生命科学最新文献

{"title":"Synthetic allopolyploidy unveils hybridization-driven transcriptional reprogramming underlying thermal adaptation in Cucumis","authors":"Yun Pei,&nbsp;Xiaokun Zhao,&nbsp;Weixuan Du,&nbsp;Weiping Diao,&nbsp;Wanping Zhang,&nbsp;Biao Xiong,&nbsp;Guillaume P. Ramstein,&nbsp;Carl-Otto Ottosen,&nbsp;Chunyan Cheng,&nbsp;Qinzheng Zhao,&nbsp;Ji Li,&nbsp;Qunfeng Lou,&nbsp;Jinfeng Chen,&nbsp;Xiaqing Yu","doi":"10.1111/tpj.70507","DOIUrl":"10.1111/tpj.70507","url":null,"abstract":"<div>\u0000 \u0000 <p>Both heterosis (hybrid vigor) resulting from hybridization and genetic plasticity conferred by whole-genome duplication (WGD) are recognized as drivers of evolutionary success and ecological adaptation in plants. Allopolyploids, which combine both hybridization and WGD, are widespread in both natural and agricultural settings and often exhibit superior performance. However, the relative contributions of these two elements to the success of allopolyploids remain poorly understood. Here, we employed an experimentally reconstructed allotetraploid <i>Cucumis</i> species (<i>C</i>. × <i>hytivus</i>, 2n = 4<i>x</i> = 38) and its diploid interspecific hybrid progenitor (allodiploid, 2n = 2<i>x</i> = 19) to decouple and investigate the distinct and combined contributions of hybridization and whole-genome doubling to immediate genetic and phenotypic consequences of allopolyploid formation under environmental stress. Both <i>C</i>. × <i>hytivus</i> and the allodiploid exhibited superior heat tolerance compared with the parental species with significantly higher semi-lethal temperature and enhanced physiological acclimation capacity. While the allodiploid and allotetraploid retain transcriptomic features where differences persist (e.g., WGCNA modules), comparative analysis of the 15,680 homoeologous gene pairs in the allodiploid and allotetraploid under heat stress (45°C) versus control conditions (28°C) revealed conserved heat-responsive transcriptional plasticity, suggesting that enhanced thermotolerance in <i>C</i>. × <i>hytivus</i> is presented as consequences arising dominantly after interspecific hybridization. This study provides mechanistic insights into allopolyploid adaptation through experimental reconstruction of allopolyploid genomes, demonstrating that hybridization initiates key transcriptional and physiological advantages under stress, subsequent WGD stabilizes these adaptations and contributes to the full phenotypic realization. This work decouples the roles of interspecific hybridization and WGD and proposes a synthetic biology approach for developing climate-resilient crops.</p>\u0000 </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"124 1","pages":""},"PeriodicalIF":5.7,"publicationDate":"2025-10-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145243411","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":"Outside Front Cover Image","authors":"Chenyang Hao,&nbsp;Lixia Zhu,&nbsp;Xiuxiu Li,&nbsp;Longxin Wang,&nbsp;Jince Song,&nbsp;Xiaoyu Zhao,&nbsp;Xiaochun Qin","doi":"10.1111/pce.70236","DOIUrl":"https://doi.org/10.1111/pce.70236","url":null,"abstract":"<p>The cover image is based on the article <i>Utilising Far-Red Light: Photosynthetic and Physiological Adaptations in Shade-Tolerant Fittonia albivenis</i> by Chenyang Hao et al., https://doi.org/10.1111/pce.70113.\u0000\u0000 <figure>\u0000 <div><picture>\u0000 <source></source></picture><p></p>\u0000 </div>\u0000 </figure></p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":"48 11","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-10-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/pce.70236","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145230512","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Arabidopsis Heterotrimeric G Beta Variants Shape Plant Development and Modulate Responses to Endoplasmic Reticulum Stress and Salt Stress.","authors":"Yueh Cho","doi":"10.1111/pce.70220","DOIUrl":"https://doi.org/10.1111/pce.70220","url":null,"abstract":"<p><p>Heterotrimeric G-protein signaling underpins plant growth and stress adaptation, yet the full functional scope of the sole Arabidopsis Gβ subunit, AGB1, has remained unclear. We show that alternative splicing generates four isoforms with nonredundant roles. Full-length AGB1.1 resides at the plasma membrane and endoplasmic reticulum (ER), forms high-affinity dimers with all three Gγ subunits (AGG1-3) and completely rescues the developmental and abiotic-stress defects of agb1 null plants. AGB1.4, lacking part of the N-terminal coiled-coil, retains strong Gγ binding and affords partial rescue. By contrast, AGB1.2 and AGB1.3 show weak or transient Gγ interactions, reflecting missing coiled-coil/WD40 elements, and do not restore chronic-stress phenotypes. Nevertheless, each truncated variant confers niche advantages: AGB1.2 is rapidly induced by tunicamycin, accumulates in nuclei and mitigates early ER damage, whereas AGB1.3 associates with chloroplast margins and improves survival under moderate or delayed salinity stress. Collectively, the four isoforms expand potential Gβγ combinations from three to twelve, thereby diversifying plant G-protein outputs without gene family expansion. These findings provide a mechanistic framework whereby alternative splicing, rather than gene duplication, endows plants with flexible G-protein signaling modules to balance development and environmental resilience.