Plant, Cell & Environment最新文献

{"title":"Integrating Transcriptome, Metabolome and Microbiome to Explore the Molecular Mechanism of Phenotypic Plasticity in P. rotata During Low-Altitude Domestication.","authors":"Xuemei Wu, Hongchuan Chen, Rong Ding, Guopeng Chen, Hongmei Jia, Shihong Zhong, Rui Gu","doi":"10.1111/pce.70138","DOIUrl":"https://doi.org/10.1111/pce.70138","url":null,"abstract":"<p><p>The endangered Tibetan herb Phlomoides rotata is threatened by overharvesting and slow natural regeneration. To support its sustainable utilisation, we investigated the mechanisms underlying its phenotypic plasticity during low-altitude adaptation using an integrated multi-omics approach. Specifically, rhizosphere soils and leaf tissues were collected from P. rotata cultivated at high-, mid-, and low altitudes for multi-omics analysis, including bacterial and fungal profiling, and phenotypic, transcriptomic, and metabolomic assessments. Altitude-dependent shifts were observed in microbial community composition. Functional profiling suggests that rhizosphere microbial communities of P. rotata at low altitude possess enhanced metabolic activity and nutrient cycling capacity. Procrustes analysis revealed strong concordance between potential microbial indicators and phenotypic traits (R² = 0.84, p = 0.002 for bacteria, R² = 0.82, p = 0.005 for fungi). Transcriptomic analysis identified 3336 and 9208 unigenes associated with phenotypic variation. GO enrichment revealed that low-altitude samples were dominated by growth-related functions, while high-altitude samples favoured defence responses. KEGG enrichment of hub genes supported this pattern, highlighting enhanced developmental and biosynthetic pathways at low altitudes and stress-regulatory processes at high altitudes. Metabolomic analysis identified 658 altitude-associated differential metabolites. KEGG enrichment showed zeatin biosynthesis was prominent at high altitudes, while butanoate, starch, and sucrose metabolism were enriched at low altitudes. Furthermore, random forest analysis of phenotype-associated metabolites revealed that phenylpropanoids and organic acids were characteristic of high-altitude samples, while organoheterocyclic compounds were more typical of low-altitude environments. Mantel test and PLS-SEM modelling jointly revealed that altitude-driven shifts in rhizosphere microbiome function regulate host gene expression and secondary metabolism, ultimately shaping phenotypic variation. This comprehensive research provides novel insights into the environmentally induced phenotypic plasticity of alpine medicinal plants during low-altitude adaptation and offers a deeper understanding of the key drivers of this process.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-08-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144937534","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":"WRKY Transcription Factors in Rice: Key Regulators Orchestrating Development and Stress Resilience.","authors":"Tongtong Li, Bin Li, Yuanyuan Wang, Jiayu Xu, Wanli Li, Zhong-Hua Chen, Wangshu Mou, Dawei Xue","doi":"10.1111/pce.70124","DOIUrl":"10.1111/pce.70124","url":null,"abstract":"<p><p>Rice (Oryza Sativa L.) productivity is critical for global food security, but it is increasingly vulnerable to environmental fluctuation and emerging pathogens and insects. WRKY is one of the largest plant transcription factors families, governing plant growth and stress adaptation as versatile regulators. However, a comprehensive review on rice WRKYs, especially incorporating recent findings, is still lacking. Here, we integrate current advances in the multifaceted roles of OsWRKYs, including regulating seed germination, vegetative growth, reproduction, and leaf senescence, as well as coordinating adaptive responses to various abiotic stresses (temperature, drought, salinity, heavy metals, nutrient imbalance) and biotic challenges (pathogens and insect herbivory). We detail how OsWRKY transcriptionally modulates target genes by binding to W-box elements involved in signaling of phytohormones (abscisic acid, gibberellin, salicylic acid, jasmonic acid and ethylene), reactive oxygen species homeostasis, and defense responses, thereby fine-tuning the trade-off between growth and defense. Additionally, we propose future research directions on how OsWRKYs prioritize responses under combined stresses and how their activity is regulated across multiple levels. The insights into these regulatory mechanisms lay a foundation for rational genetic engineering and genome editing of OsWRKYs to facilitate the development of rice varieties with enhanced yield and stress resilience.