9.9
CiteScore
7.1
Impact Factor
Turn off MathJax
Article Contents
Article Navigation >  Journal of Genetics and Genomics  > 2026  > Accepted Manuscript

An integrative gene regulatory network identifies transcriptional hubs governing the photosynthetic apparatus in rice

doi: 10.1016/j.jgg.2026.03.024
  •  

    a. Key Laboratory for Carbon Capture, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China;

  •  

    b. School of Life Sciences, Henan University, Kaifeng, Henan 475001, China;

  •  

    c. University of Chinese Academy of Sciences, Beijing 100049, China;

  •  

    d. Joint Center for Single Cell Biology, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China

Funds:

This work was supported by the Yazhouwan Laboratory Grant (2024ZD0408003 to X.G.Z.), STI 2030 Major Project (2023ZD04072 to Q.S.), and the Strategic Priority Research Program of the Chinese Academy of Sciences (XDB0630301 to X.G.Z. and XDB0630101 to M.J.L.).

  • Received Date: 2025-11-01
  • Accepted Date: 2026-03-29
  • Rev Recd Date: 2026-03-26
    • Available Online: 2026-04-08
    Abstract
  • Photosynthesis fuels crop growth and yield, yet the regulatory networks coordinating photosynthetic gene expression with carbon allocation remain incompletely understood. Here, we construct a gene regulatory network (GRN) for rice photosynthesis by integrating time-resolved RNA-seq, ATAC-seq, and promoter cis-element analyses. We identify nine hub transcription factors (TFs), four of which (OsPIL13, OsbZIP72, OsCGA1, and OsGLK1) exhibit strong leaf-specific, light-inducible expression patterns. Overexpression of OsPIL13, OsbZIP72, or OsGLK1 using photosynthetic tissue-specific promoters significantly enhanced the light-saturated photosynthetic rate (Asat) across developmental stages, with OsPIL13 overexpression increasing Asat by up to 57% during grain filling. While several hub TFs boosted photosynthetic capacity, consistent improvements in biomass and grain yield under field conditions were rare. Notably, OsGLK1 overexpression confers stable yield gains across multiple growing seasons. Comparative transcriptomic analysis indicates that OsGLK1 also upregulates genes involved in brassinosteroid biosynthesis and sugar and lipid transporter genes, potentially linking photosynthetic output to growth and resource allocation. Collectively, our findings indicate that enhancing photosynthesis alone is insufficient to guarantee yield improvement; rather, the coordinated regulation of photosynthetic capacity and downstream carbon utilization is essential for sustainable productivity gains in rice.
    • FullText(HTML)
  • loading
    • References(102)
  • Adachi, S., Baptista, L.Z., Sueyoshi, T., Murata, K., Yamamoto, T., Ebitani, T., Ookawa, T., Hirasawa, T., 2014. Introgression of two chromosome regions for leaf photosynthesis from an indica rice into the genetic background of a japonica rice. J. Exp. Bot. 65, 2049-2056.
    Adachi, S., Yoshikawa, K., Yamanouchi, U., Tanabata, T., Sun, J., Ookawa, T., Yamamoto, T., Sage, R.F., Hirasawa, T., Yonemaru, J., 2017. Fine mapping of carbon assimilation rate 8, a quantitative trait locus for flag leaf nitrogen content, stomatal conductance and photosynthesis in rice. Front. Plant Sci. 8, 60.
