Pub Date : 2025-01-09DOI: 10.1016/j.tplants.2024.12.013
Baskar Ganapathysubramanian, Soumik Sarkar, Arti Singh, Asheesh K Singh
{"title":"Digital twins for the plant sciences.","authors":"Baskar Ganapathysubramanian, Soumik Sarkar, Arti Singh, Asheesh K Singh","doi":"10.1016/j.tplants.2024.12.013","DOIUrl":"https://doi.org/10.1016/j.tplants.2024.12.013","url":null,"abstract":"","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":""},"PeriodicalIF":17.3,"publicationDate":"2025-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142967056","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}
Pub Date : 2025-01-08DOI: 10.1016/j.tplants.2024.12.002
Yu-Hsiang Yu, Duncan B Crosbie, Macarena Marín Arancibia
While rhizobia have long been recognised as the primary colonisers of legume nodules, microbiome studies have revealed the presence of other bacteria in these organs. This opinion delves into the factors shaping the nodule microbiome and explores the potential roles of non-rhizobial endophytes, focusing particularly on Pseudomonas as prominent players. We explore the mechanisms by which Pseudomonas colonise nodules, their interactions with rhizobia, and their remarkable potential to promote plant growth and protect against pathogens. Furthermore, we discuss the promising prospects of using Pseudomonas as inoculants alongside rhizobia to enhance crop growth and promote sustainable agricultural practices.
{"title":"Pseudomonas in the spotlight: emerging roles in the nodule microbiome.","authors":"Yu-Hsiang Yu, Duncan B Crosbie, Macarena Marín Arancibia","doi":"10.1016/j.tplants.2024.12.002","DOIUrl":"https://doi.org/10.1016/j.tplants.2024.12.002","url":null,"abstract":"<p><p>While rhizobia have long been recognised as the primary colonisers of legume nodules, microbiome studies have revealed the presence of other bacteria in these organs. This opinion delves into the factors shaping the nodule microbiome and explores the potential roles of non-rhizobial endophytes, focusing particularly on Pseudomonas as prominent players. We explore the mechanisms by which Pseudomonas colonise nodules, their interactions with rhizobia, and their remarkable potential to promote plant growth and protect against pathogens. Furthermore, we discuss the promising prospects of using Pseudomonas as inoculants alongside rhizobia to enhance crop growth and promote sustainable agricultural practices.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":""},"PeriodicalIF":17.3,"publicationDate":"2025-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142955664","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}
Pub Date : 2025-01-03DOI: 10.1016/j.tplants.2024.12.010
Zheng Yang, Meng Zhang, Chang Du
Recently, Torres-Romero et al. identified a novel lipid droplet (LD)-associated protein, α/β-hydrolase domain containing protein 1 (ABHD1), in algae. Structurally, ABHD1 promotes the budding and growth of LDs and, functionally, it hydrolyzes lyso-diacylglyceryl-N,N,N-trimethylhomoserine (lyso-DGTS) to generate glyceryl-N,N,N-trimethylhomoserine (GTS) and free fatty acids (FFAs). Taken together, ABHD1 mediates a novel pathway for LD formation.
{"title":"A novel mechanism promoting lipid droplet formation.","authors":"Zheng Yang, Meng Zhang, Chang Du","doi":"10.1016/j.tplants.2024.12.010","DOIUrl":"https://doi.org/10.1016/j.tplants.2024.12.010","url":null,"abstract":"<p><p>Recently, Torres-Romero et al. identified a novel lipid droplet (LD)-associated protein, α/β-hydrolase domain containing protein 1 (ABHD1), in algae. Structurally, ABHD1 promotes the budding and growth of LDs and, functionally, it hydrolyzes lyso-diacylglyceryl-N,N,N-trimethylhomoserine (lyso-DGTS) to generate glyceryl-N,N,N-trimethylhomoserine (GTS) and free fatty acids (FFAs). Taken together, ABHD1 mediates a novel pathway for LD formation.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":""},"PeriodicalIF":17.3,"publicationDate":"2025-01-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142928463","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}
Pub Date : 2025-01-02DOI: 10.1016/j.tplants.2024.12.004
Simran Arora, Fiza Hamid, Shailesh Kumar
In the realm of genetic information, fusion transcripts contribute to the intricate complexity of the transcriptome across various organisms. Recently, Cong et al. investigated these RNAs in rice, maize, soybean, and arabidopsis (Arabidopsis thaliana), revealing conserved characteristics. These findings enhance our understanding of the functional roles and evolutionary significance of these fusion transcripts.