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145237469","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":"Seed-Borne Spirosoma pollinicola in Commercial Hazelnuts: A Global Survey of Microbial Presence and Allergen Diversity.","authors":"Barbara Karpinska, Alessandro Fiocchi, Marta Biolatti, Ileana Manera, Christine Helen Foyer","doi":"10.1111/pce.70225","DOIUrl":"https://doi.org/10.1111/pce.70225","url":null,"abstract":"<p><p>Serious allergic reactions are increasing globally. Within this context, fatal anaphylaxis from hazelnut allergies is a critical public health concern. Hazelnuts, which are a common ingredient of many foods, contain many proteins that cause severe allergic reactions. Hazelnuts from all of the major commercial growing locations worldwide contained Spirosoma pollinicola sp. proteins. This endotoxin-producing bacterium is linked to the allergenicity of hazelnut pollen. We were unable to remove the contamination by S. pollinicola proteins, showing that this bacterium is a seed endosymbiont. Comparative proteomics revealed significant variations in the allergenic protein composition of nuts that correlated with patient immune responses. Hazelnuts from provenances 17 and 18 exhibited lower levels of key antigens, particularly Cor a 9 and Cor a 14, highlighting their potential as candidates for genetic modification to mitigate allergenicity. Moreover, Spirosoma protein persistence may influence hazelnut allergenicity and the patient's immune response.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145230920","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":"BolMYB28-BolMAM1 Confers Salt and Drought Tolerance via Regulating Specific Aliphatic Glucosinolate Biosynthesis and Affecting ABA Accumulation in Broccoli.","authors":"Lixia He, Mengwei Xi, Jiaying Qu, Yu Li, Chengrong Yun, Xu Zhang, Hui Li, Hanmin Jiang, Chunguo Wang","doi":"10.1111/pce.70228","DOIUrl":"https://doi.org/10.1111/pce.70228","url":null,"abstract":"<p><p>Glucosinolates (GSLs) are secondary metabolites popularly existing in Brassicaceae. However, the role and regulation of GSLs in environmental stress response remain ambiguous. Here, Methylthioalkylmalate synthase 1 (BolMAM1), a GSL biosynthesis-associated gene, was identified in broccoli. The overexpression of BolMAM1 enhanced both salt and drought tolerance in broccoli, along with an increase in aliphatic GSLs, such as 2(R)-hydroxy-3-butenyl GSL (progoitrin). Progoitrin could induce ABA accumulation in vitro. Consistently, ABA homoeostasis was modulated to accumulate more ABA in OEX-BolMAM1 transgenic broccoli. Moreover, sulforaphane (SFN), one of the hydrolysates of aliphatic GSLs, also exhibited accelerated accumulation in OEX-BolMAM1 transgenic broccoli. External application of SFN could rapidly induce stomatal closure. Furthermore, BolMYB28 was demonstrated to directly bind to the promoter of BolMAM1 and activate its transcription. These results indicated that BolMYB28-BolMAM1 confers tolerance to salt and drought stresses mainly by accelerating the biosynthesis of certain specific aliphatic GSLs. Progoitrin is a newly reported GSL positively regulating ABA accumulation. SFN may act as a signaling molecule to regulate stomatal behavior. These findings reveal the role of BolMYB28-BolMAM1 in abiotic stress response via regulating aliphatic GSL biosynthesis, and suggest the applications of progoitrin and SFN as natural defence factors to resist abiotic stresses in plants.