    Akiyama, T., Jin, S., Yoshida, M., Hoshino, T., Opassiri, R., Cairns, J.R.K., 2009. Expression of an endo-(1,3;1,4)-β-glucanase in response to wounding, methyl jasmonate, abscisic acid and ethephon in rice seedlings. J. Plant Physiol. 166, 1814-1825.
    Ambavaram, M.M., Basu, S., Krishnan, A., Ramegowda, V., Batlang, U., Rahman, L., Baisakh, N., Pereira, A., 2014. Coordinated regulation of photosynthesis in rice increases yield and tolerance to environmental stress. Nat. Commun. 5, 5302.
    Bates, D., Machler, M., Bolker, B.M., Walker, S.C., 2015. Fitting linear mixed-effects models using lme4. J. Stat. Softw. 67, 1-48.
    Cackett, L., Luginbuehl, L.H., Schreier, T.B., Lopez-Juez, E., Hibberd, J.M., 2022. Chloroplast development in green plant tissues: the interplay between light, hormone, and transcriptional regulation. New Phytol. 233, 2000-2016.
    Chen, F.M., Zheng, G.Y., Qu, M.N., Wang, Y.J., Lyu, M.J.A., Zhu, X.G., 2021. Knocking out negative regulator of photosynthesis 1 increases rice leaf photosynthesis and biomass production in the field. J. Exp. Bot. 72, 1836-1849.
    Chen, J.H., Chen, S.T., He, N.Y., Wang, Q.L., Zhao, Y., Gao, W., Guo, F.Q., 2020. Nuclear-encoded synthesis of the D1 subunit of photosystem II increases photosynthetic efficiency and crop yield. Nat. Plants 6, 570-580.
    Chen, L.Q., Qu, X.Q., Hou, B.H., Sosso, D., Osorio, S., Fernie, A.R., Frommer, W.B., 2012. Sucrose efflux mediated by SWEET proteins as a key step for phloem transport. Science 335, 207-211.
    Chiang, Y.H., Zubo, Y.O., Tapken, W., Kim, H.J., Lavanway, A.M., Howard, L., Pilon, M., Kieber, J.J., Schaller, G.E., 2012. Functional characterization of the GATA transcription factors GNC and CGA1 reveals their key role in chloroplast development, growth, and division in arabidopsis. Plant Physiol. 160, 332-348.
    Chow, C.N., Lee, T.Y., Hung, Y.C., Li, G.Z., Tseng, K.C., Liu, Y.H., Kuo, P.L., Zheng, H.Q., Chang, W.C., 2019. PlantPAN3.0: a new and updated resource for reconstructing transcriptional regulatory networks from ChIP-seq experiments in plants. Nucleic Acids Res. 47, D1155-D1163.
    Chow, C.N., Yang, C.W., Wu, N.Y., Wang, H.T., Tseng, K.C., Chiu, Y.H., Lee, T.Y., Chang, W.C., 2024. PlantPAN 4.0: updated database for identifying conserved non-coding sequences and exploring dynamic transcriptional regulation in plant promoters. Nucleic Acids Res. 52, D1569-D1578.
    Chow, C.N., Zheng, H.Q., Wu, N.Y., Chien, C.H., Huang, H.D., Lee, T.Y., Chiang-Hsieh, Y.F., Hou, P.F., Yang, T.Y., Chang, W.C., 2016. PlantPAN 2.0: an update of plant promoter analysis navigator for reconstructing transcriptional regulatory networks in plants. Nucleic Acids Res. 44, D1154-1160.
    De Bruyne, L., Hofte, M., De Vleesschauwer, D., 2014. Connecting growth and defense: the emerging roles of brassinosteroids and gibberellins in plant innate immunity. Mol. Plant 7, 943-959.
    De Souza, A.P., Burgess, S.J., Doran, L., Hansen, J., Manukyan, L., Maryn, N., Gotarkar, D., Leonelli, L., Niyogi, K.K., Long, S.P., 2022. Soybean photosynthesis and crop yield are improved by accelerating recovery from photoprotection. Science 377, 851-854.
