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Unlocking the genetic blueprint of bamboo for climate adaption. 解开竹子适应气候的基因蓝图。
IF 17.3 1区 生物学
Trends in Plant Science Pub Date : 2025-07-01 Epub Date: 2025-03-03 DOI: 10.1016/j.tplants.2025.02.007
Nannan Wang, Wenjia Wang, Qiang Zhu
{"title":"Unlocking the genetic blueprint of bamboo for climate adaption.","authors":"Nannan Wang, Wenjia Wang, Qiang Zhu","doi":"10.1016/j.tplants.2025.02.007","DOIUrl":"10.1016/j.tplants.2025.02.007","url":null,"abstract":"<p><p>In a recent study, Hou et al. developed a high-resolution, haplotype-based pangenome for moso bamboo (Phyllostachys edulis), revealing significant genetic diversity and over 1000 climate-associated variants. Their findings highlight adaptive mechanisms for the ecological resilience of bamboo, providing crucial insights for climate-resilient breeding and conservation to ensure the long-term ecological and economic benefits of moso bamboo amid climate change.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"693-695"},"PeriodicalIF":17.3,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143558181","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}
引用次数: 0
The plastid-encoded RNA polymerase of plant chloroplasts. 植物叶绿体的质体编码RNA聚合酶。
IF 17.3 1区 生物学
Trends in Plant Science Pub Date : 2025-07-01 Epub Date: 2025-02-25 DOI: 10.1016/j.tplants.2025.01.010
Frederik M Ahrens, Paula F V do Prado, Hauke S Hillen, Thomas Pfannschmidt
{"title":"The plastid-encoded RNA polymerase of plant chloroplasts.","authors":"Frederik M Ahrens, Paula F V do Prado, Hauke S Hillen, Thomas Pfannschmidt","doi":"10.1016/j.tplants.2025.01.010","DOIUrl":"10.1016/j.tplants.2025.01.010","url":null,"abstract":"<p><p>Plant chloroplasts possess a dedicated genome (plastome) and a prokaryotic-type plastid-encoded RNA polymerase (PEP) that mediates its expression. PEP is composed of five bacteria-like core proteins and 16 nucleus-encoded PEP-associated proteins (PAPs). These are essential for PEP-driven transcription and chloroplast biogenesis, but their functions and structural arrangement in the PEP complex remained largely enigmatic. Recently, four independently determined cryogenic-electron microscopy (cryo-EM) structures of purified plant PEP complexes reported features of the prokaryotic core and the arrangement of PAPs around it, identified potential functional domains and cofactors, and described the interactions of PEP with DNA. We explore these data and critically discuss the proposed regulatory impact of PAPs on the transcription process. We further address the evolutionary implications and describe fields for future investigation.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"712-723"},"PeriodicalIF":17.3,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143516914","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}
引用次数: 0
NO: from plant immunity to fungal virulence factor. NO：从植物免疫到真菌毒力因子。
IF 17.3 1区 生物学
Trends in Plant Science Pub Date : 2025-07-01 Epub Date: 2025-04-14 DOI: 10.1016/j.tplants.2025.03.021
Stefania Vitale, David Turrà
{"title":"NO: from plant immunity to fungal virulence factor.","authors":"Stefania Vitale, David Turrà","doi":"10.1016/j.tplants.2025.03.021","DOIUrl":"10.1016/j.tplants.2025.03.021","url":null,"abstract":"<p><p>Traditionally viewed as a plant defense molecule, nitric oxide (NO) has now been shown to play a key role in fungal pathogenesis. A recent study by Zhang et al. reveals that banana pathogenic isolates of Fusarium oxysporum coordinate NO production with host defense responses through an accessory mitochondrial pathway within its genome.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"699-701"},"PeriodicalIF":17.3,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143987955","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}
引用次数: 0
Relay model: bridging ligands and receptors in networks. 中继模型：网络中配体和受体的桥接。
IF 17.3 1区 生物学
Trends in Plant Science Pub Date : 2025-07-01 Epub Date: 2025-04-15 DOI: 10.1016/j.tplants.2025.03.018
Yong Pei, Zhiyuan Yin, Tongda Xu, Daolong Dou
