Plant Molecular Biology最新文献

Enhancing rice crop resistance against brown plant hopper infestation through the foliar application of sodium nitroprusside. 硝普钠叶面施用提高水稻抗褐飞虱侵害能力。

IF 3.8 2区生物学

Plant Molecular Biology Pub Date : 2025-10-02 DOI: 10.1007/s11103-025-01634-1

Muhammad Farooq, Dan-Dan Zhao, Saleem Asif, Jae-Ryoung Park, Mohamed H Helal, Rashid Iqbal, Zakirullah Khan, Kyung-Min Kim

引用次数: 0

Single-cell transcriptional profiling in Arabidopsis root exposed to boron toxicity at seedling stages. 幼苗期硼毒害拟南芥根系单细胞转录谱分析

IF 3.8 2区生物学

Plant Molecular Biology Pub Date : 2025-10-02 DOI: 10.1007/s11103-025-01643-0

Ceyhun Kayıhan, Ebru Kocakaya, Yasin Kaymaz, Hikmet Yilmaz, Halis Batuhan Ünal, Oğuzhan Yaprak, Emre Aksoy, Dilara Sedef Karagöz

引用次数: 0

Physiological and transcriptomic analysis reveal the response mechanisms to nutrient deficiencies in aquatic plant Spirodela polyrhiza. 生理学和转录组学分析揭示了水生植物多根螺旋藻对营养缺乏的响应机制。

IF 3.8 2区生物学

Plant Molecular Biology Pub Date : 2025-09-11 DOI: 10.1007/s11103-025-01635-0

Xuyao Zhao, Xiaozhe Li, Zuoliang Sun, Gaojie Li, Wenjun Guo, Yan Chen, Manli Xia, Yimeng Chen, Xiaoyu Wang, Yixian Li, Kangsheng Luo, Mingfei Ji, Pengfei Duan, Jingjing Yang, Hongwei Hou

{"title":"Physiological and transcriptomic analysis reveal the response mechanisms to nutrient deficiencies in aquatic plant Spirodela polyrhiza.","authors":"Xuyao Zhao, Xiaozhe Li, Zuoliang Sun, Gaojie Li, Wenjun Guo, Yan Chen, Manli Xia, Yimeng Chen, Xiaoyu Wang, Yixian Li, Kangsheng Luo, Mingfei Ji, Pengfei Duan, Jingjing Yang, Hongwei Hou","doi":"10.1007/s11103-025-01635-0","DOIUrl":"https://doi.org/10.1007/s11103-025-01635-0","url":null,"abstract":"Macrophytes are critical primary producers in freshwater ecosystems and offer potential as crop resources to support the growing human population. They are also widely used to mitigate eutrophication. Aquatic plants adapt themselves to the more complicated, changeable, and unstable conditions compared to terrestrial plants, especially the fluctuating nutrient environments. Nitrogen (N) and phosphorus (P) are the key nutrient elements for plants, and their biogeochemical cycles have been significantly disrupted by anthropogenic activities in diverse ecosystems. However, there is still a lack of comprehensive understanding about the adaptive mechanisms of N and P stress in aquatic plants. In this study, the response mechanisms in the macrophyte Spirodela polyrhiza under various nutrient conditions were analyzed. S. polyrhiza showed universal changes under nutrient deficiencies at the physiological level, including enhanced root growth, lower Chl content, higher Root-Frond ratio, and starch content. Genes involved in nutrient acquisition and remobilization, carbon metabolism, transcriptional regulation, hormones, and antioxidant systems were identified. Physiological and transcriptional changes revealed that the macrophyte S. polyrhiza adopts a nutrient acquisition-prioritization strategy under nutrient deficiency conditions, employing strategies similar to those observed in terrestrial plants. Post-transcriptional regulatory networks also highlighted the critical role of non-coding RNAs nutrient stress responses. Overall, S. polyrhiza employs integrated physiological and molecular strategies to cope with nutrient deficiency in aquatic environments. This study provides comprehensive insights into its adaptive responses and offers a valuable genetic resource for further novel gene discovery and functional analysis.","PeriodicalId":20064,"journal":{"name":"Plant Molecular Biology","volume":"115 5","pages":"107"},"PeriodicalIF":3.8,"publicationDate":"2025-09-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145033966","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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 transcription factor VaWRKY72 from Vitis amurensis positively regulates cold tolerance in Arabidopsis thaliana and grapevine. 葡萄（Vitis amurensis）转录因子vwrky72正调控拟南芥和葡萄的耐寒性。