    Ding, F., Wang, M.L., Zhang, S.X., Ai, X.Z., 2016. Changes in SBPase activity influence photosynthetic capacity, growth, and tolerance to chilling stress in transgenic tomato plants. Sci. Rep. 6, ARTN 32741.
    Dobin, A., Davis, C.A., Schlesinger, F., Drenkow, J., Zaleski, C., Jha, S., Batut, P., Chaisson, M., Gingeras, T.R., 2013. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29, 15-21.
    Dong, P., Tu, X., Chu, P.Y., Lu, P., Zhu, N., Grierson, D., Du, B., Li, P., Zhong, S., 2017. 3D chromatin architecture of large plant genomes determined by local A/B compartments. Mol. Plant 10, 1497-1509.
    Driever, S.M., Lawson, T., Andralojc, P.J., Raines, C.A., Parry, M.A., 2014. Natural variation in photosynthetic capacity, growth, and yield in 64 field-grown wheat genotypes. J. Exp. Bot. 65, 4959-4973.
    Driever, S.M., Simkin, A.J., Alotaibi, S., Fisk, S.J., Madgwick, P.J., Sparks, C.A., Jones, H.D., Lawson, T., Parry, M.A.J., Raines, C.A., 2017. Increased SBPase activity improves photosynthesis and grain yield in wheat grown in greenhouse conditions. Philos. Trans. R. Soc. B Biol. Sci. 372, ARTN 20160384.
    Egli, D.B., Bruening, W.P., 2001. Source-sink relationships, seed sucrose levels and seed growth rates in soybean. Ann. Bot. 88, 235-242.
    Ermakova, M., Lopez-Calcagno, P.E., Raines, C.A., Furbank, R.T., von Caemmerer, S., 2019. Overexpression of the Rieske FeS protein of the cytochrome b6f complex increases C4 photosynthesis in Setaria viridis. Commun. Biol. 2, ARTN 314.
    Fabre, D., Adriani, D.E., Dingkuhn, M., Ishimaru, T., Punzalan, B., Lafarge, T., Clement-Vidal, A., Luquet, D., 2016. The qTSN4 effect on flag leaf size, photosynthesis and panicle size, benefits to plant grain production in rice, depending on light availability. Front. Plant Sci. 7, 623.
    Fang, L., Lin, H.X., Low, C.S., Wu, M.H., Chow, Y., Lee, Y.K., 2012. Expression of the Chlamydomonas reinhardtii sedoheptulose-1,7-bisphosphatase in Dunaliella bardawil leads to enhanced photosynthesis and increased glycerol production. Plant Biotechnol. J. 10, 1129-1135.
    FAO, 2023. World food and agriculture – statistical yearbook 2023. Rome.
    Feng, L.L., Wang, K., Li, Y., Tan, Y.P., Kong, J., Li, H., Li, Y.S., Zhu, Y.G., 2007. Overexpression of SBPase enhances photosynthesis against high temperature stress in transgenic rice plants. Plant Cell Rep. 26, 1635-1646.
    Fitter, D.W., Martin, D.J., Copley, M.J., Scotland, R.W., Langdale, J.A., 2002. GLK gene pairs regulate chloroplast development in diverse plant species. Plant J. 31, 713-727.
    Fox, J., Weisberg, S., 2018. An R companion to applied regression. SAGE Publications, Inc.
    Gandham, K., Thomas, J., Riaz, A., Balakrishnan, D., Pereira, A., Kariyat, R., 2025. Rice master regulator HYR enhances growth and defense mechanisms with consequences for fall armyworm growth and host selection. Plant Cell Physiol. 66, 687-704.
    Garcia, A., Gaju, O., Bowerman, A.F., Buck, S.A., Evans, J.R., Furbank, R.T., Gilliham, M., Millar, A.H., Pogson, B.J., Reynolds, M.P., et al., 2023. Enhancing crop yields through improvements in the efficiency of photosynthesis and respiration. New Phytol. 237, 60-77.