{"title":"Relay model: bridging ligands and receptors in networks.","authors":"Yong Pei, Zhiyuan Yin, Tongda Xu, Daolong Dou","doi":"10.1016/j.tplants.2025.03.018","DOIUrl":"10.1016/j.tplants.2025.03.018","url":null,"abstract":"<p><p>Transmembrane-receptor-mediated recognition is fundamental to signaling and nutrient transport in diverse biological systems. While traditional models involve direct ligand-receptor binding, emerging evidence supports a relay model, in which substrate-binding proteins transfer ligands to receptors or form cooperative receptor complexes. This mechanism enhances the specificity and versatility of the ligand-receptor network.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"702-704"},"PeriodicalIF":17.3,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144000444","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}
引用次数: 0
Microautophagy in cereal grains: protein storage or degradation? 谷物中的微自噬：蛋白质储存还是降解？
IF 17.3 1区 生物学
Trends in Plant Science Pub Date : 2025-07-01 Epub Date: 2025-01-21 DOI: 10.1016/j.tplants.2024.12.012
Stefan Plott, Yasin F Dagdas, Verena Ibl
{"title":"Microautophagy in cereal grains: protein storage or degradation?","authors":"Stefan Plott, Yasin F Dagdas, Verena Ibl","doi":"10.1016/j.tplants.2024.12.012","DOIUrl":"10.1016/j.tplants.2024.12.012","url":null,"abstract":"<p><p>Recent research indicates an involvement of microautophagy in the uptake of seed storage proteins (SSPs) into the plant-specific protein storage vacuole (PSV), particularly in cereal grains. However, because microautophagy plays a vital role in cellular homeostasis by degrading and recycling cellular components, we question whether it is a suitable term for a process involved in long-term storage. Additionally, because fission-type microautophagy shares mechanistic similarities with the intraluminal vesicle (ILV) formation of multivesicular bodies (MVBs), we draw parallels between microautophagy and membrane remodeling facilitated by the endosomal sorting complex required for transport (ESCRT). Finally, we propose that the complex structure of cereal endosperm is an optimal tissue to study microautophagy in a plant- and tissue-specific context to decipher its molecular regulation in anabolism and catabolism.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"736-744"},"PeriodicalIF":17.3,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143024966","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}
引用次数: 0
Decoding the evolution of C4 photosynthesis. 解码C4光合作用的进化。
IF 17.3 1区 生物学
Trends in Plant Science Pub Date : 2025-07-01 Epub Date: 2025-03-03 DOI: 10.1016/j.tplants.2025.02.008
Syed Adeel Zafar, Julia Bailey-Serres
{"title":"Decoding the evolution of C4 photosynthesis.","authors":"Syed Adeel Zafar, Julia Bailey-Serres","doi":"10.1016/j.tplants.2025.02.008","DOIUrl":"10.1016/j.tplants.2025.02.008","url":null,"abstract":"<p><p>C4 photosynthesis underpins the remarkable productivity of certain crops, including maize and sorghum. How the C4 pathway emerged from ancestral C3 relatives has been unclear. Swift et al. have deciphered how a pre-existing cis-regulatory code for bundle-sheath gene expression was conscripted to enable C4 photosynthesis.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"696-698"},"PeriodicalIF":17.3,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143558180","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}
引用次数: 0
Sequencing historical RNA: unrealized potential to increase understanding of the plant tree of life. 测序历史RNA：未实现的潜力，以增加对植物生命之树的理解。
IF 17.3 1区 生物学
Trends in Plant Science Pub Date : 2025-07-01 Epub Date: 2024-11-29 DOI: 10.1016/j.tplants.2024.11.004
Alexa S Tyszka, Drew A Larson, Joseph F Walker
{"title":"Sequencing historical RNA: unrealized potential to increase understanding of the plant tree of life.","authors":"Alexa S Tyszka, Drew A Larson, Joseph F Walker","doi":"10.1016/j.tplants.2024.11.004","DOIUrl":"10.1016/j.tplants.2024.11.004","url":null,"abstract":"<p><p>Recent studies have demonstrated that it is a misconception that transcriptome sequencing requires tissue preserved at ultracold temperatures. Here, we outline the potential origins of this misconception and its possible role in biasing the geographic distribution of published plant transcriptomes. We highlight the importance of ensuring diverse sampling by providing an overview of the questions that transcriptomes can answer about the forces shaping the plant tree of life. We discuss how broadening transcriptome sequencing to include existing specimens will allow the field to grow and more fully utilize biological collections. We hope this article encourages the expansion of the current trend in 'herbariomics' research to include whole-transcriptome sequencing of historical RNA.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"705-711"},"PeriodicalIF":17.3,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142755556","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}