{"title":"Fusion transcripts in plants: hidden layer of transcriptome complexity.","authors":"Simran Arora, Fiza Hamid, Shailesh Kumar","doi":"10.1016/j.tplants.2024.12.004","DOIUrl":"https://doi.org/10.1016/j.tplants.2024.12.004","url":null,"abstract":"<p><p>In the realm of genetic information, fusion transcripts contribute to the intricate complexity of the transcriptome across various organisms. Recently, Cong et al. investigated these RNAs in rice, maize, soybean, and arabidopsis (Arabidopsis thaliana), revealing conserved characteristics. These findings enhance our understanding of the functional roles and evolutionary significance of these fusion transcripts.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":""},"PeriodicalIF":17.3,"publicationDate":"2025-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142928464","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}
Pub Date : 2025-01-02DOI: 10.1016/j.tplants.2024.12.005
Niaz Ahmad, Muhammad Jawad Akbar Awan, Imran Amin, Shahid Mansoor
Prime editing (PE), a precise CRISPR-based method, has worked well in some plants but faces challenges in dicots. Vu and colleagues developed new PE tools that greatly improve PE efficiency in dicots, enabling accurate, heritable genome edits. This advance marks a breakthrough that could revolutionize crop improvement and plant biotechnology.
{"title":"Perfecting prime editing: achieving precise edits in dicots.","authors":"Niaz Ahmad, Muhammad Jawad Akbar Awan, Imran Amin, Shahid Mansoor","doi":"10.1016/j.tplants.2024.12.005","DOIUrl":"https://doi.org/10.1016/j.tplants.2024.12.005","url":null,"abstract":"<p><p>Prime editing (PE), a precise CRISPR-based method, has worked well in some plants but faces challenges in dicots. Vu and colleagues developed new PE tools that greatly improve PE efficiency in dicots, enabling accurate, heritable genome edits. This advance marks a breakthrough that could revolutionize crop improvement and plant biotechnology.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":""},"PeriodicalIF":17.3,"publicationDate":"2025-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142928465","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}
Pub Date : 2025-01-01Epub Date: 2024-10-14DOI: 10.1016/j.tplants.2024.09.004
Oscar Joubert, Gontran Arnault, Matthieu Barret, Marie Simonin
Manipulating the seedling microbiota through seed or soil inoculations has the potential to improve plant health. Mixed in-field results have been attributed to a lack of consideration for ecological processes taking place during seedling microbiota assembly. In this opinion article, we (i) assess the contribution of ecological processes at play during seedling microbiota assembly (e.g., propagule pressure and priority effects); (ii) investigate how life history theory can help us identify microbial traits involved in successful seedling colonisation; and (iii) suggest how different plant microbiota engineering methods could benefit from a greater understanding of seedling microbiota assembly processes. Finally, we propose several research hypotheses and identify outstanding questions for the plant microbiota engineering community.
{"title":"Sowing success: ecological insights into seedling microbial colonisation for robust plant microbiota engineering.","authors":"Oscar Joubert, Gontran Arnault, Matthieu Barret, Marie Simonin","doi":"10.1016/j.tplants.2024.09.004","DOIUrl":"10.1016/j.tplants.2024.09.004","url":null,"abstract":"<p><p>Manipulating the seedling microbiota through seed or soil inoculations has the potential to improve plant health. Mixed in-field results have been attributed to a lack of consideration for ecological processes taking place during seedling microbiota assembly. In this opinion article, we (i) assess the contribution of ecological processes at play during seedling microbiota assembly (e.g., propagule pressure and priority effects); (ii) investigate how life history theory can help us identify microbial traits involved in successful seedling colonisation; and (iii) suggest how different plant microbiota engineering methods could benefit from a greater understanding of seedling microbiota assembly processes. Finally, we propose several research hypotheses and identify outstanding questions for the plant microbiota engineering community.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"21-34"},"PeriodicalIF":17.3,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142475511","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}
Pub Date : 2025-01-01Epub Date: 2024-08-26DOI: 10.1016/j.tplants.2024.07.018
Frank Hochholdinger, Peng Yu
Heterosis describes the superior performance of hybrid plants compared with their genetically distinct parents and is a pillar of global food security. Here we review the current status of the molecular dissection of heterosis. We discuss how extensive intraspecific structural genomic variation between parental genotypes leads to heterosis by genetic complementation in hybrids. Moreover, we survey how global gene expression complementation contributes to heterosis by hundreds of additionally active genes in hybrids and how overdominant single genes mediate heterosis in several species. Furthermore, we highlight the prominent role of the microbiome in improving the performance of hybrids. Taken together, the molecular understanding of heterosis will pave the way to accelerate hybrid productivity and a more sustainable agriculture.
{"title":"Molecular concepts to explain heterosis in crops.","authors":"Frank Hochholdinger, Peng Yu","doi":"10.1016/j.tplants.2024.07.018","DOIUrl":"10.1016/j.tplants.2024.07.018","url":null,"abstract":"<p><p>Heterosis describes the superior performance of hybrid plants compared with their genetically distinct parents and is a pillar of global food security. Here we review the current status of the molecular dissection of heterosis. We discuss how extensive intraspecific structural genomic variation between parental genotypes leads to heterosis by genetic complementation in hybrids. Moreover, we survey how global gene expression complementation contributes to heterosis by hundreds of additionally active genes in hybrids and how overdominant single genes mediate heterosis in several species. Furthermore, we highlight the prominent role of the microbiome in improving the performance of hybrids. Taken together, the molecular understanding of heterosis will pave the way to accelerate hybrid productivity and a more sustainable agriculture.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"95-104"},"PeriodicalIF":17.3,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142081706","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}
Pub Date : 2025-01-01Epub Date: 2024-10-07DOI: 10.1016/j.tplants.2024.09.013
Defeng Shen, Ton Bisseling
Soybean, the most important legume crop, plays a crucial role in food security and sustainable agriculture. Recently, Zhong et al. demonstrated that a moderate increase in nodule number in soybean improves field yield and protein content. Their findings propose a potential strategy to enhance yield performance in other legume crops.