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-08-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144881805","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":"Time-Dependent Influence of Nanoparticulate Foliar Selenium on Wheat Photosynthesis and Selenium Biotransformation.","authors":"Marjana Yeasmin, Dane Lamb, Jacob K Netherton, Jiabao Yi, Wei Li, Donchen Qi, Ajayan Vinu","doi":"10.1111/pce.70133","DOIUrl":"10.1111/pce.70133","url":null,"abstract":"","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-08-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144870665","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":"Battle Beneath the Wall: Modulating Cell Wall-Associated Kinase (WAK) and WAK-Likes (WAKLs) to Cope With Biotic and Abiotic Stresses in Plants.","authors":"Yuying Tai, Menglin Li, Gong Chen, Miaomiao Zhou, Yuanyuan Fan, Mengyu Lei, Ruiheng Tang, Junjie Ye, Dexiao Li, Youning Wang","doi":"10.1111/pce.70126","DOIUrl":"10.1111/pce.70126","url":null,"abstract":"<p><p>Wall-associated kinases (WAKs) and WAK-likes proteins (WAKLs) comprise a unique receptor-like kinases subfamily mediating cell wall-cytoplasmic communication. Structurally defined by extracellular pectin-binding regions and intracellular kinase domains, they integrate developmental and environmental cues. This review summarises recent advances across plant species, highlighting WAK/WAKLs as dual regulators of growth and stress adaptations. They govern cell expansion, vascular differentiation, and resource allocation, influencing traits like grain size and leaf senescence. Under abiotic stress such as salt, drought, extreme temperatures, and metal toxicity, these proteins enhance resilience through ion homoeostasis regulation, cell wall remodelling, and antioxidant pathway activation. During biotic interactions, they recognise PAMPs/DAMPs, triggering immunity via chitin receptor interactions, MAMP cascades, and transcription factor networks while balancing growth-defence trade-offs. Their potential for practical application is evidenced by agronomically significant targets such as OsWAK74, which is linked to grain yield, and ZmWAK, associated with disease resistance. To effectively connect mechanistic insights with crop improvement, it is essential to systematically explore the functional divergence and signalling flexibility of WAKs/WAKLs across different species, aiming to develop crops that are resilient to climate challenges.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-08-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144870655","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":"Exogenous Melatonin Inhibits the Expression of GmABI5 and Enhances Drought Resistance in Fodder Soybean Through an ABA-Independent Pathway.","authors":"Xiashun Liu, Along Chen, Qiyun Wei, Chen Wang, Qianhan Zhao, Qinyi Wang, Xueling Zheng, Tiantian He, Jiayi Qi, Hang Yin, Yulong Lin, Xinying Han, Fuchun Xie, Yajun Chen","doi":"10.1111/pce.70114","DOIUrl":"10.1111/pce.70114","url":null,"abstract":"<p><p>Drought is a pivotal abiotic stress that hampers plant growth and development; however, melatonin has emerged as a crucial regulator in mitigating plant responses to such drought-induced stress. By subjecting the plants to drought conditions and applying exogenous melatonin, we found that melatonin significantly improves the drought tolerance of fodder soybean. Remarkably, both stomatal examination and hormone analysis point to a substantial reduction in the endogenous ABA levels following melatonin treatment. Transcriptome analysis revealed significant enrichment of differentially expressed genes in the ABA signalling pathway. The pivotal transcription factor GmABI5 was successfully identified and cloned, with the application of exogenous melatonin notably decreasing the expression of GmABI5. Furthermore, the OE-GmABI5 lines exhibited notably retarded growth, accompanied by a rise in ABA content and an upsurge in the expression of ABA-dependent genes. Contrarily, melatonin treatment led to a complete reversal of these traits in the OE-lines. This study provides new insights and methods for enhancing drought resistance in crops and offers a fresh perspective on the interrelationships between hormones in plants under drought stress.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-08-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144870659","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":"Cell-Specific Activation and Inhibition of Conserved PTI Genes by TMV in Susceptible Tobacco.","authors":"Hai He, Lifeng Xia, Zemian Lin, Hao Li, Muhammad Ali, Sha Luo, Qun Hu, Yu Zhang","doi":"10.1111/pce.70137","DOIUrl":"10.1111/pce.70137","url":null,"abstract":"<p><p>Viruses, as obligate intracellular pathogens, are typically introduced directly into the host cell cytoplasm. The complete spectrum of plant antiviral pattern-triggered immunity (PTI) remains poorly understood. In this study, we present multi-omics sequencing data representing the response of susceptible tobacco to virus infection. We found that conserved PTI genes, particularly those previously reported to interact with bacteria or fungi, are initially activated but subsequently suppressed during virus infection. Our integrative analysis of bulk RNA-seq and ATAC-seq identified that PTI genes exhibit high chromatin accessibility following tobacco mosaic virus (TMV) infection. Furthermore, we characterized transcriptomic changes using single-cell RNA-seq in tobacco leaves during TMV infection and identified major cell types. We determined the cell type-specific responses triggered by viral dsRNA activation and/or suppression of RNA silencing pathways in susceptible tobacco hosts. These responses were crucial for virus in facilitating viral accumulation within the host plant. Overall, our study on the interactions between susceptible tobacco and TMV provides data resources and insights into improving crop disease resistance through novel breeding strategies that target susceptible genes.