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Regulatory Coordination of Photophysical, Photochemical, and Biochemical Reactions in the Photosynthesis of Land Plants. 陆地植物光合作用中光物理、光化学和生化反应的调控协调。
IF 2.3 3区 生物学
Plant Direct Pub Date : 2025-05-26 eCollection Date: 2025-05-01 DOI: 10.1002/pld3.70080
Lianhong Gu, Bernard Grodzinski, Jimei Han, Telesphore Marie, Yong-Jiang Zhang, Yang C Song, Ying Sun
{"title":"Regulatory Coordination of Photophysical, Photochemical, and Biochemical Reactions in the Photosynthesis of Land Plants.","authors":"Lianhong Gu, Bernard Grodzinski, Jimei Han, Telesphore Marie, Yong-Jiang Zhang, Yang C Song, Ying Sun","doi":"10.1002/pld3.70080","DOIUrl":"https://doi.org/10.1002/pld3.70080","url":null,"abstract":"<p><p>Balance among the sequential photophysical, photochemical, and biochemical reactions of photosynthesis is needed for converting fleeting energy in light to stable energy in chemical bonds. Any imbalance acts as either a bottleneck for limiting photosynthetic efficiency or an agent for inducing structural and functional damage to photosynthetic apparatus. Not only must each reaction be carefully regulated, but regulatory processes must also be coordinated across the reactions. However, regulations of different stages of photosynthesis have rarely been studied jointly. Non-photochemical quenching (<i>NPQ</i>) and stomatal conductance (<i>g</i> <sub>s</sub>) are key regulators of photophysical and biochemical reactions, respectively. Existing evidence suggests that the redox state of plastoquinone regulates <i>g</i> <sub>s</sub> and that the photochemical reactions are partially regulated by the ultrastructural dynamics of thylakoids induced by osmotic water fluxes in chloroplasts of land plants. To examine how these regulations are coordinated and feedback to each other, we simultaneously measured <i>NPQ</i> and <i>g</i> <sub><i>s</i></sub> and inferred the redox state of plastoquinone and the light-induced thylakoid swelling/shrinking on numerous C<sub>3</sub> and C<sub>4</sub> species. For all species measured, <i>NPQ</i> and <i>g</i> <sub><i>s</i></sub> covary with the redox states of the electron transport chain, particularly plastoquinone, and increase as thylakoid swelling is inferred. <i>NPQ</i> has the maximal sensitivity at the light intensity at which thylakoid is inferred to be fully swollen. Our findings suggest that plant energy and water use strategies are intimately linked by evolution, and studying the regulations of different photosynthetic stages as a whole can lead to new insights of the functioning of photosynthetic machinery in dynamic environments.</p>","PeriodicalId":20230,"journal":{"name":"Plant Direct","volume":"9 5","pages":"e70080"},"PeriodicalIF":2.3,"publicationDate":"2025-05-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12105917/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144151461","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Phytochrome E Plays a Role in the Suppression of Germination in Far-Red Light in Tomato. 光敏色素E在远红光下抑制番茄萌发中的作用。
IF 2.3 3区 生物学
Plant Direct Pub Date : 2025-05-23 eCollection Date: 2025-05-01 DOI: 10.1002/pld3.70079
Samantha Barnwell, Keisha D Carlson, Daniel Balderrama, Sara Pernikoff, Tahseen Tanatrah, Andreas Madlung
{"title":"Phytochrome E Plays a Role in the Suppression of Germination in Far-Red Light in Tomato.","authors":"Samantha Barnwell, Keisha D Carlson, Daniel Balderrama, Sara Pernikoff, Tahseen Tanatrah, Andreas Madlung","doi":"10.1002/pld3.70079","DOIUrl":"10.1002/pld3.70079","url":null,"abstract":"<p><p>As photoautotrophs, plants use light not only as a source of energy but also as cues for directing growth and development. Phytochromes comprise a small gene family of plant specific light receptors that absorb mostly in the red/far-red portion of the electromagnetic spectrum. These light receptors are well-studied