto S., Uga Y. (2021) Plant root PET: visualization of photosynthate translocation to roots in rice plant. Journal of Instrumentation, 16: C12018. doi:10.1088/1748-0221/16/12/C12018
  • Teramoto S., Tanabata T., Uga Y. (2021) RSAtrace3D: robust vectorization software for measuring monocot root system architecture. BMC Plant Biology, 21:398. doi:10.1186/s12870-021-03161-9
    RSAtrace3D (Program): Github
  • Numajiri Y., Yoshino K., Teramoto S., Hayashi A., Nishijima R., Tanaka T., Hayashi T., Kawakatsu T., Tanabata T., Uga Y. (2021) iPOTs: Internet of Things-based pot system controlling optional treatment of soil water condition for plant phenotyping under drought stress. The Plant Journal, doi:10.1111/tpj.15400
  • Kawakatsu T, Teramoto S, Takayasu S, Maruyama N, Nishijima R, Kitomi Y, Uga Y. (2021) The transcriptomic landscapes of rice cultivars with diverse root system architectures grown in upland field conditions. The Plant Journal, 106: 1177-1190. doi:10.1111/tpj.15226
  • Uga Y. (2021) Challenges to design-oriented breeding of root system architecture adapted to climate change. Breeding Science. doi:10.1270/jsbbs.20118
  • Teramoto S., Uga Y. (2020) A deep learning-based phenotypic analysis of rice root distribution from field images. Plant Phenomics, Article ID 3194308. doi:10.34133/2020/3194308
    TrenchRoot-SEG: A deep learning-based phenotypic analysis tool for trench profile images (Program): Github
    Supplementary file: Model data (125,685,600 bytes)
  • Kitomi Y., Hanzawa E., Kuya N., Inoue H., Hara N., Kawai S., Kanno N., Endo M., Sugimoto K., Yamazaki T., Sakamoto S., Sentoku N., Wu J., Kanno H., Mitsuda N., Toriyama K., Sato T., Uga Y. (2020) Root angle modifications by the DRO1 homolog improve rice yields in saline paddy fields. PNAS, 117: 21242-21250. doi:10.1073/pnas.2005911117
  • Teramoto S., Takayasu S., Kitomi Y., Arai‐Sanoh Y., Tanabata T., Uga Y. (2020) High‐throughput three‐dimensional visualization of root system architecture of rice using X‐ray computed tomography. Plant Methods, 16: 66. doi:10.1186/s13007-020-00612-6
    RSAvis3D: An robust and rapid image processing for root segmentation from X-ray CT images (Program): Github
    Supplementary file: Compressed CT image file (zipped file: 21,665,062,505 bytes)
  • Yoshino K, Nishijima R, Kawakatsu T. (2020) Low-cost RNA extraction method for highly scalable transcriptome studies. Breeding Science, 70: 481-486. doi:10.1270/jsbbs.19170
  • Tanaka T., Nishijima R., Teramoto S., Kitomi Y., Hayashi T., Uga Y., Kawakatsu T. (2020) De novo genome assembly of the indica rice variety IR64 using linked-read sequencing and Nanopore sequencing. G3-Genes Genomes Genetics, 10: 1495-1501. doi:10.1534/g3.119.400871
  • Teramoto S., Kitomi Y., Nishijima R., Takayasu S., Maruyama N., Uga Y. (2019) Backhoe-assisted monolith method for plant root phenotyping under upland conditions. Breeding Science, 69: 508-513. doi:10.1270/jsbbs.19019
  • Yoshino K., Numajiri Y., Teramoto S., Kawachi N., Tanabata T., Tanaka T., Hayashi T., Kawakatsu T., Uga Y. (2019) Towards a deeper integrated multi-omics approach in the root system to develop climate-resilient rice. Molecular Breeding 39:165. doi:10.1007/s11032-019-1058-4
  • Kitomi Y., Itoh J., Uga Y. "Genetic mechanisms involved in the formation of root system architecture". In Rice Genomics, Genetics and Breeding (eds. T. Sasaki, M. Ashikari): 241-274, 2018.