{"title":"A module involving SEED SHATTERING 1 facilitates seed shattering by suppressing lignin biosynthesis in rice","authors":"Wei He, Leqin Chang, Jing Ning, Min Hu, Linhua Wu, Wenguang Wu, Zuofeng Zhu","doi":"10.1093/plphys/kiaf241","DOIUrl":"https://doi.org/10.1093/plphys/kiaf241","url":null,"abstract":"Reduced seed shattering is a key goal in crop domestication and improvement. Seed shattering 1 (Sh1) was parallel selected during the domestication of the Poaceae family. Investigating the regulatory network of OsSh1 in controlling seed shattering in rice (Oryza sativa L.) offers biological insights and potential for agricultural applications. Here, we identified a transcription factor of CONSTANS, CONSTANS-LIKE, and TOC1(CCT) family, OsCCT22, that physically interacts with OsSh1 in rice. oscct22 mutants exhibited a phenotype similar to ossh1 mutants, characterized by incomplete development of abscission layers and reduced seed shattering ability. Transcriptomic analysis revealed that OsSh1 and OsCCT22 jointly regulate the expression of genes involved in lignin biosynthesis. Notably, transcription of the cinnamyl alcohol dehydrogenase (CAD) gene OsCAD2, caffeic acid O-methyltransferase (OsCOMT), and O-methyltransferase 16 (ROMT-16) was directly inhibited by OsSh1 binding to their key binding motif. This repression was enhanced by the interaction between OsCCT22 and OsSh1. Additionally, our study suggests that OsSh1 regulates the transcription of OsCAD2 by modulating histone methylation modifications near the first intron. Loss-of-function mutations in OsCAD2 led to the formation of more extensive abscission layers and a significant reduction in lignin deposition, resulting in natural seed shattering. Our findings reveal that the OsCCT22-OsSh1-OsCAD2 module affects the lignin deposition of the abscission zone and seed shattering in rice and provide a target for the genetic improvement of seed shattering in crop breeding.","PeriodicalId":20101,"journal":{"name":"Plant Physiology","volume":"16 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-06-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144237418","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Plant PhysiologyPub Date : 2025-06-06DOI: 10.1093/plphys/kiaf246
Zeyu Jiang, Kefan Cai, Dongrui Liu, Siting Zhu, Biying Zhao, Jinli Gong, Xuepeng Sun, Meisong Dai, Kai Xu, Xiaolong Li
{"title":"The light-harvesting complex protein LHCB4 fine-tunes temperature-regulated flowering via chloroplast retrograde signaling in pear","authors":"Zeyu Jiang, Kefan Cai, Dongrui Liu, Siting Zhu, Biying Zhao, Jinli Gong, Xuepeng Sun, Meisong Dai, Kai Xu, Xiaolong Li","doi":"10.1093/plphys/kiaf246","DOIUrl":"https://doi.org/10.1093/plphys/kiaf246","url":null,"abstract":"Flowering is crucial for plant reproductive success and is regulated by both endogenous and external factors. However, the mechanisms by which ambient temperature influences flowering in pear (Pyrus spp.) remain poorly understood. In this study, we observed that elevated temperatures induce early flowering and alter the expression levels of pear light-harvesting complex Lhcb4 (PpyLhcb4) and other flowering-related genes. Notably, the heterologous expression of PpyLhcb4 in Arabidopsis increased chlorophyll content and delayed flowering under normal and high-temperature conditions, suggesting that PpyLhcb4 inhibits flowering by promoting chlorophyll biosynthesis. We also identified a base substitution (A to C) within the PpyLhcb4 promoter region in two pear varieties exhibiting different flowering times. This base substitution affected the CArG-box, which influences PpyLhcb4 promoter activity. Furthermore, the specific binding of the transcription factors PpyAP1 and PpyMADS1 to the PpyLhcb4 promoter was demonstrated. At 22 ℃, PpyLhcb4 expression was not regulated by AP1 but was inhibited by MADS1. However, at 30 ℃, both AP1 and MADS1 upregulated PpyLhcb4 expression. Moreover, we showed that PpyLHCB4 interacts with PpyPIF3 to sense environmental changes. In summary, this study elucidates the molecular mechanisms by which PpyLhcb4 regulates flowering, which involve an intracellular signaling pathway originating from the chloroplast that responds to environmental changes to balance plant growth and development.","PeriodicalId":20101,"journal":{"name":"Plant Physiology","volume":"6 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144237179","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Plant PhysiologyPub Date : 2025-06-06DOI: 10.1093/plphys/kiaf238
Scott A M McAdam, Anju Manandhar, Ian M Rimer, Daniela Aros-Mualin