    Grant, C.E., Bailey, T.L., Noble, W.S., 2011. FIMO: scanning for occurrences of a given motif. Bioinformatics 27, 1017-1018.
    Gu, J.F., Yin, X.Y., Stomph, T.J., Wang, H.Q., Struik, P.C., 2012. Physiological basis of genetic variation in leaf photosynthesis among rice (Oryza sativa L.) introgression lines under drought and well-watered conditions. J. Exp. Bot. 63, 5137-5153.
    Gu, J.F., Yin, X.Y., Struik, P.C., Stomph, T.J., Wang, H.Q., 2012. Using chromosome introgression lines to map quantitative trait loci for photosynthesis parameters in rice (Oryza sativa L.) leaves under drought and well-watered field conditions. J. Exp. Bot. 63, 455-469.
    Hiei, Y., Ohta, S., Komari, T., Kumashiro, T., 1994. Efficient transformation of rice (Oryza sativa L.) mediated by Agrobacterium and sequence-analysis of the boundaries of the T-DNA. Plant J. 6, 271-282.
    Huang, P., Ding, Z., Duan, M., Xiong, Y., Li, X., Yuan, X., Huang, J., 2023. OsLUX confers rice cold tolerance as a positive regulatory factor. Int. J. Mol. Sci. 24, 6727.
    Hudson, D., Guevara, D., Yaish, M.W., Hannam, C., Long, N., Clarke, J.D., Bi, Y.M., Rothstein, S.J., 2011. GNC and CGA1 modulate chlorophyll biosynthesis and glutamate synthase (GLU1/Fd-GOGAT) expression in Arabidopsis. PLoS ONE 6, e26765.
    Hudson, D., Guevara, D.R., Hand, A.J., Xu, Z., Hao, L., Chen, X., Zhu, T., Bi, Y.M., Rothstein, S.J., 2013. Rice cytokinin GATA transcription factor1 regulates chloroplast development and plant architecture. Plant Physiol. 162, 132-144.
    Jin, J., Tian, F., Yang, D.C., Meng, Y.Q., Kong, L., Luo, J., Gao, G., 2017. PlantTFDB 4.0: toward a central hub for transcription factors and regulatory interactions in plants. Nucleic Acids Res. 45, D1040-D1045.
    Kanwar, P., Sanyal, S.K., Tokas, I., Yadav, A.K., Pandey, A., Kapoor, S., Pandey, G.K., 2014. Comprehensive structural, interaction and expression analysis of CBL and CIPK complement during abiotic stresses and development in rice. Cell Calcium 56, 81-95.
    Kapoor, R., Kumar, G., Arya, P., Jaswal, R., Jain, P., Singh, K., Sharma, T.R., 2019. Genome-wide analysis and expression profiling of rice hybrid proline-rich proteins in response to biotic and abiotic stresses, and hormone treatment. Plants (Basel) 8, 343.
    Koivuniemi, A., Swiezewska, E., Aro, E.M., Styring, S., Andersson, B., 1993. Reduced content of the quinone acceptor Qa in photosystem II complexes isolated from thylakoid membranes after prolonged photoinhibition under anaerobic conditions. FEBS Lett. 327, 343-346.
    Kumar, A., Dubey, A.K., Kumar, V., Ansari, M.A., Narayan, S., Meenakshi, Kumar, S., Pandey, V., Shirke, P.A., Sanyal, I., 2020. Overexpression of rice glutaredoxin genes LOC_Os02g40500 and LOC_Os01g27140 regulate plant responses to drought stress. Ecotoxicol. Environ. Saf. 200, 110721.
    Langmead, B., Salzberg, S.L., 2012. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357-359.
    Lee, D.Y., Hua, L., Khoshravesh, R., Giuliani, R., Kumar, I., Cousins, A., Sage, T.L., Hibberd, J.M., Brutnell, T.P., 2021. Engineering chloroplast development in rice through cell-specific control of endogenous genetic circuits. Plant Biotechnol. J. 19, 2291-2303.