IF 3.8 2区生物学

Plant Molecular Biology Pub Date : 2025-09-11 DOI: 10.1007/s11103-025-01641-2

Jiahui Ma, Xiaoxiao Yan, Xingcheng Qi, Fang Ding, Xinyi Hao, Shijin Yang, Weirong Xu, Xiuming Zhang

引用次数: 0

TaEPFL1 gene controls the development of wheat pistils and stamens by regulating ethylene synthesis. TaEPFL1基因通过调控乙烯合成调控小麦雌蕊和雄蕊的发育。

IF 3.8 2区生物学

Plant Molecular Biology Pub Date : 2025-09-11 DOI: 10.1007/s11103-025-01636-z

Tianxun Nie, Yuhuan Guo, Youwei Yang, Naoki Yamamoto, Wenxuan Liu, Yichao Wu, Mingli Liao, Zhenyong Chen, Zhengsong Peng, Zaijun Yang

{"title":"TaEPFL1 gene controls the development of wheat pistils and stamens by regulating ethylene synthesis.","authors":"Tianxun Nie, Yuhuan Guo, Youwei Yang, Naoki Yamamoto, Wenxuan Liu, Yichao Wu, Mingli Liao, Zhenyong Chen, Zhengsong Peng, Zaijun Yang","doi":"10.1007/s11103-025-01636-z","DOIUrl":"https://doi.org/10.1007/s11103-025-01636-z","url":null,"abstract":"Proper development of floral organs is essential for reproductive success and grain yield in wheat. However, the molecular mechanisms regulating wheat floral organ development remain largely unknown. In this study, we characterized the role of the wheat TaEPFL1 gene in floral organ development and its association with ethylene signaling. TaEPFL1 was highly expressed in immature spikes of the pistillody mutant HTS-1, particularly during the pistil and stamen specification stages. Its expression was responsive to both exogenous ethylene and the ethylene inhibitor 1-Methylcyclopropene (1-MCP). Overexpression of TaEPFL1 in transgenic wheat led to shortened stamens, defective pistils, male sterility, and complete reproductive failure. Histological analysis revealed delayed tapetum degradation, indicating disrupted programmed cell death (PCD). Gas chromatography (GC) showed significantly reduced ethylene production and release in TaEPFL1-overexpressing lines. Similar floral defects were observed in wild-type plants treated with 1-MCP. Transcriptome and qRT-PCR analyses further confirmed downregulation of multiple ethylene biosynthesis-related genes, including three homologs of TaACO. These results suggest that TaEPFL1 negatively regulates ethylene biosynthesis by repressing TaACO expression, thereby impairing floral organ differentiation. We propose a feedback model in which ethylene induces TaEPFL1, which in turn suppresses ethylene production to maintain hormonal homeostasis. This study reveals a novel regulatory mechanism linking TaEPFL1 to ethylene-mediated floral development and provides new insights for improving wheat fertility through molecular breeding.","PeriodicalId":20064,"journal":{"name":"Plant Molecular Biology","volume":"115 5","pages":"108"},"PeriodicalIF":3.8,"publicationDate":"2025-09-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145033916","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Revolution and advances in gene editing and genomics technology for developing climate-resilient legume crops: developments and prospects. 用于培育气候适应型豆科作物的基因编辑和基因组技术的革命与进展：发展与展望。