in the model species <i>Arabidopsis thaliana,</i> yet much less is known about their functions in other species. We have generated CRISPR-induced mutations in <i>SlPHYTOCHROME E</i> (<i>SlPHYE</i>) and <i>SlPHYF,</i> produced higher order mutants, and characterized some of their physiological functions in tomato (<i>Solanum lycopersicum</i>). We report that SlphyE plays a major role in detecting far-red light, repressing germination when light conditions are unfavorable for establishing a new seedling. While SlphyE functions on its own, it also synergistically works with another phytochrome, SlphyB1, which by itself only plays a minor role in germination control. Aside from its role in far-red light detection, SlPhyE is also involved in perceiving red light, leading to the repression of hypocotyl elongation and the promotion of light avoidance growth in the roots. SlPhyF acts synergistically with phyB1 during photomorphogenesis but it is not involved in far-red light detection during germination.</p>","PeriodicalId":20230,"journal":{"name":"Plant Direct","volume":"9 5","pages":"e70079"},"PeriodicalIF":2.3,"publicationDate":"2025-05-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12100499/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144143359","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Correction to "Identification of Novel Candidate Genes Associated With the Symbiotic Compatibility of Soybean With Rhizobia Under Natural Conditions". 对“自然条件下大豆与根瘤菌共生相容性相关新候选基因的鉴定”的更正。
IF 2.3 3区 生物学
Plant Direct Pub Date : 2025-05-23 eCollection Date: 2025-05-01 DOI: 10.1002/pld3.70083
{"title":"Correction to \"Identification of Novel Candidate Genes Associated With the Symbiotic Compatibility of Soybean With Rhizobia Under Natural Conditions\".","authors":"","doi":"10.1002/pld3.70083","DOIUrl":"10.1002/pld3.70083","url":null,"abstract":"<p><p>[This corrects the article DOI: 10.1002/pld3.70069.].</p>","PeriodicalId":20230,"journal":{"name":"Plant Direct","volume":"9 5","pages":"e70083"},"PeriodicalIF":2.3,"publicationDate":"2025-05-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12100492/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144143357","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The Arabidopsis PM19L1 Protein Functions as a Regulator of Germination Under Osmotic Stress. 拟南芥PM19L1蛋白在渗透胁迫下调控种子萌发
IF 2.3 3区 生物学
Plant Direct Pub Date : 2025-05-19 eCollection Date: 2025-05-01 DOI: 10.1002/pld3.70059
Ross D Alexander, Pablo Castillejo-Pons, Nina Melzer, Omar Alsaif, Vivien I Strotmann, Yvonne Stahl, Madeleine Seale, Peter C Morris
{"title":"The Arabidopsis PM19L1 Protein Functions as a Regulator of Germination Under Osmotic Stress.","authors":"Ross D Alexander, Pablo Castillejo-Pons, Nina Melzer, Omar Alsaif, Vivien I Strotmann, Yvonne Stahl, Madeleine Seale, Peter C Morris","doi":"10.1002/pld3.70059","DOIUrl":"10.1002/pld3.70059","url":null,"abstract":"&lt;p&gt;&lt;p&gt;How plants perceive and respond to water availability, especially during the critical stages of seed formation and germination, is key to their survival. During development, ripening, and germination, seeds undergo large changes in water content, down to around 10% during maturation and up to 90% again within 24 h of germination. However, the mechanisms by which plants perceive and respond to their osmotic environment remain largely unknown. The results presented here indicate that the osmotic environment of the seed is perceived by the PM19L1 protein. We find the Arabidopsis plasma membrane protein PM19L1 is evolutionarily conserved in all land plants, is highly expressed in seeds and seedlings, and regulates germination under osmotic stress, as shown by the reduced germination of the &lt;i&gt;pm19l1&lt;/i&gt; mutant under salt and osmotic stress. The PM19L1 protein structurally resembles the yeast osmosensor Sho1, and expression of &lt;i&gt;PM19L1&lt;/i&gt; in yeast will complement the osmosensitive &lt;i&gt;sho1&lt;/i&gt; mutant, thus PM19L1 can function as an osmosensor. In contrast to the Sho1-mediated mechanisms for osmotic tolerance in yeast, PM19L1 does not control osmolyte levels in plants, but is a regulator of genes governing abscisic acid and gibberellin synthesis, and of transcription factors that mediate the abscisic acid response. In the &lt;i&gt;pm19l1&lt;/i&gt; mutant, expression of genes for &lt;i&gt;ABI3, LEC1,&lt;/i&gt; and &lt;i&gt;FUS3,&lt;/i&gt; which promote the late maturation of the seed, is downregulated, whereas expression of the &lt;i&gt;ABI4&lt;/i&gt; and &lt;i&gt;ABI5&lt;/i&gt; transcription factors, which confer abscisic acid-dependent inhibition of germination, is upregulated. The role of PM19L1 as an osmosensor in the plant was verified by ectopic expression of &lt;i&gt;PM19L1&lt;/i&gt; which conferred the ability of vegetative plants to respond to imposed osmotic stress by enhanced expression of &lt;i&gt;ABI3, LEC1,&lt;/i&gt; and &lt;i&gt;FUS3&lt;/i&gt;. This suggests a function for PM19L1 as a factor that integrates information on the osmotic environment to modulate the developmental fate of the seed during development and germination. Analysis of endogenous hormone levels and phenotypes of digenic mutants, for example &lt;i&gt;pm19l1/abi3&lt;/i&gt; and &lt;i&gt;pm19l1/abi4,&lt;/i&gt; will help confirm and refine this model. In a further parallel to ShoI osmosensing in yeast, intracellular signaling downstream of PM19L1 in the plant likely involves a MAP kinase signal transduction pathway, as shown by split ubiquitin analysis for protein-protein interactions, and by pull-down assays from plant extracts. The MAP kinase proteins AtMKK2 and AtMKK3 specifically bind to PM19L1, and the &lt;i&gt;atmkk2,&lt;/i&gt; and &lt;i&gt;atmkk3&lt;/i&gt; mutants have strikingly similar germination and gene expression phenotypes to &lt;i&gt;pm19l1&lt;/i&gt;; however, corroboration of the role of these proteins in the signaling pathway will require further analysis of knockout and gain of function MKK mutants in the &lt;i&gt;pm19l1&lt;/i&gt; background. These results have implications for the study of dormancy, drought, and ","PeriodicalId":20230,"journal":{"name":"Plant Direct","volume":"9 5","pages":"e70059"},"PeriodicalIF":2.3,"publicationDate":"2025-05-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12089654/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144111781","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Glutamate Methylation, a Novel Histone Mark in Diatoms: Mass Spectrometry Identification and Structural Characterization. 谷氨酸甲基化,硅藻中一种新的组蛋白标记:质谱鉴定和结构表征。
IF 2.3 3区 生物学
Plant Direct Pub Date : 2025-05-13 eCollection Date: 2025-05-01 DOI: 10.1002/pld3.70051
Stéphane Téletchéa, Bérangère Lombard, Johann Hendrickx, Damarys Loew, Leïla Tirichine
{"title":"Glutamate Methylation, a Novel Histone Mark in Diatoms: Mass Spectrometry Identification and Structural Characterization.","authors":"Stéphane Téletchéa, Bérangère Lombard, Johann Hendrickx, Damarys Loew, Leïla Tirichine","doi":"10.1002/pld3.70051","DOIUrl":"10.1002/pld3.70051","url":null,"abstract":"<p><p>Post-translational modifications of histones (PTMs) play a crucial role in regulating chromatin function. These modifications are integral to numerous biological processes, including transcription, DNA repair, replication, and chromatin remodeling. Although several PTMs have been identified, enhancing our understanding of their roles in these processes, there is still much to discover given the potential for virtually any histone residue to be modified. In this study, we report the discovery of a novel PTM in the model diatom <i>Phaeodactylum tricornutum</i>, glutamate methylation identified by mass spectrometry at multiple positions on histone H4 and at position 96 on histone H2B. This