{"title":"Exclusive and hypersensitive stomatal control by blue-light in Equisetum","authors":"Scott A M McAdam, Anju Manandhar, Ian M Rimer, Daniela Aros-Mualin","doi":"10.1093/plphys/kiaf238","DOIUrl":"https://doi.org/10.1093/plphys/kiaf238","url":null,"abstract":"Most ferns are adapted to lower-light environments and have relatively low rates of leaf gas exchange compared to seed plants. Recent studies suggest that certain fern groups adapted to full-sun, yet ever-wet, environments have evolved novel stomatal regulatory mechanisms, particularly in response to light, enabling higher rates of leaf gas exchange. Among these lineages, the genus Equisetum, a morphologically and ecologically distinctive group of ferns, remains poorly understood in terms of stomatal physiology. Here, we investigated stomatal control by light in Equisetum by combining observations of stomatal conductance in the field with measurements of canopy conductance in a controlled environment and stem-level gas exchange responses to varying wavelengths and intensities of light. We found that Equisetum stomatal closure in the dark occurs over five minutes, which is extremely fast compared to other ferns. Additionally, Equisetum has lost a stomatal response to red light, with stomata exclusively regulated by blue light. This novel regulation of stomata by blue light and rapid stomatal closure in the dark results in strong co-ordination between canopy conductance and light intensity at the end of the day. Our results have implications for understanding the regulation of stomata by light and suggest that there is considerable ecologically relevant diversity in stomatal regulation within ferns.","PeriodicalId":20101,"journal":{"name":"Plant Physiology","volume":"18 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144228454","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Two MYB transcription factors interact to inhibit the expression of cell wall metabolism and starch degradation genes in banana","authors":"Ting-ting Luo, Hui Zhang, Hai-ke Tan, Li-ting Zhang, Wei Wei, Wei Shan, Jian-fei Kuang, Jian-ye Chen, Wang-jin Lu, Ying-ying Yang","doi":"10.1093/plphys/kiaf239","DOIUrl":"https://doi.org/10.1093/plphys/kiaf239","url":null,"abstract":"Banana (Musa acuminata, AAA group) fruit softening severely affects postharvest quality, yet the molecular regulatory networks governing this process remain incompletely understood. In this study, we found that the overexpression of MaMYB44 in bananas and tomatoes delayed fruit firmness loss and starch degradation. In addition, MaMYB44 interacted with MaMYB73 (another member of the R2R3-MYB transcription factor family), which also functioned as a repressor of fruit firmness loss and starch degradation. To elucidate the regulatory network of these transcription factors, we performed a genome-wide co-target gene analysis using DNA affinity purification sequencing (DAP-Seq). The results showed that MaMYB44 and MaMYB73 co-targeted the cell wall metabolism gene expansin A15 (MaEXPA15) and the starch degradation gene β-amylase3 (MaBAM3). Notably, the interaction of MaMYB44 and MaMYB73 enhanced their binding affinity and inhibitory effects on MaEXPA15 and MaBAM3. This study uncovers a regulatory mechanism in which MaMYB44 and MaMYB73 form a complex to inhibit the expression of genes involved in fruit firmness loss and starch degradation. These findings provide perspectives on controlling fruit softening and idenitify important targets for improving postharvest quality.","PeriodicalId":20101,"journal":{"name":"Plant Physiology","volume":"15 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144236990","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Plant PhysiologyPub Date : 2025-06-06DOI: 10.1093/plphys/kiaf240
Chiyusa Ishihara, Nobumitsu Sasaki, Yasuhiko Matsushita, Tomohiro Tsunoda, Tsutomu Arie, Richard S Nelson, Ken Komatsu
{"title":"Live-cell imaging of a plant virus replicase during infection using a genetically encoded, antibody-based probe","authors":"Chiyusa Ishihara, Nobumitsu Sasaki, Yasuhiko Matsushita, Tomohiro Tsunoda, Tsutomu Arie, Richard S Nelson, Ken Komatsu","doi":"10.1093/plphys/kiaf240","DOIUrl":"https://doi.org/10.1093/plphys/kiaf240","url":null,"abstract":"Replication of plant positive-strand RNA viruses occurs in association with intracellular membranes. To date, no versatile technology has been developed to directly label and visualize an active replicase in live plant cells because, in general, replicase function is not retained when it is fused to a protein for fluorescence imaging. We developed a technique to label and image a plant virus replicase