    Lefebvre, S., Lawson, T., Zakhleniuk, O.V., Lloyd, J.C., Raines, C.A., 2005. Increased sedoheptulose-1,7-bisphosphatase activity in transgenic tobacco plants stimulates photosynthesis and growth from an early stage in development. Plant Physiol. 138, 451-460.
    Li, B., Dewey, C.N., 2011. RSEM: accurate transcript quantification from RNA-seq data with or without a reference genome. BMC Bioinformatics 12, 323.
    Liu, X., Gao, X., Fan, W., Fu, X., 2025. Optimizing carbon and nitrogen metabolism in plants: from fundamental principles to practical applications. J. Integr. Plant Biol. 67, 1447-1466.
    Liu, X., Guo, X., Li, T.J., Wang, X., Guan, Y.L., Wang, D., Wang, Y.J., Ji, X.N., Gao, Q.S., Ji, J.H., 2025. OsGSK1 interacts with OsbZIP72 to regulate salt response in rice. Plant J. 121, e70112.
    Long, S.P., Zhu, X.G., Naidu, S.L., Ort, D.R., 2006. Can improvement in photosynthesis increase crop yields? Plant Cell Environ. 29, 315-330.
    Love, M.I., Huber, W., Anders, S., 2014. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 15, 550.
    Ludewig, F., Flugge, U.I., 2013. Role of metabolite transporters in source-sink carbon allocation. Front. Plant Sci. 4, 231.
    Makino, A., 2011. Photosynthesis, grain yield, and nitrogen utilization in rice and wheat. Plant Physiol. 155, 125-129.
    Martin, M., 2011. Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet.journal 17.1.
    Mendieta, J.P., Marand, A.P., Ricci, W.A., Zhang, X., Schmitz, R.J., 2021. Leveraging histone modifications to improve genome annotations. G3-Genes Genomes Genet. 11, jkab263.
    Mizoi, J., Shinozaki, K., Yamaguchi-Shinozaki, K., 2012. AP2/ERF family transcription factors in plant abiotic stress responses. Biochim. Biophys. Acta Gen. Regul. Mech. 1819, 86-96.
    Mondal, R., Molla, K.A., 2025. DREB1C: connecting dots between water- and nitrogen-use efficiency to climate-smart crop development. J. Plant Growth Regul. 44, 1389-1395.
    Morii, M., Sugihara, A., Takehara, S., Kanno, Y., Kawai, K., Hobo, T., Hattori, M., Yoshimura, H., Seo, M., Ueguchi-Tanaka, M., 2020. The dual function of OsSWEET3a as a gibberellin and glucose transporter is important for young shoot development in rice. Plant Cell Physiol. 61, 1935-1945.
    Nakamura, H., Muramatsu, M., Hakata, M., Ueno, O., Nagamura, Y., Hirochika, H., Takano, M., Ichikawa, H., 2009. Ectopic overexpression of the transcription factor induces chloroplast development in non-green rice cells. Plant Cell Physiol. 50, 1933-1949.
    Ogawa, S., Suzuki, Y., Yoshizawa, R., Kanno, K., Makino, A., 2012. Effect of individual suppression of RBCS multigene family on Rubisco contents in rice leaves. Plant Cell Environ. 35, 546-553.
    Ort, D.R., Merchant, S.S., Alric, J., Barkan, A., Blankenship, R.E., Bock, R., Croce, R., Hanson, M.R., Hibberd, J.M., Long, S.P., et al., 2015. Redesigning photosynthesis to sustainably meet global food and bioenergy demand. Proc. Natl. Acad. Sci. U. S. A. 112, 8529-8536.
    Pandey, V., Shukla, A., 2015. Acclimation and tolerance strategies of rice under drought stress. Rice Sci. 22, 147-161.