引用次数: 0
Minimum information guidelines for VOCs analysis using GC-MS. 使用气相色谱-质谱分析VOCs的最低信息指南。
IF 17.3 1区 生物学
Trends in Plant Science Pub Date : 2025-07-01 Epub Date: 2025-04-22 DOI: 10.1016/j.tplants.2025.03.010
Samia Mokh, Tania Portoles, Jordi Gamir
{"title":"Minimum information guidelines for VOCs analysis using GC-MS.","authors":"Samia Mokh, Tania Portoles, Jordi Gamir","doi":"10.1016/j.tplants.2025.03.010","DOIUrl":"10.1016/j.tplants.2025.03.010","url":null,"abstract":"","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"792-793"},"PeriodicalIF":17.3,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144041207","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}
引用次数: 0
Expanding genomic prediction in plant breeding: harnessing big data, machine learning, and advanced software. 扩大植物育种中的基因组预测：利用大数据、机器学习和先进的软件。
IF 17.3 1区 生物学
Trends in Plant Science Pub Date : 2025-07-01 Epub Date: 2025-01-30 DOI: 10.1016/j.tplants.2024.12.009
José Crossa, Johannes W R Martini, Paolo Vitale, Paulino Pérez-Rodríguez, Germano Costa-Neto, Roberto Fritsche-Neto, Daniel Runcie, Jaime Cuevas, Fernando Toledo, H Li, Pasquale De Vita, Guillermo Gerard, Susanne Dreisigacker, Leonardo Crespo-Herrera, Carolina Saint Pierre, Alison Bentley, Morten Lillemo, Rodomiro Ortiz, Osval A Montesinos-López, Abelardo Montesinos-López
{"title":"Expanding genomic prediction in plant breeding: harnessing big data, machine learning, and advanced software.","authors":"José Crossa, Johannes W R Martini, Paolo Vitale, Paulino Pérez-Rodríguez, Germano Costa-Neto, Roberto Fritsche-Neto, Daniel Runcie, Jaime Cuevas, Fernando Toledo, H Li, Pasquale De Vita, Guillermo Gerard, Susanne Dreisigacker, Leonardo Crespo-Herrera, Carolina Saint Pierre, Alison Bentley, Morten Lillemo, Rodomiro Ortiz, Osval A Montesinos-López, Abelardo Montesinos-López","doi":"10.1016/j.tplants.2024.12.009","DOIUrl":"10.1016/j.tplants.2024.12.009","url":null,"abstract":"<p><p>With growing evidence that genomic selection (GS) improves genetic gains in plant breeding, it is timely to review the key factors that improve its efficiency. In this feature review, we focus on the statistical machine learning (ML) methods and software that are democratizing GS methodology. We outline the principles of genomic-enabled prediction and discuss how statistical ML tools enhance GS efficiency with big data. Additionally, we examine various statistical ML tools developed in recent years for predicting traits across continuous, binary, categorical, and count phenotypes. We highlight the unique advantages of deep learning (DL) models used in genomic prediction (GP). Finally, we review software developed to democratize the use of GP models and recent data management tools that support the adoption of GS methodology.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"756-774"},"PeriodicalIF":17.3,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143075513","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}
引用次数: 0
Pangenome charts the genomic path for wheat improvement. 泛基因组绘制小麦改良的基因组路径。
IF 17.3 1区 生物学
Trends in Plant Science Pub Date : 2025-07-01 Epub Date: 2025-03-19 DOI: 10.1016/j.tplants.2025.03.002
Mahendar Thudi, Martin Mascher, Murukarthick Jayakodi
{"title":"Pangenome charts the genomic path for wheat improvement.","authors":"Mahendar Thudi, Martin Mascher, Murukarthick Jayakodi","doi":"10.1016/j.tplants.2025.03.002","DOIUrl":"10.1016/j.tplants.2025.03.002","url":null,"abstract":"<p><p>A wheat pangenome of 17 Chinese cultivars, recently developed by Jiao et al., reveals structural variants (SVs) shaped by cultural, dietary, and environmental changes. This resource provides access to East Asian wheat genetic diversity and supports genome-driven efforts to advance wheat improvement and adaptation to changing agricultural demands.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"687-689"},"PeriodicalIF":17.3,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143671028","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}
引用次数: 0
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