Trends in Plant SciencePub Date : 2025-10-01Epub Date: 2025-06-04DOI: 10.1016/j.tplants.2025.05.014
Alana Cavalcante da Silva, Érica Mangaravite, Wagner L Araújo, Thomas C R Williams
{"title":"Illuminating guard cell metabolism with systems models.","authors":"Alana Cavalcante da Silva, Érica Mangaravite, Wagner L Araújo, Thomas C R Williams","doi":"10.1016/j.tplants.2025.05.014","DOIUrl":"10.1016/j.tplants.2025.05.014","url":null,"abstract":"<p><p>Guard cell metabolism is crucial in regulating stomatal dynamics, operating in response to multiple environmental signals. A recent study by Sprent et al. employed metabolic modeling to obtain detailed insights into guard cell energetics and osmolyte accumulation, offering a comprehensive perspective on the potential metabolic states of these specialized cells.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"1066-1068"},"PeriodicalIF":20.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144235334","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}
Trends in Plant SciencePub Date : 2025-10-01Epub Date: 2025-03-27DOI: 10.1016/j.tplants.2025.03.001
Ali Raza, Yiran Li, Channapatna S Prakash, Zhangli Hu
{"title":"Panomics to manage combined abiotic stresses in plants.","authors":"Ali Raza, Yiran Li, Channapatna S Prakash, Zhangli Hu","doi":"10.1016/j.tplants.2025.03.001","DOIUrl":"10.1016/j.tplants.2025.03.001","url":null,"abstract":"<p><p>Climate change-driven combined abiotic stresses threaten crop health and productivity. We propose leveraging panomics and advanced breeding tools to get insights into how plants manage combined abiotic stresses. By identifying novel molecular targets and pathways, we can fast-track designing stress-smart future crops, advancing sustainable agriculture in a changing climate.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"1079-1084"},"PeriodicalIF":20.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143731910","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}
Trends in Plant SciencePub Date : 2025-10-01Epub Date: 2025-06-16DOI: 10.1016/j.tplants.2025.05.013
Marek Marzec, Philip B Brewer
{"title":"Culture tames the unruly strigolactones.","authors":"Marek Marzec, Philip B Brewer","doi":"10.1016/j.tplants.2025.05.013","DOIUrl":"10.1016/j.tplants.2025.05.013","url":null,"abstract":"<p><p>In a recent study, Zhou et al. optimized microbial consortium biosynthesis of strigolactone (SL), producing milligram levels of hormone. This groundbreaking achievement allowed the dissection of specific pathways implicated in shoot branching inhibition, along with likely routes of evolution, thus facilitating the discovery of specific SLs involved in traits important for crop improvement.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"1072-1074"},"PeriodicalIF":20.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144317973","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}
Cyril Pommier, Isabelle Alic, Llorenç Cabrera-Bosquet, Xavier Draye, Pascal Neveu, Jochen C Reif, Kelly R Robbins, Pawel Krajewski, François Tardieu
{"title":"Reassessing data management in increasingly complex phenotypic datasets.","authors":"Cyril Pommier, Isabelle Alic, Llorenç Cabrera-Bosquet, Xavier Draye, Pascal Neveu, Jochen C Reif, Kelly R Robbins, Pawel Krajewski, François Tardieu","doi":"10.1016/j.tplants.2025.09.001","DOIUrl":"https://doi.org/10.1016/j.tplants.2025.09.001","url":null,"abstract":"<p><p>Phenotypic datasets are increasingly rich and heterogeneous, with images, time courses, manual measurements, processed variables, and metadata. The management of such datasets navigates between partly incompatible objectives: (i) facilitate data analysis by extracting, organizing, and storing relevant variables; and (ii) allow reuse of raw, synthesized, and computed data (FAIR principles). For the first objective, 'dedicated datasets' can be extracted from raw information and tailored for the user's data analysis, but they result in a massive loss of information. We advocate that, for the second objective, 'sensu stricto phenomic datasets', upstream of dedicated datasets, should organize data without loss of information with data-science tools, in a 'theory-agnostic' way. They allow different users to build their own 'dedicated datasets' according to planned data analysis.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":""},"PeriodicalIF":20.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145213776","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":"Harnessing transposable elements for plant functional genomics and genome engineering.","authors":"Xiao-Yuan Tao, Shou-Li Feng, Lu Yuan, Yan-Jun Li, Xin-Jia Li, Xue-Ying Guan, Zhong-Hua Chen, Sheng-Chun Xu","doi":"10.1016/j.tplants.2025.03.007","DOIUrl":"10.1016/j.tplants.2025.03.007","url":null,"abstract":"<p><p>Transposable elements (TEs) constitute a large portion of many plant genomes and play important roles in regulating gene expression and in driving genome evolution and crop domestication. Despite advances in understanding the functions and mechanisms of TEs, a comprehensive review of their integrated knowledge and cutting-edge biotechnological applications of TEs is still needed. We provide a thorough overview that connects discoveries, mechanisms, and technologies associated with plant TEs. We discuss the identification and function of TEs driven by functional genomics, epigenetic regulation of TEs, and utilization of active TEs in plant functional genomics and genome engineering. In summary, expanding the knowledge and application of TEs will be beneficial to crop breeding and plant synthetic biology in the future.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"1130-1146"},"PeriodicalIF":20.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144014468","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}
Trends in Plant SciencePub Date : 2025-10-01Epub Date: 2025-04-26DOI: 10.1016/j.tplants.2025.03.009
Justin B Nichol, Lorena S Yeung, Mark A Bernards, Marcus A Samuel