    Parry, M.A., Reynolds, M., Salvucci, M.E., Raines, C., Andralojc, P.J., Zhu, X.G., Price, G.D., Condon, A.G., Furbank, R.T., 2011. Raising yield potential of wheat. II. Increasing photosynthetic capacity and efficiency. J. Exp. Bot. 62, 453-467.
    Paul, M.J., 2021. Improving photosynthetic metabolism for crop yields: what is going to work? Front. Plant Sci. 12, 743862.
    Perveen, S., Qu, M., Chen, F., Essemine, J., Khan, N., Lyu, M.A., Chang, T., Song, Q., Chen, G.Y., Zhu, X.G., 2020. Overexpression of maize transcription factor mEmBP-1 increases photosynthesis, biomass, and yield in rice. J. Exp. Bot. 71, 4944-4957.
    Qu, M.N., Essemine, J., Li, M., Chang, S.Q., Chang, T.G., Chen, G.Y., Zhu, X.G., 2020. Genome-wide association study unravels LRK1 as a dark respiration regulator in rice (Oryza sativa L.). Int. J. Mol. Sci. 21, 4930.
    Qu, M.N., Essemine, J., Xu, J.L., Ablat, G., Perveen, S., Wang, H.R., Chen, K., Zhao, Y., Chen, G.Y., Chu, C.C., Zhu, X.G., 2020. Alterations in stomatal response to fluctuating light increase biomass and yield of rice under drought conditions. Plant J. 104, 1334-1347.
    Quinlan, A.R., Hall, I.M., 2010. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26, 841-842.
    Ran, X.J., Zhao, F., Wang, Y.J., Liu, J., Zhuang, Y.L., Ye, L.H., Qi, M.F., Cheng, J.F., Zhang, Y.J., 2020. Plant Regulomics: a data-driven interface for retrieving upstream regulators from plant multi-omics data. Plant J. 101, 237-248.
    Rao, D., Chaitanya, K.V., 2016. Photosynthesis and antioxidative defense mechanisms in deciphering drought stress tolerance of crop plants. Biol. Plant 60, 201-218.
    Rasheed, A., Li, H., Tahir, M.M., Mahmood, A., Nawaz, M., Shah, A.N., Aslam, M.T., Negm, S., Moustafa, M., Hassan, M.U., Wu, Z., 2022. The role of nanoparticles in plant biochemical, physiological, and molecular responses under drought stress: a review. Front. Plant Sci. 13, 976179.
    Ray, D.K., West, P.C., Clark, M., Gerber, J.S., Prishchepov, A.V., Chatterjee, S., 2019. Climate change has likely already affected global food production. PLoS ONE 14, e0217148.
    Reynolds, M., Foulkes, M.J., Slafer, G.A., Berry, P., Parry, M.A.J., Snape, J.W., Angus, W.J., 2009. Raising yield potential in wheat. J. Exp. Bot. 60, 1899-1918.
    Sakuraba, Y., Kim, E.Y., Han, S.H., Piao, W., An, G., Todaka, D., Yamaguchi-Shinozaki, K., Paek, N.C., 2017. Rice phytochrome-interacting factor-like1 (OsPIL1) is involved in the promotion of chlorophyll biosynthesis through feed-forward regulatory loops. J. Exp. Bot. 68, 4103-4114.
    Seleiman, M.F., Al-Suhaibani, N., Ali, N., Akmal, M., Alotaibi, M., Refay, Y., Dindaroglu, T., Abdul-Wajid, H.H., Battaglia, M.L., 2021. Drought stress impacts on plants and different approaches to alleviate its adverse effects. Plants (Basel) 10, 259.
    Shamloo-Dashtpagerdi, R., Lindlof, A., Aliakbari, M., 2025. The CGA1-SNAT regulatory module potentially contributes to cytokinin-mediated melatonin biosynthesis and drought tolerance in wheat. BMC Plant Biol. 25, 296.
    Shen, B.R., Wang, L.M., Lin, X.L., Yao, Z., Xu, H.W., Zhu, C.H., Teng, H.Y., Cui, L.L., Liu, E.E., Zhang, J.J., et al., 2019. Engineering a new chloroplastic photorespiratory bypass to increase photosynthetic efficiency and productivity in rice. Mol. Plant 12, 199-214.