IF 3.8 2区生物学

Plant Molecular Biology Pub Date : 2025-09-08 DOI: 10.1007/s11103-025-01637-y

Gayatri Mishra

{"title":"Revolution and advances in gene editing and genomics technology for developing climate-resilient legume crops: developments and prospects.","authors":"Gayatri Mishra","doi":"10.1007/s11103-025-01637-y","DOIUrl":"https://doi.org/10.1007/s11103-025-01637-y","url":null,"abstract":"Legumes are essential for agriculture and food security. Biotic and abiotic stresses pose significant challenges to legume production, lowering productivity levels. Most legumes must be genetically improved by introducing alleles that give pest and disease resistance, abiotic stress adaptability, and high yield potential. The quickest way to develop high-yielding elite legume varieties with long-lasting resistance is to tap into potential resistance alleles present in landraces and wild relatives and exploit them in legume resistance breeding programs using next-generation molecular breeding methods. Most of the reviews focus on the advancements made by genome editing technologies in generating climate-tolerant legumes for breeding. This review discusses the challenges of genome-based editing tools and how the integration of other popular breeding methodologies, such as QTLs and GWAS, as well as computational techniques, can aid in the development of climate-tolerant legume crops. This review highlights genomics-based methodologies and recent advances that make it easier to assess genetic diversity and uncover adaptive genes in legumes. Computational approaches, such as machine learning, are important in mining the breeding-related genes identified by CRISPR and other genomic tools, as well as detecting the key elements and factors that regulate the expression of these genes, which addresses the challenge of developing climate-resilient legume crops.","PeriodicalId":20064,"journal":{"name":"Plant Molecular Biology","volume":"115 5","pages":"106"},"PeriodicalIF":3.8,"publicationDate":"2025-09-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145016011","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Control of heat and oxidative stress adaptation by the DJ-1 paralogs in Arabidopsis thaliana. 拟南芥DJ-1亲缘关系对热应激和氧化应激适应的调控。

IF 3.8 2区生物学

Plant Molecular Biology Pub Date : 2025-08-21 DOI: 10.1007/s11103-025-01630-5

Priyanka Kataria, Naga Jyothi Pullagurla, Debabrata Laha, Patrick D'Silva

{"title":"Control of heat and oxidative stress adaptation by the DJ-1 paralogs in Arabidopsis thaliana.","authors":"Priyanka Kataria, Naga Jyothi Pullagurla, Debabrata Laha, Patrick D'Silva","doi":"10.1007/s11103-025-01630-5","DOIUrl":"https://doi.org/10.1007/s11103-025-01630-5","url":null,"abstract":"Plant growth and development are highly regulated processes and are majorly controlled by various environmental factors, whose extreme exposures lead to chronic stress conditions promoting reactive oxygen species (ROS) and carbonyl species (RCS) production. ROS and RCS extensively damage cellular biomolecules and organelles, affecting a plant's development. Emerging reports highlight that the multi-stress responding DJ-1 superfamily proteins are critical in attenuating cytotoxic effects associated with abiotic stress. The current report, validated in yeast and plant models, shows that AtDJ-1C and AtDJ-1E are robust antioxidants that scavenge ROS and improve survival under oxidative stress. Although they lack conventional glyoxalases and do not attenuate the glycation of proteins, AtDJ-1C and AtDJ-1E preserve the GSH pool and regulate redox homeostasis. Moreover, gene expression profiling indicates that levels of AtDJ-1C and AtDJ-1E are rapidly established to counter heat and oxidative stress conditions. Notably, the knockdown of AtDJ-1 C and AtDJ-1E promotes detrimental alterations such as reduced chlorophyll retention, impaired root morphogenesis, and induced sensitivity to heat stress due to ROS elevation. Contrastingly, overexpression of AtDJ-1C and AtDJ-1E improved plant height and rosette formation under physiological conditions. In conclusion, our study unravels the pivotal functions of Arabidopsis thaliana DJ-1C and DJ-1E in governing plant health and survival under heat and oxidative stress conditions.","PeriodicalId":20064,"journal":{"name":"Plant Molecular Biology","volume":"115 5","pages":"105"},"PeriodicalIF":3.8,"publicationDate":"2025-08-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144964595","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Transcriptional responses of Eucalyptus to infection by an aggressive leaf blight pathogen reveal the role of host secondary metabolites during pathogen germination. 桉树对侵袭性叶枯病病原菌侵染的转录反应揭示了寄主次生代谢物在病原菌萌发中的作用。