{"title":"Soybean breeders can count on nodules.","authors":"Defeng Shen, Ton Bisseling","doi":"10.1016/j.tplants.2024.09.013","DOIUrl":"10.1016/j.tplants.2024.09.013","url":null,"abstract":"<p><p>Soybean, the most important legume crop, plays a crucial role in food security and sustainable agriculture. Recently, Zhong et al. demonstrated that a moderate increase in nodule number in soybean improves field yield and protein content. Their findings propose a potential strategy to enhance yield performance in other legume crops.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"10-12"},"PeriodicalIF":17.3,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142393561","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}
Pub Date : 2025-01-01Epub Date: 2024-08-20DOI: 10.1016/j.tplants.2024.07.017
Esther Ndumi Ngumbi
Flooding threatens crop productivity, agricultural sustainability, and global food security. In this article I review the effects of flooding on plants and highlight three important gaps in our understanding: (i) effects of flooding on ecological interactions mediated by plants both below (changing root metabolites and exudates) and aboveground (changing plant quality and metabolites, and weakening the plant immune system), (ii) flooding impacts on soil health and microorganisms that underpin plant and ecosystems health, and (iii) the legacy impacts of flooding. Failure to address these overlooked aspects could derail and undermine the monumental progress made in building climate-resilient crops and soil-microbe-assisted plant resilience. Addressing the outlined knowledge gaps will enhance solutions developed to mitigate flooding and preserve gains made to date.
{"title":"Could flooding undermine progress in building climate-resilient crops?","authors":"Esther Ndumi Ngumbi","doi":"10.1016/j.tplants.2024.07.017","DOIUrl":"10.1016/j.tplants.2024.07.017","url":null,"abstract":"<p><p>Flooding threatens crop productivity, agricultural sustainability, and global food security. In this article I review the effects of flooding on plants and highlight three important gaps in our understanding: (i) effects of flooding on ecological interactions mediated by plants both below (changing root metabolites and exudates) and aboveground (changing plant quality and metabolites, and weakening the plant immune system), (ii) flooding impacts on soil health and microorganisms that underpin plant and ecosystems health, and (iii) the legacy impacts of flooding. Failure to address these overlooked aspects could derail and undermine the monumental progress made in building climate-resilient crops and soil-microbe-assisted plant resilience. Addressing the outlined knowledge gaps will enhance solutions developed to mitigate flooding and preserve gains made to date.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"85-94"},"PeriodicalIF":17.3,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142018708","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}
Pub Date : 2025-01-01Epub Date: 2024-10-01DOI: 10.1016/j.tplants.2024.08.003
Yan Yu, Vasileios Fotopoulos, Kejin Zhou, Alisdair R Fernie
Cadmium (Cd) is a toxic heavy metal that poses a significant risk to both plant growth and human health. To mitigate or lessen Cd toxicity, plants have evolved a wide range of sensing and defense strategies. The gasotransmitter hydrogen sulfide (H2S) is involved in plant responses to Cd stress and exhibits a crucial role in modulating Cd tolerance through a well-orchestrated interaction with several signaling pathways. Here, we review potential experimental approaches to manipulate H2S signals, concluding that research on another gasotransmitter, namely nitric oxide (NO), serves as a good model for research on H2S. Additionally, we discuss potential strategies to leverage H2S-reguated Cd tolerance to improve plant performance under Cd stress.
{"title":"The role of gasotransmitter hydrogen sulfide in plant cadmium stress responses.","authors":"Yan Yu, Vasileios Fotopoulos, Kejin Zhou, Alisdair R Fernie","doi":"10.1016/j.tplants.2024.08.003","DOIUrl":"10.1016/j.tplants.2024.08.003","url":null,"abstract":"<p><p>Cadmium (Cd) is a toxic heavy metal that poses a significant risk to both plant growth and human health. To mitigate or lessen Cd toxicity, plants have evolved a wide range of sensing and defense strategies. The gasotransmitter hydrogen sulfide (H<sub>2</sub>S) is involved in plant responses to Cd stress and exhibits a crucial role in modulating Cd tolerance through a well-orchestrated interaction with several signaling pathways. Here, we review potential experimental approaches to manipulate H<sub>2</sub>S signals, concluding that research on another gasotransmitter, namely nitric oxide (NO), serves as a good model for research on H<sub>2</sub>S. Additionally, we discuss potential strategies to leverage H<sub>2</sub>S-reguated Cd tolerance to improve plant performance under Cd stress.</p>","PeriodicalId":23264,"journal":{"name":"Trends in Plant Science","volume":" ","pages":"35-53"},"PeriodicalIF":17.3,"publicationDate":"2025-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142366584","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}