modification was also detected in other model organisms, including <i>Drosophila melanogaster</i>, <i>Caenorhabditis elegans</i>, and humans, but not in <i>Arabidopsis</i>. Structural bioinformatics analyses, including molecular dynamics simulations, revealed that methylation of glutamate residues on histones induces displacement of these residues, exposing them to solvent and disrupting interactions with neighboring residues in associated histones. This disruption may interfere with histone complexes promoting histone eviction or facilitating interactions with regulatory proteins or complexes, which may compromise the overall nucleosome stability.</p>","PeriodicalId":20230,"journal":{"name":"Plant Direct","volume":"9 5","pages":"e70051"},"PeriodicalIF":2.3,"publicationDate":"2025-05-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12070036/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144020008","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Comparative Three-Barcode Phylogenetics and Soil Microbiomes of Planted and Wild Arbutus Strawberry Trees. 栽培与野生杨梅草莓树的三条形码系统发育与土壤微生物组比较。
IF 2.3 3区 生物学
Plant Direct Pub Date : 2025-05-08 eCollection Date: 2025-05-01 DOI: 10.1002/pld3.70078
Flannery McLamb, Armando Vazquez, Natalie Olander, Miguel F Vasquez, Zuying Feng, Niharika Malhotra, Liisa Bozinovic, Karen Najera Ruiz, Katherine O'Connell, Joseph Stagg, Goran Bozinovic
{"title":"Comparative Three-Barcode Phylogenetics and Soil Microbiomes of Planted and Wild <i>Arbutus</i> Strawberry Trees.","authors":"Flannery McLamb, Armando Vazquez, Natalie Olander, Miguel F Vasquez, Zuying Feng, Niharika Malhotra, Liisa Bozinovic, Karen Najera Ruiz, Katherine O'Connell, Joseph Stagg, Goran Bozinovic","doi":"10.1002/pld3.70078","DOIUrl":"https://doi.org/10.1002/pld3.70078","url":null,"abstract":"<p><p>Taxonomic identification of closely related plants can be challenging due to convergent evolution, hybridization, and overlapping geographic distribution. To derive taxonomic relationships among planted and wild <i>Arbutus</i> plants across a large geographic range, we complemented three standard plastid barcodes <i>rbcL</i>, <i>matK</i>, and <i>trnH-psbA</i> with soil and fruit chemistry, soil microbiome, and plant morphology analyses. Soil and plant sampling included planted <i>Arbutus</i> from manicured sites in Southern California, USA, wild plants from Southern and Northern California, and wild populations from Mediterranean island of Hvar, Croatia. We hypothesized that phenotypic variation within and between sites correlates with plants' genotype and geographic distribution. Similar fruit chemistry corresponds to geographical proximity and morphological resemblance, while bulk soil bacterial content defines three distinct clusters distinguishing planted versus wild trees and continent of origin. The soil microbiome of wild California <i>Arbutus</i> was characterized by an abundance of <i>Nitrobacter</i>, while the presence of <i>Candidatus Xiphinematobacter</i> was high in wild Hvar samples and most planted samples, but low in all wild California samples. Although all three barcodes resolved four main groups, the position of samples varies across barcodes. The <i>rbcL</i> phylogram is relatively unbalanced, suggesting slower diversification among wild California populations and exhibiting greater resolution than other barcodes among planted individuals. While our data demonstrate an overall agreement among standard plant barcodes relative to geo-distribution and plant morphology, sustained efforts on cost-effective global plant DNA barcode library standardization for closely related and geographically overlapping plants is recommended.</p>","PeriodicalId":20230,"journal":{"name":"Plant Direct","volume":"9 5","pages":"e70078"},"PeriodicalIF":2.3,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12059276/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143989409","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Identification of Novel Candidate Genes Associated With the Symbiotic Compatibility of Soybean With Rhizobia Under Natural Conditions. 自然条件下大豆与根瘤菌共生相容性新候选基因的鉴定。