    Shi, W.J., Xiao, G., Struik, P.C., Jagadish, K.S.V., Yin, X.Y., 2017. Quantifying source-sink relationships of rice under high night-time temperature combined with two nitrogen levels. Field Crops Res. 202, 36-46.
    Simkin, A.J., McAusland, L., Lawson, T., Raines, C.A., 2017. Overexpression of the RieskeFeS protein increases electron transport rates and biomass yield. Plant Physiol. 175, 134-145.
    Sinclair, T.R., Rufty, T.W., Lewis, R.S., 2019. Increasing photosynthesis: unlikely solution for world food problem. Trends Plant Sci. 24, 1032-1039.
    Song, Q., Liu, F., Bu, H., Zhu, X.G., 2023. Quantifying contributions of different factors to canopy photosynthesis in 2 maize varieties: development of a novel 3D canopy modeling pipeline. Plant Phenomics 5, 0075.
    Song, Q.F., Xiao, H., Xiao, X.L., Zhu, X.G., 2016. A new canopy photosynthesis and transpiration measurement system (CAPTS) for canopy gas exchange research. Agric. Forest Meteorol. 217, 101-107.
    Sun, Y., Li, Q., Wu, M., Wang, Q., Zhang, D., Gao, Y., 2024. Rice PIFs: critical regulators in rice development and stress response. Plant Mol. Biol. 114, 1.
    Takai, T., Adachi, S., Taguchi-Shiobara, F., Sanoh-Arai, Y., Iwasawa, N., Yoshinaga, S., Hirose, S., Taniguchi, Y., Yamanouchi, U., Wu, J., et al., 2013. A natural variant of NAL1, selected in high-yield rice breeding programs, pleiotropically increases photosynthesis rate. Sci. Rep. 3, 2149.
    Takai, T., Arai-Sanoh, Y., Iwasawa, N., Hayashi, T., Yoshinaga, S., Kondo, M., 2012. Comparative mapping suggests repeated selection of the same quantitative trait locus for high leaf photosynthesis rate in rice high-yield breeding programs. Crop Sci. 52, 2649-2658.
    Todaka, D., Nakashima, K., Maruyama, K., Kidokoro, S., Osakabe, Y., Ito, Y., Matsukura, S., Fujita, Y., Yoshiwara, K., Ohme-Takagi, M., et al., 2012. Rice phytochrome-interacting factor-like protein OsPIL1 functions as a key regulator of internode elongation and induces a morphological response to drought stress. Proc. Natl. Acad. Sci. U. S. A. 109, 15947-15952.
    Todaka, D., Shinozaki, K., Yamaguchi-Shinozaki, K., 2015. Recent advances in the dissection of drought-stress regulatory networks and strategies for development of drought-tolerant transgenic rice plants. Front. Plant Sci. 6, 84.
    Venkateswarlu, B., 1976. Source-sink interrelationships in lowland rice. Plant Soil 44, 575-586.
    Wang, D., Pei, K., Fu, Y., Sun, Z., Li, S., Liu, H., Tang, K., Han, B., Tao, Y., 2007. Genome-wide analysis of the auxin response factors (ARF) gene family in rice (Oryza sativa). Gene 394, 13-24.
    Wang, L.M., Shen, B.R., Li, B.D., Zhang, C.L., Lin, M., Tong, P.P., Cui, L.L., Zhang, Z.S., Peng, X.X., 2020. A synthetic photorespiratory shortcut enhances photosynthesis to boost biomass and grain yield in rice. Mol. Plant 13, 1802-1815.
    Wang, X., Zhou, W., Lu, Z., Ouyang, Y., O, C.S., Yao, J., 2015. A lipid transfer protein, OsLTPL36, is essential for seed development and seed quality in rice. Plant Sci. 239, 200-208.
    Waters, M.T., Wang, P., Korkaric, M., Capper, R.G., Saunders, N.J., Langdale, J.A., 2009. GLK transcription factors coordinate expression of the photosynthetic apparatus in Arabidopsis. Plant Cell 21, 1109-1128.