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-08-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144870656","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":"Low-Carbon Agricultural Innovations Address the Challenge of Climate Change.","authors":"Pengliang Wei, Shiquan Li, Huayi Hu, Hao Du","doi":"10.1111/pce.70130","DOIUrl":"https://doi.org/10.1111/pce.70130","url":null,"abstract":"<p><p>Climate change poses significant threats to global agriculture, compromising crop yields, livestock productivity and food security. Low-carbon agriculture (LCA) offers a sustainable pathway to reduce greenhouse gas emissions while enhancing carbon sequestration in agroecosystems. This review synthesizes LCA principles and practices, focusing on key strategies such as improving nitrogen use efficiency, optimizing water management, adopting biopesticides and leveraging artificial intelligence for resource optimization. Beyond environmental benefits, LCA supports climate mitigation, bolsters ecosystem services and fosters economic opportunities through carbon markets and sustainable value chains. However, widespread adoption requires coordinated policy frameworks, technological innovation and interdisciplinary collaboration among scientists, farmers and policymakers. We emphasize the critical role of LCA in building agricultural resilience and ensuring sustainability in a changing climate.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-08-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144870660","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":"A Comprehensive Physiological, Molecular, and Multi-Omics Analysis Reveal Distinct Cold Stress Response Strategies in Glycine max Cultivars.","authors":"Dinh Nhan Lai, Yun Zhou","doi":"10.1111/pce.70132","DOIUrl":"https://doi.org/10.1111/pce.70132","url":null,"abstract":"","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-08-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144870653","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":"Agricultural Microplastics Pollution: From Hidden Threats to Global Food Security Towards Sustainable Strategies.","authors":"Xinwei Wang, Hongyang Wu","doi":"10.1111/pce.70115","DOIUrl":"https://doi.org/10.1111/pce.70115","url":null,"abstract":"","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-08-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144870654","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":"Multivariate Analysis of Maize Varieties: Roles of Ionomic Shifts, Antioxidant Defense, and Chloroplast Structural Integrity in Arsenic Stress Tolerance.","authors":"Muhammad Ali Shah, Teng Yan Chen, Rayyan Khan, Haseeb Ahmad, Kashif Khan, Shahid Ali, Ju Zhi Lv, Hong Yang, Xun Bo Zhou","doi":"10.1111/pce.70125","DOIUrl":"https://doi.org/10.1111/pce.70125","url":null,"abstract":"<p><p>Arsenic stress poses a significant threat to maize (Zea mays L.) production by disrupting plant growth and physiological functions. This study employed multivariate analysis to identify arsenic-tolerant maize varieties, evaluating growth parameters such as shoot fresh weight, dry weight, plant height, chlorophyll content, and arsenic accumulation across 20 maize varieties exposed to 50 mg kg^-1. Significant variation in these indices enabled effective screening of arsenic tolerance. Cluster analysis based on D values classified GD562 and GD907 as highly tolerant, while GD911 and GD239 exhibited high sensitivity. GD562 exhibited enhanced tolerance by retaining calcium, zinc, iron, and sulphur in the roots, while redistributing nitrogen, phosphorus, potassium, and magnesium to the shoots, demonstrating superior nutrient management compared to the sensitive variety GD911. Additionally, GD562 showed elevated enzymatic antioxidant capacity (superoxide dismutase, peroxidase and glutathione reductase) at both the enzyme and gene expression levels, which alleviated oxidative damage by modulating reactive oxygen species. Additionally, enhanced soluble sugar accumulation contributed significantly to osmotic adjustment, thereby preserving cellular integrity under arsenic stress. Transmission electron microscopy analysis showed GD562 retained intact chloroplasts, thick cell walls, and stable vacuoles, highlighting its strong structural defense against arsenic toxicity, unlike the damaged cells of GD911. Collectively, these findings offer a holistic insight into the physiological, biochemical, ionomic and cellular mechanisms that underpin arsenic tolerance in maize, highlighting GD562's superior adaptive strategy under stress. This study emphasizes the importance of integrated analytical approaches for identifying arsenic resilient varieties, providing valuable insight for breeding programs and strategies to improving crop performance under heavy metal stress.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-08-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144870661","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}