IF 2.3 3区 生物学
Plant Direct Pub Date : 2025-05-04 eCollection Date: 2025-05-01 DOI: 10.1002/pld3.70069
Masayoshi Teraishi, Kosuke Sakaguchi, Takanori Yoshikawa
{"title":"Identification of Novel Candidate Genes Associated With the Symbiotic Compatibility of Soybean With Rhizobia Under Natural Conditions.","authors":"Masayoshi Teraishi, Kosuke Sakaguchi, Takanori Yoshikawa","doi":"10.1002/pld3.70069","DOIUrl":"10.1002/pld3.70069","url":null,"abstract":"<p><p>A robust symbiotic relationship between soybean and rhizobia can enhance the yield and quality of soybeans by reducing nitrogen fertilizer input, thereby contributing to sustainable agriculture. However, the genetic interplay between soybean cultivars and the rhizobial species colonizing their roots under natural conditions is yet to be sufficiently assessed. In this study, we build on previous observations that have revealed a significant variation in the prevalence of rhizobial species associated with the soybean cultivars \"Peking\" and \"Tamahomare.\" Using recombinant inbred lines derived from a cross between Peking and Tamahomare, we performed quantitative trait loci (QTL) analysis of the proportion of <i>Rhizobium</i> species present in the root nodules of these cultivars and accordingly identified a major QTL on chromosome 18, accounting for 42% of the phenotypic variation, which was subsequently localized to a 240-kb region. RNA-seq analysis indicated that a single gene harboring nucleotide binding site-leucine-rich repeat domains exhibited markedly different expression within the QTL region in the parent cultivars. As this locus is distinct from the chromosomal regions containing known nodule-related genes, such as <i>Rj</i> and <i>rj</i>, we speculate that it represents a novel gene involved in the symbiosis between rhizobia and soybeans. Further research on the function and role of this new gene could potentially contribute to enhancing soybean yield, and hence sustainable agriculture, under low-nitrogen fertilization conditions.</p>","PeriodicalId":20230,"journal":{"name":"Plant Direct","volume":"9 5","pages":"e70069"},"PeriodicalIF":2.3,"publicationDate":"2025-05-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12050213/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144029549","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Multi-Experiment and Multi-Locus Genome-Wide Association Mapping for Grain Arsenic in Rice Population. 水稻群体中籽粒砷的多试验、多位点全基因组关联定位。
IF 2.3 3区 生物学
Plant Direct Pub Date : 2025-05-04 eCollection Date: 2025-05-01 DOI: 10.1002/pld3.70064
Caijin Chen, Panthita Ruang-Areerate, Anthony J Travis, Alex Douglas, David E Salt, Shannon R M Pinson, Georgia C Eizenga, Adam H Price, Gareth J Norton
{"title":"Multi-Experiment and Multi-Locus Genome-Wide Association Mapping for Grain Arsenic in Rice Population.","authors":"Caijin Chen, Panthita Ruang-Areerate, Anthony J Travis, Alex Douglas, David E Salt, Shannon R M Pinson, Georgia C Eizenga, Adam H Price, Gareth J Norton","doi":"10.1002/pld3.70064","DOIUrl":"https://doi.org/10.1002/pld3.70064","url":null,"abstract":"<p><p>Rice is a globally important crop and is particularly efficient at assimilating arsenic (As). Identifying QTLs and genes associated with grain As is essential for breeding low-As rice cultivars. In this study, data on As accumulation in grains of Rice Diversity Panel 1 in five field environments at four diverse geographic sites were reanalyzed to compare genome-wide association (GWA) methods. Two single-locus (EMMAX for single trait and GEMMA for multi-experiments) and six multi-locus (FASTmrEMMA, ISIS EM-BLASSO, mrMLM, pKWmEB, pLARmEB, and FASTmrMLM) GWA