during infection using the transiently expressed human influenza hemagglutinin (HA) frankenbody (FB), an antibody fragment that binds the HA epitope. The function of FB was demonstrated by visualizing the targeting of mCherry-fused FB (FB-mCherry) to an HA-tagged and GFP-fused endoplasmic reticulum (ER) marker protein in its native location. The combination of a two-component inducible system with the FB probe enabled FB-mCherry to label an HA epitope-tagged, functional replicase of Plantago asiatica mosaic virus (PlAMV) during its infection in Nicotiana benthamiana cells without affecting virus replication efficiency. The HA-tagged PlAMV replicase forms punctate structures associated with the ER and plasmodesmata and is localized in the vicinity of dsRNA, a hallmark of a viral replication complex. This application of epitope tag-binding intracellular probes for live subcellular imaging in plant cells offers insights into the localization dynamics of an active plant virus replicase during infection and the potential to co-localize host factors with the active replicase in situ.","PeriodicalId":20101,"journal":{"name":"Plant Physiology","volume":"34 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144236991","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Plant PhysiologyPub Date : 2025-06-06DOI: 10.1093/plphys/kiaf242
Hui Zheng, Salvador Torres-Montilla, Xingqi Huang, Manuel Rodríguez-Concepción, Shan Lu
{"title":"STAY-GREEN overexpression in dark-incubated leaves promotes the formation of transitional chromoplast-like plastids","authors":"Hui Zheng, Salvador Torres-Montilla, Xingqi Huang, Manuel Rodríguez-Concepción, Shan Lu","doi":"10.1093/plphys/kiaf242","DOIUrl":"https://doi.org/10.1093/plphys/kiaf242","url":null,"abstract":"The transition of chloroplasts into chromoplasts and gerontoplasts during fruit ripening and leaf senescence, respectively, involves chlorophyll breakdown and chloroplast deterioration. Chlorophyll removal is carried out by several enzymes. Among them, the Mg-dechelatase STAY-GREEN (SGR) catalyzes the first step of chlorophyll degradation. The tomato green-flesh (gf) and pepper chlorophyll retainer (cl) mutants are SGR loss-of-function mutants that maintain high levels of thylakoid structures during chromoplast development in ripening fruits. Here, by overexpressing SGR in non-illuminated Nicotiana benthamiana leaves, we demonstrated that SGR triggers the onset of chloroplast deterioration, resulting in the formation of orange leaf sectors containing plastids with carotenoid-bearing structures, although carotenoid production is not induced. Metabolite, microscopy, and transcriptome analyses suggested the onset of chloroplast senescence, indicating a possible transitional plastid stage in SGR-overexpressing regions. Overall, our work demonstrates the remarkable ability of plant plastids to adapt their ultrastructure to accommodate the precise metabolic composition of various developmental and environmental contexts.","PeriodicalId":20101,"journal":{"name":"Plant Physiology","volume":"34 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144237176","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Plant PhysiologyPub Date : 2025-06-06DOI: 10.1093/plphys/kiaf245
Ying Gao, Hanxiao Bian, Hanqing Wang, Jingyu Wang, Bingbing Ye, Chi Zhang, Min Xu, Yu Pan, Zhiping Deng, Zhengguo Li, Kunsong Chen, Bo Zhang
{"title":"The m6A reader SlYTH1 regulates flavor-related volatiles biosynthesis via affecting mRNA stability and translation in tomato fruit","authors":"Ying Gao, Hanxiao Bian, Hanqing Wang, Jingyu Wang, Bingbing Ye, Chi Zhang, Min Xu, Yu Pan, Zhiping Deng, Zhengguo Li, Kunsong Chen, Bo Zhang","doi":"10.1093/plphys/kiaf245","DOIUrl":"https://doi.org/10.1093/plphys/kiaf245","url":null,"abstract":"N 6-methyladenosine (m6A) is the most prevalent RNA epigenetic modification in eukaryotes, catalyzed by methyltransferases (writers), removed by demethylases (erasers), and recognized by binding proteins (readers). While previous studies have established the essential role of m6A homeostasis in regulating fruit ripening, the post-transcriptional mechanisms underlying m6A-mediated quality trait formation remain poorly understood. Following our recent discovery of a YT521B homology (YTH) domain-containing m6A reader gene, SlYTH2, as a translational repressor for the production of tomato (Solanum lycopersicum) aroma volatiles, we reveal here a distinct regulatory effect through knockout of SlYTH1, which specifically reduces flavor-related volatiles in tomato fruit without affecting the days from anthesis to fruit color break, ethylene