    Wei, H.H., Meng, T.Y., Li, X.Y., Dai, Q.G., Zhang, H.C., Yin, X.Y., 2018. Sink-source relationship during rice grain filling is associated with grain nitrogen concentration. Field Crops Res. 215, 23-38.
    Wei, S.B., Li, X., Lu, Z.F., Zhang, H., Ye, X.Y., Zhou, Y.J., Li, J., Yan, Y.Y., Pei, H.C., Duan, F.Y., Wang, D.Y., et al., 2022. A transcriptional regulator that boosts grain yields and shortens the growth duration of rice. Science 377, 386-390.
    Wu, A., Brider, J., Busch, F.A., Chen, M., Chenu, K., Clarke, V.C., Collins, B., Ermakova, M., Evans, J.R., Farquhar, G.D., et al., 2023. A cross-scale analysis to understand and quantify the effects of photosynthetic enhancement on crop growth and yield across environments. Plant Cell Environ. 46, 23-44.
    Xu, P., Zhang, Y., Wen, X., Yang, Q., Liu, L., Hao, S., Li, J., Wu, Z., Shah, L., Sohail, A., et al., 2023. The clock component OsLUX regulates rice heading through recruiting OsELF3-1 and OsELF4s to repress Hd1 and Ghd7. J. Adv. Res. 48, 17-31.
    Yamatani, H., Sato, Y., Masuda, Y., Kato, Y., Morita, R., Fukunaga, K., Nagamura, Y., Nishimura, M., Sakamoto, W., Tanaka, A., et al., 2013. NYC4, the rice ortholog of Arabidopsis THF1, is involved in the degradation of chlorophyll protein complexes during leaf senescence. Plant J. 74, 652-662.
    Yang, C.K., Shen, S.Q., Zhou, S., Li, Y.F., Mao, Y.Y., Zhou, J.J., Shi, Y.H., An, L.X., Zhou, Q.Q., Peng, W.J., et al., 2022. Rice metabolic regulatory network spanning the entire life cycle. Mol. Plant 15, 258-275.
    Yu, X., Zheng, G., Shan, L., Meng, G., Vingron, M., Liu, Q., Zhu, X.G., 2014. Reconstruction of gene regulatory network related to photosynthesis in Arabidopsis thaliana. Front. Plant Sci. 5, 273.
    Zhang, X.J., Zhao, X.M., He, K., Lu, L., Cao, Y.W., Liu, J.D., Hao, J.K., Liu, Z.P., Chen, L.N., 2012. Inferring gene regulatory networks from gene expression data by path consistency algorithm based on conditional mutual information. Bioinformatics 28, 98-104.
    Zhao, J., Zhou, Y.W., Zhang, X.J., Chen, L.N., 2016. Part mutual information for quantifying direct associations in networks. Proc. Natl. Acad. Sci. U. S. A. 113, 5130-5135.
    Zhu, X.G., Long, S.P., Ort, D.R., 2010. Improving photosynthetic efficiency for greater yield. Annu. Rev. Plant Biol. 61, 235-261.
    Zhu, X.G., Song, Q.F., Ort, D.R., 2012. Elements of a dynamic systems model of canopy photosynthesis. Curr. Opin. Plant Biol. 15, 237-244.
    • Relative Articles
    • Supplements(0)
    • Cited By
  • 加载中

Catalog

    通讯作者: 陈斌, bchen63@163.com
    • 1. 

      沈阳化工大学材料科学与工程学院 沈阳 110142

    1. 本站搜索
    2. 百度学术搜索
    3. 万方数据库搜索
    4. CNKI搜索
    Get Citation
    PDF

    Article Metrics

    Article views (10) PDF downloads (0) Cited by ()
    Proportional views
    Related

    Editorial Office

    Journal of Genetics and Genomics

    京ICP备09063187号-12

    No.1, West Beichen Road, Chaoyang District, Beijing 100101, P.R.China

    +86-10-64806528+86-10-64807786jgg@genetics.ac.cn

    Supported by: Beijing Renhe Information Technology Co. Ltd  

    /

    DownLoad:  Full-Size Img  PowerPoint
    Return
    Return