IF 3.8 2区生物学

Plant Molecular Biology Pub Date : 2025-08-11 DOI: 10.1007/s11103-025-01625-2

Myriam Solís, Almuth Hammerbacher, Michael J Wingfield, Sanushka Naidoo

{"title":"Transcriptional responses of Eucalyptus to infection by an aggressive leaf blight pathogen reveal the role of host secondary metabolites during pathogen germination.","authors":"Myriam Solís, Almuth Hammerbacher, Michael J Wingfield, Sanushka Naidoo","doi":"10.1007/s11103-025-01625-2","DOIUrl":"10.1007/s11103-025-01625-2","url":null,"abstract":"Teratosphaeria leaf blight disease caused by Teratosphaeria destructans poses a serious threat to Eucalyptus plantations worldwide. The pathogen infects leaves via stomatal penetration from 24 to 72 h after inoculation. Symptoms are visible after two weeks and pathogen sporulation commonly occurs four weeks after inoculation of a susceptible host. We studied the responses of a susceptible Eucalyptus clone during the entire disease cycle to identify susceptibility factors. RNA from healthy and infected leaves was isolated at 3, 14 and 28 days post inoculation. Differential expression and gene enrichment analysis showed that members of the transcription factor family TGA and MYB, involved in the salicylic acid and abscisic acid pathways, and genes involved in these hormone signaling pathways, were up-regulated. Overall, plant defense response pathways were enriched only at the late stage of infection (28 dpi). In contrast, both gene expression and chemical analysis revealed that the synthesis of the major flavonoids in Eucalyptus leaves was enhanced during pathogen infection, while the synthesis of terpenoids and flavan-3-ols declined. The flavonols, rutin and quercetin enhanced spore germination in-vitro while, the terpenoid eucalyptol and the flavan-3-ol catechin inhibited germination. This study provides insights into the molecular and chemical responses at different stages of infection of a susceptible host by T. destructans, thereby improving the current understanding of the pathosystem.","PeriodicalId":20064,"journal":{"name":"Plant Molecular Biology","volume":"115 5","pages":"104"},"PeriodicalIF":3.8,"publicationDate":"2025-08-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12339631/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144817351","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Retraction Note: A novel approach for developing resistance in rice against phloem limited viruses by antagonizing the phloem feeding hemipteran vectors. 通过拮抗以韧皮部为食的半翼载体，在水稻中发展对韧皮部限制病毒抗性的新方法。

IF 3.8 2区生物学

Plant Molecular Biology Pub Date : 2025-08-07 DOI: 10.1007/s11103-025-01633-2

Prasenjit Saha, Indranil Dasgupta, Sampa Das

引用次数: 0

TISCalling: leveraging machine learning to identify translational initiation sites in plants and viruses. 利用机器学习来识别植物和病毒的翻译起始位点。

IF 3.8 2区生物学

Plant Molecular Biology Pub Date : 2025-08-01 DOI: 10.1007/s11103-025-01632-3

Ming-Ren Yen, Ya-Ru Li, Chia-Yi Cheng, Ting-Ying Wu, Ming-Jung Liu

{"title":"TISCalling: leveraging machine learning to identify translational initiation sites in plants and viruses.","authors":"Ming-Ren Yen, Ya-Ru Li, Chia-Yi Cheng, Ting-Ying Wu, Ming-Jung Liu","doi":"10.1007/s11103-025-01632-3","DOIUrl":"10.1007/s11103-025-01632-3","url":null,"abstract":"The recognition of translational initiation sites (TISs) offers complementary insights into identifying genes encoding novel proteins or small peptides. Conventional computational methods primarily identify Ribo-seq-supported TISs and lack the capacity of systematic and global identification of TIS, especially for non-AUG sites in plants. Additionally, these methods are often unsuitable for evaluating the importance of mRNA sequence features for TIS determination. In this study, we present TISCalling, a robust framework that combines machine learning (ML) models and statistical analysis to identify and rank novel TISs across eukaryotes. TISCalling generalized and ranks important features common to multiple plant and mammalian species while identifying kingdom-specific features such as mRNA secondary structures and \"G\"-nucleotide contents. Furthermore, TISCalling achieved high predictive power for identifying novel viral TISs. Importantly, TISCalling provides prediction scores for putative TIS along plant transcripts, enabling prioritization of those of interest for further validation. We offer TISCalling as a command-line-based package [ https://github.com/yenmr/TISCalling ], capable of generating prediction models and identifying key sequence features. Additionally, we provide web tools [ https://predict.southerngenomics.org/TISCalling/ ] for visualizing pre-computed potential TISs, making it accessible to users without programming experience. The TISCalling framework offers a sequence-aware and interpretable approach for decoding genome sequences and exploring functional proteins in plants and viruses.","PeriodicalId":20064,"journal":{"name":"Plant Molecular Biology","volume":"115 4","pages":"102"},"PeriodicalIF":3.8,"publicationDate":"2025-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12316744/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144760776","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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