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145237426","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":"Jasmonate primes plant responses to extracellular ATP","authors":"Jeremy B. Jewell,&nbsp;Ashleigh S. Carlton,&nbsp;Jordan P. Tolley,&nbsp;Laura E. Bartley,&nbsp;Kiwamu Tanaka","doi":"10.1111/tpj.70514","DOIUrl":"10.1111/tpj.70514","url":null,"abstract":"<p>Extracellular ATP (eATP) signaling in <i>Arabidopsis thaliana</i> is mediated by the purinoceptor P2K1. Previous studies have clarified that the downstream transcriptional responses to eATP involve jasmonate (JA)-based signaling components such as the JA receptor (COI1) and JA-responsive bHLH transcription factors (MYCs). However, the specific contributions of JA itself on eATP signaling are unexplored. Here, we report that JA primes plant responses to eATP through P2K1. Our findings show that JA treatment significantly upregulates <i>P2K1</i> transcription, corroborating our observation that JA facilitates eATP-induced cytosolic calcium elevation and transcriptional reprogramming in a JA signaling-dependent manner. Additionally, we find that salicylic acid pre-treatment represses eATP-induced plant response. These results suggest that JA accumulation during biotic or abiotic stresses potentiates eATP signaling, enabling plants to better cope with subsequent stress events.</p>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"124 1","pages":""},"PeriodicalIF":5.7,"publicationDate":"2025-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12498120/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145230959","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Construction of a core germplasm collection of Fraxinus mandshurica based on phenotypic traits and genome-wide simple sequence repeat (SSR) markers","authors":"Shuai Yang,&nbsp;Xinying Jia,&nbsp;Siyu Sun,&nbsp;Qiuju Jing,&nbsp;Jialin Yan,&nbsp;Honglu Jiang,&nbsp;Yaguang Zhan,&nbsp;Ying Xin,&nbsp;Fansuo Zeng","doi":"10.1007/s00468-025-02682-2","DOIUrl":"10.1007/s00468-025-02682-2","url":null,"abstract":"<div><h3>Key message</h3><p><i>Fraxinus</i> <i>mandshurica</i> genetic diversity is assessed using phenotypic and SSR markers, leading to the establishment of a core germplasm collection and offering insights for future breeding and conservation.</p><h3>Abstract</h3><p><i>Fraxinus mandshurica</i> is a principal tree for afforestation and timber production, providing considerable ecological and economic value. To assess <i>Fraxinus mandshurica</i> clonal genetic diversity, 217 germplasm samples were collected from Heilongjiang, Jilin, and Liaoning provinces. First, the coefficient variation for the 11 phenotypic traits ranged from 16.44% to 54.92%. A 15% sampling ratio was applied to select core germplasm, resulting in 34 samples with no significant trait differences from the original collection. Furthermore, a total of 95,437 SSR loci were identified based on the whole genome, with an average distance of 8.174 kilobases per locus. Seven pairs of highly polymorphic SSR primers were selected, with an average polymorphism information content of 98.58%. Subsequently, genetic analysis of 217 clones using four SSR primer pairs identified 86 loci, classified into three subgroups, and established a core germplasm collection of 43 samples. Finally, a primary core germplasm bank of 66 clones was established by combining both phenotypic and SSR molecular markers. Genetic analysis indicated a negative genetic gain for Na, while PIC showed a significant improvement of 10.55%. Phenotypic analysis showed notable increases in the length-to-width ratio of the second-order compound leaves and the ground diameter, with improvements of 2.01% and 1.72%, respectively. Overall, the core germplasm collection effectively represents the genetic diversity of the original collection. This study provides theoretical references for further investigating genetic diversity, laying the foundation for future research on the genetic evaluation and utilization of <i>Fraxinus mandshurica</i> germplasm.</p></div>","PeriodicalId":805,"journal":{"name":"Trees","volume":"39 6","pages":""},"PeriodicalIF":2.1,"publicationDate":"2025-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145230390","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Integrating Load-Cell Lysimetry and Machine Learning for Prediction of Daily Plant Transpiration.","authors":"Shani Friedman, Nir Averbuch, Tifferet Nevo, Menachem Moshelion","doi":"10.1111/pce.70222","DOIUrl":"https://doi.org/10.1111/pce.70222","url":null,"abstract":"<p><p>We conducted research to predict daily transpiration in crops by utilising a combination of machine learning (ML) models combined with extensive transpiration data from gravimetric load cells and ambient sensors. Our aim was to improve the accuracy of transpiration estimates. Data were collected from hundreds of plant specimens growing in two semi-controlled greenhouses over 7 years, automatically measuring key physiological traits (serving as our ground truth data) and meteorological variables with high temporal resolution and accuracy. We trained Decision Tree, Random Forest, XGBoost and Neural Network models on this data set to predict daily transpiration. The Random Forest and XGBoost models demonstrated high accuracy in predicting the whole plant transpiration, with R² values of 0.89 on the test set (cross-validation) and R² = 0.82 on holdout experiments. Ambient temperature was identified as the most influential environmental factor affecting transpiration. Our results emphasise the potential of ML for precise water management in agriculture, and simplify some of the complex and dynamic environmental forces that shape transpiration.