{"title":"Establishing a suberin tool kit for determining suberization within classical and 'orphan' tissues.","authors":"Justin B Nichol, Lorena S Yeung, Mark A Bernards, Marcus A Samuel","doi":"10.1016/j.tplants.2025.03.009","DOIUrl":"10.1016/j.tplants.2025.03.009","url":null,"abstract":"<p><p>Suberin is a complex biopolymer found in land plants that serves as a natural barrier, regulating water and nutrient uptake while also providing defense against invading pathogens. Structurally, suberin is composed of a poly(phenolic) domain and a poly(aliphatic) domain. The deposition of suberin can be categorized into two types: (i) developmentally controlled deposition, and (ii) induced deposition. Here, we review the history and nature of suberin research and offer researchers a comprehensive toolkit for identifying suberized tissues through chemical, histochemical, and gene analysis. We further discuss developmental (e.g., bundle and mestome sheath cells, seed coat) and induced (e.g., root plasticity, wound-induced) suberization, with an emphasis on lesser-known or 'orphan' tissues.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"1147-1163"},"PeriodicalIF":20.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144048217","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}
Trends in Plant SciencePub Date : 2025-10-01Epub Date: 2025-06-03DOI: 10.1016/j.tplants.2025.05.001
Ahmed Elhady, Linah Alghanmi, Arsheed H Sheikh, Maged M Saad, Heribert Hirt
{"title":"Coexistence ecology of pathogen-inhibiting microbes in the phytobiome.","authors":"Ahmed Elhady, Linah Alghanmi, Arsheed H Sheikh, Maged M Saad, Heribert Hirt","doi":"10.1016/j.tplants.2025.05.001","DOIUrl":"10.1016/j.tplants.2025.05.001","url":null,"abstract":"<p><p>Certain microbes have considerable potential as biocontrol agents against various pathogens, but they coexist with other microbial species in complex networks of interactions that influence their function in a host-dependent manner. These interactions and underlying mechanisms are still largely unknown. In this review we focus on Pseudomonas, a versatile genus of bacteria with adaptable physiological and metabolic traits, functioning as both symbionts and pathogens. We review the direct antagonism pathways Pseudomonas uses to inhibit different pathotypes and its role in indirectly inducing systemic defense responses in plants. We provide insights into bacterial coexistence and interactions in host plant-microbe and microbe-microbe relationships, considering pairwise and community dynamics. Understanding these interactions will help optimize synthetic communities and improve practices for sustainable agriculture.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"1164-1176"},"PeriodicalIF":20.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144226808","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}
Trends in Plant SciencePub Date : 2025-10-01Epub Date: 2025-04-15DOI: 10.1016/j.tplants.2025.03.014
Minxiang Yu, Jie Wu, Cuihuan Zhao, Jin-Long Qiu
{"title":"Exploring plant protein functions through structure-based clustering.","authors":"Minxiang Yu, Jie Wu, Cuihuan Zhao, Jin-Long Qiu","doi":"10.1016/j.tplants.2025.03.014","DOIUrl":"10.1016/j.tplants.2025.03.014","url":null,"abstract":"<p><p>The upsurge in new plant protein sequences has far outpaced experimental functional characterization efforts. Prediction of protein function based on sequence homology often falls short when dealing with proteins that have low sequence similarity. Artificial intelligence (AI) programs, such as AlphaFold, have transformed computational protein structure prediction with remarkable accuracy. By leveraging the availability of predicted structures for nearly all protein sequences, clustering proteins based on their similarity in structural features has become a powerful tool for function annotation and discovery. Structure-based protein clustering enables the identification of distant evolutionary relationships and novel protein families, and offers an effective strategy for exploring plant protein functions, bridging the gap between sequence data and function annotation while also assisting in protein design.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"1111-1118"},"PeriodicalIF":20.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144024865","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}
Trends in Plant SciencePub Date : 2025-10-01Epub Date: 2025-04-29DOI: 10.1016/j.tplants.2025.04.006
Doni Thingujam, Zhengzhi Tan, Yiqing Wang, Karolina M Pajerowska-Mukhtar, M Shahid Mukhtar
{"title":"PRIMER cells: immune hotspots in plants.","authors":"Doni Thingujam, Zhengzhi Tan, Yiqing Wang, Karolina M Pajerowska-Mukhtar, M Shahid Mukhtar","doi":"10.1016/j.tplants.2025.04.006","DOIUrl":"10.1016/j.tplants.2025.04.006","url":null,"abstract":"<p><p>Advances in single-cell and spatial biology have transformed the study of plant immunity, revealing distinct immune cell states such as primary immune responder (PRIMER) cells and offering a deeper understanding of defense mechanisms. These insights offer opportunities for the development of advanced strategies for crop protection and disease resistance.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"1075-1078"},"PeriodicalIF":20.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144028169","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}
Trends in Plant SciencePub Date : 2025-10-01Epub Date: 2025-06-10DOI: 10.1016/j.tplants.2025.05.012
Muhammad Ishfaq, Noman Shakoor, Matthias C Rillig, Christoph-Martin Geilfus
{"title":"Airborne microplastics in leaves and food safety risks.","authors":"Muhammad Ishfaq, Noman Shakoor, Matthias C Rillig, Christoph-Martin Geilfus","doi":"10.1016/j.tplants.2025.05.012","DOIUrl":"10.1016/j.tplants.2025.05.012","url":null,"abstract":"<p><p>Global plastic production has surged. Li et al. provide evidence of an important aspect of terrestrial plastic pollution, highlighting leaf absorption of airborne plastics as a major route into plants. Their work underscores the need for urgent action to reduce plastic emissions and re-evaluate agricultural and food safety frameworks.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"1063-1065"},"PeriodicalIF":20.8,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144276007","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}