methods were used. A total of 90 and 111 QTLs were detected using EMMAX and GEMMA, respectively. A total of 2, 11, 12, 19, 23, and 25 QTNs were identified by FASTmrEMMA, ISIS EM-BLASSO, mrMLM, pKWmEB, pLARmEB, and FASTmrMLM, respectively. Among these, 22 QTLs/QTNs were co-detected by single-locus and multi-locus GWAS methods. From these QTLs/QTNs, a total of 10 candidate genes were identified. Analysis of the haplotype variants of one candidate genes, <i>OsABCC1</i>, and one cluster of the plasma membrane intrinsic proteins <i>genes</i> revealed that a greater than 10% reduction in grain As could be achieved. The QTLs/QTNs and candidate genes identified give insight into the molecular mechanisms regulating As accumulation in rice and serve as breeding targets for developing low grain As rice cultivars.</p>","PeriodicalId":20230,"journal":{"name":"Plant Direct","volume":"9 5","pages":"e70064"},"PeriodicalIF":2.3,"publicationDate":"2025-05-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12050220/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144044830","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
RNA-Binding Proteome-Wide Analysis Reveals Rice RNA-Binding Proteins Enriched After Sobemovirus Rice Yellow Mottle Virus Infection. rna结合蛋白组分析揭示水稻黄斑病病毒感染后水稻rna结合蛋白富集。
IF 2.3 3区 生物学
Plant Direct Pub Date : 2025-05-04 eCollection Date: 2025-05-01 DOI: 10.1002/pld3.70077
Patrick Jacob Odongo, Roosje Van Ende, Sam Balzarini, Geoffrey Onaga, Titus Alicai, Koen Geuten
{"title":"RNA-Binding Proteome-Wide Analysis Reveals Rice RNA-Binding Proteins Enriched After Sobemovirus Rice Yellow Mottle Virus Infection.","authors":"Patrick Jacob Odongo, Roosje Van Ende, Sam Balzarini, Geoffrey Onaga, Titus Alicai, Koen Geuten","doi":"10.1002/pld3.70077","DOIUrl":"https://doi.org/10.1002/pld3.70077","url":null,"abstract":"<p><p>RNA-binding protein interactions with viral RNA are crucial in the context of viral infections, as viral RNAs can recruit and reprogram host RNA-binding proteins (RBPs) during disease progression. Despite their significance, the repertoire of RBPs involved in most viral infections remains inadequately characterized. In Africa, Sobemovirus Rice yellow mottle virus (Sobemovirus RYMV) is the most prevalent virus infecting rice, and its devastating impact has led to extensive research efforts worldwide. Comprehensive identification of host RBPs that are enriched under Sobemovirus RYMV-infected conditions through RNA-bound proteome (RBPome)-wide studies could provide novel strategies for developing Sobemovirus RYMV resistance. In this study, a silica-based acidic phase separation approach was employed to elucidate changes in the RBPome following Sobemovirus RYMV infection. The analysis demonstrated that Sobemovirus RYMV infection remodels the RBPome, with 11 non-viral RBPs identified as significantly enriched and two non-viral RBPs that were significantly less abundant following infection. This study provides a snapshot of the landscape of RBPome changes in response to Sobemovirus RYMV. Validating these RBPs to understand their biological involvement in Sobemovirus RYMV infection is crucial to developing Sobemovirus RYMV-resistant rice varieties.</p>","PeriodicalId":20230,"journal":{"name":"Plant Direct","volume":"9 5","pages":"e70077"},"PeriodicalIF":2.3,"publicationDate":"2025-05-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12050360/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144053305","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
InsightNet: A Deep Learning Framework for Enhanced Plant Disease Detection and Explainable Insights. InsightNet:用于增强植物病害检测和可解释见解的深度学习框架。
IF 2.3 3区 生物学
Plant Direct Pub Date : 2025-05-04 eCollection Date: 2025-05-01 DOI: 10.1002/pld3.70076
Mubasshar U I Tamim, Sultanul A Hamim, Sumaiya Malik, M F Mridha, Sharfuddin Mahmood
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