</p>","PeriodicalId":222,"journal":{"name":"Plant, Cell & Environment","volume":" ","pages":""},"PeriodicalIF":6.3,"publicationDate":"2025-10-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145230967","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":"Multi-omics analysis reveals the potential role of MbDDC in tissue-specific alkaloid biosynthesis and distribution in Meconopsis betonicifolia","authors":"Shi Liang,&nbsp;Weiqinlan Wang,&nbsp;Chengxin Tan,&nbsp;Lin Zhou,&nbsp;Zhi Ou,&nbsp;Yan Qu","doi":"10.1111/tpj.70515","DOIUrl":"10.1111/tpj.70515","url":null,"abstract":"<div>\u0000 \u0000 <p>Plants of the <i>Meconopsis</i> (<i>Meconopsis</i> spp.), endemic to the Qinghai-Tibet Plateau, are prized in traditional Tibetan medicinal herbs for their bioactive alkaloids, particularly their antispasmodic and analgesic properties. To elucidate the mechanisms underlying tissue-specific alkaloid accumulation in <i>Meconopsis betonicifolia</i>, we integrated metabolomic and transcriptomic analyses across four organs (roots, stems, leaves, and flowers) and functionally characterized the rate-limiting enzyme MbDDC-3. Our results demonstrate that roots are the primary site of alkaloid accumulation, with codeinone and salutaridine identified as key intermediates in the isoquinoline pathway. Eleven differentially expressed genes (DEGs) were strongly correlated with these metabolites. Heterologous overexpression of <i>MbDDC-3</i> in tobacco (<i>Nicotiana tabacum</i>) significantly increased total alkaloid by 274% in roots (<i>P</i> &lt; 0.05), with (S)-cis-<i>N</i>-methylstylopine and its precursors (tyramine/dopamine) significantly enriched. Notably, MbDDC-3 protein contains a non-classical nuclear localization signal (NLS)—RLKPAAIFNRKLG—located near its C-terminal region and exhibits key residue substitutions compared to lowland species, suggesting adaptive evolution under high-altitude stress. Collectively, this study reveals how <i>M. betonicifolia</i> optimizes alkaloid distribution for ecological fitness, while offering a genetic tool for metabolic engineering of medicinal alkaloids.</p>\u0000 </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"124 1","pages":""},"PeriodicalIF":5.7,"publicationDate":"2025-10-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145231110","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":"Enzymatic depletion of transposable elements in sequencing libraries and its application for genotyping multiplexed CRISPR-edited plants","authors":"Geoffrey Thomson,&nbsp;Benoit Mermaz,&nbsp;Cintia H. D. Sagawa,&nbsp;Chan-Yi Ivy Lin,&nbsp;Megan Tachev,&nbsp;Valentin Joly,&nbsp;Vivian F. Irish,&nbsp;Yannick Jacob","doi":"10.1111/tpj.70501","DOIUrl":"https://doi.org/10.1111/tpj.70501","url":null,"abstract":"<div>\u0000 \u0000 <p>Whole-genome sequencing has become a common strategy to genotype individual plants of interest. Although a limited number of genomic regions usually need to be surveyed with this strategy, excess sequencing information is almost always generated at an appreciable financial cost. Repetitive sequences (e.g., transposons), which can account for more than 80% of the genome of some plants, are often not required in these genotyping projects. Therefore, strategies that enrich DNA coding for the protein-coding genes prior to sequencing can lower the cost to obtain sufficient sequence information. Here, we present the development and application of methylation-sensitive reduced representation sequencing (MsRR-Seq), which relies on the cytosine methylation-sensitive restriction enzyme MspJI to deplete constitutive heterochromatic DNA before library construction. By applying MsRR-Seq to citrus and maize, we show that protein-coding genes can be enriched in sequencing datasets. We then describe the application of MsRR-Seq to facilitate the identification of complex mutants from populations of citrus plants resulting from multiplex CRISPR/Cas9 editing of four genes. Overall, this work demonstrates an easy and low-cost method to enrich non-repetitive DNA in high-throughput sequencing libraries, an approach that is especially useful for large plant genomes with an excessively high proportion of methylated repetitive sequences.</p>\u0000 </div>","PeriodicalId":233,"journal":{"name":"The Plant Journal","volume":"124 1","pages":""},"PeriodicalIF":5.7,"publicationDate":"2025-10-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145224380","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}