production, or firmness. Notably, this finding contrasts with the role of SlYTH2, which negatively regulates fruit aroma, highlighting the opposing effects of SlYTH1 and SlYTH2 in modulating fruit aroma. Mechanistically, SlYTH1 binds to m6A-modified mRNA targets both in vitro and in vivo, performing dual roles in maintaining mRNA stability and promoting translation. Specifically, the loss of SlYTH1 function accelerated the decline in the transcript and protein levels of two key targets, SlBCAT1 and SlTNH1, which are essential for volatile biosynthesis. This study provides insights into the role of m6A modification in regulating fruit flavor quality during ripening. Furthermore, it identifies SlYTH1 as a potential genetic target for improving fruit flavor without altering the timing of ripening.","PeriodicalId":20101,"journal":{"name":"Plant Physiology","volume":"478 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144236989","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Plant PhysiologyPub Date : 2025-06-06DOI: 10.1093/plphys/kiaf227
João Antonio Siqueira, Auxiliadora O Martins, Thiago Wakin, Lucas Realto, Marcelle Ferreira-Silva, Julia Wakin, Daniel Gomes Coelho, Agustin Zsögön, Alisdair R Fernie, Adriano Nunes-Nesi, Wagner L Araújo
{"title":"Differential impact of dawn and dusk watering on tomato metabolism and biomass allocation","authors":"João Antonio Siqueira, Auxiliadora O Martins, Thiago Wakin, Lucas Realto, Marcelle Ferreira-Silva, Julia Wakin, Daniel Gomes Coelho, Agustin Zsögön, Alisdair R Fernie, Adriano Nunes-Nesi, Wagner L Araújo","doi":"10.1093/plphys/kiaf227","DOIUrl":"https://doi.org/10.1093/plphys/kiaf227","url":null,"abstract":"Water supply constraints limit crop yield across seasons and locations, restricting food production under diverse climate scenarios. Irrigation schedules that align with plant water demand at specific times of the day have been proposed to overcome limitations in the water supply. Watering crops in the morning has been associated with reductions in productivity, although the mechanisms underlying this phenomenon remain poorly understood. Here, we demonstrate that watering tomato (Solanum lycopersicum) at different times of the day alters the transcriptional patterns of genes controlling flowering induction. Dawn-watering (DAW) triggered a strong repression of the Single Flower Truss (SFT) gene, leading to metabolite accumulation and delayed development. Dusk-watered (DUW) plants showed increased fruit production compared to DAW-treated plants. Our findings highlight how metabolism and development in tomato are remodeled by the timing of watering, suggesting strategies to enhance tomato water-use efficiency (WUE) by incorporating time-specific watering practices in agriculture.","PeriodicalId":20101,"journal":{"name":"Plant Physiology","volume":"12 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144228628","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"CitSAR-mediated coordination of sucrose and citrate metabolism in citrus fruits","authors":"Shengchao Liu, Yinchun Li, Yijing Fan, Mengjie Xu, Ziyi Huang, Dengliang Wang, Chongde Sun, Shaojia Li","doi":"10.1093/plphys/kiaf228","DOIUrl":"https://doi.org/10.1093/plphys/kiaf228","url":null,"abstract":"Soluble sugars and organic acids are the primary determinants of flavor quality and consumer appeal in fruits. In citrus, sucrose and citric acid dominate the sugar and acid profiles, directly influencing sensory attributes and market preference. Here, we identified the sugar and acid regulator (CitSAR) through transcriptome analysis by investigating sugar and acid levels at the fruit development stage of two mandarin orange (Citrus reticulata Blanco) cultivars: ‘Ponkan’ (PK), and a bud sport mutant of PK (mPK) that exhibits a higher sugar and lower acid profile. Functional characterization revealed that CitSAR orchestrates a hierarchical transcriptional network governing sucrose and citrate metabolism, as demonstrated by overexpression assays in citrus callus and tomato. Mechanistic studies using dual-luciferase reporter assays and electrophoretic mobility shift assays (EMSA) confirmed that CitSAR binds directly to the GCC-box in the promoters of CitSPS4 and CitGAD4, activating their expression. Our findings corroborate the important role of CitSAR in modulating sucrose and citrate homeostasis and provide a molecular framework for enhancing citrus sensory quality.","PeriodicalId":20101,"journal":{"name":"Plant Physiology","volume":"5 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144228622","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}