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The bioinformatic tools, characteristics, biological functions and molecular mechanisms associated with plant circular RNA 植物环状RNA的生物信息学工具、特征、生物学功能和分子机制
Pub Date : 2025-12-01 Epub Date: 2024-11-29 DOI: 10.1016/j.ncrops.2024.100062
Xiaowen Han , Yan Li , Wai Kyaw Htet Wai , Junliang Yin , Yongxing Zhu
Circular RNAs (circRNAs) are covalently closed RNA molecules formed through the back-splicing of precursor mRNA, widely found in eukaryotes. They regulate linear mRNA expression and fulfill various biological roles, including serving as miRNA sponges, interacting with proteins to modulate pathways, and influencing protein translation. CircRNAs have been extensively studied for their significant roles in plant growth, development, and responses to both abiotic and biotic stresses. This review presents a comprehensive summary of bioinformatics tools, online databases, characteristics, research methods, potential biological functions and molecular mechanisms of circRNA in plants. It specifically delves into strategies for studying circRNAs, including techniques for overexpression, silencing, and knockdown. Furthermore, it highlights molecular studies on the role of circRNA in plant growth and stress responses. The discussed mechanisms include circRNA acting as miRNA sponges, regulating parental gene expression, interacting with proteins, and exhibiting potential translational functions. By offering a detailed overview of plant circRNAs, this review aims to deepen researchers´ understanding and provide valuable insights for future circRNA studies.
环状RNA (circRNAs)是通过前体mRNA的反剪接形成的共价封闭RNA分子,广泛存在于真核生物中。它们调节mRNA的线性表达并发挥多种生物学作用,包括充当miRNA海绵、与蛋白质相互作用调节通路、影响蛋白质翻译等。环状rna因其在植物生长、发育以及对非生物和生物胁迫的响应中的重要作用而被广泛研究。本文就植物中circRNA的生物信息学工具、在线数据库、特点、研究方法、潜在生物学功能和分子机制等方面进行了综述。它专门研究了研究环状rna的策略,包括过表达、沉默和敲低技术。此外,它还强调了circRNA在植物生长和逆境反应中的分子研究。讨论的机制包括circRNA作为miRNA海绵,调节亲本基因表达,与蛋白质相互作用,并表现出潜在的翻译功能。通过对植物circRNA的详细概述,本综述旨在加深研究人员对 的理解,并为未来的circRNA研究提供有价值的见解。
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引用次数: 0
Precise control of falling flowers and fruits is a key part of improving quality and efficiency 精确控制落花落果是提高质量和效率的关键部分
Pub Date : 2025-12-01 Epub Date: 2024-09-21 DOI: 10.1016/j.ncrops.2024.100052
Gaofeng Liu, Zixin Zhang
The strategic implementation of measures to minimize and optimize the timing of fruit drop plays a critical role in enhancing both quality and efficiency. Recent studies in Arabidopsis have substantiated the role of a complex kinase axis, centered on BR-SIGNALING KINASE 1 (BSK1), which regulates organ abscission in plants. These findings revealed that BSK proteins may act as scaffolds for assembling HAESA/HAESA-LIKE2 (HAE/HSL2) and YODA (YDA), facilitating YDA activation by plasma membrane receptors. Once activated, YDA initiates the mitogen-activated protein kinase (MAPK) phosphorylation cascade, which ultimately triggers abscission. Furthermore, research suggests that this process involves a diverse range of transcriptional regulatory mechanisms. The findings of this study offer valuable insights for investigating similar processes in other crops, significantly advancing the field of plant abscission research.
有策略地采取措施尽量减少和优化落果时间,对提高质量和效率至关重要。最近对拟南芥的研究证实了以BR信号转导激酶1(BSK1)为中心的复杂激酶轴的作用,该激酶轴调节植物器官的脱落。这些研究结果表明,BSK 蛋白可能是组装 HAESA/HAESA-LIKE2 (HAE/HSL2)和 YODA(YDA)的支架,有助于质膜受体激活 YDA。一旦被激活,YDA 就会启动有丝分裂原激活蛋白激酶(MAPK)磷酸化级联,最终引发脱落。此外,研究表明这一过程涉及多种转录调控机制。本研究的发现为研究其他作物的类似过程提供了宝贵的见解,极大地推动了植物脱落研究领域的发展。
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引用次数: 0
The selection and utilization of heading date loci in modern wheat breeding 抽穗日期位点在现代小麦育种中的选择与利用
Pub Date : 2025-12-01 Epub Date: 2025-01-26 DOI: 10.1016/j.ncrops.2025.100066
Zhiwei Zhu, Xiangjun Lai, Yuanfei Zhang, Jialiang Zhang, Ji Shuang, Shengbao Xu
Heading and flowering timing are critical factors in wheat breeding for variety adaptation and yield. In this study, we identified four key QTLs associated with these traits in 406 accessions across various environments. Modern wheat varieties tend to exhibit earlier heading and flowering times compared to traditional landraces. This trend demonstrates a shift towards faster development in modern wheat, particularly in the Yangtze River wheat zone. Notably, three out of the four haplotypes associated with accelerated development are common in different Chinese agroecological zones. These favored haplotypes may enhance modern wheat yields by increasing grain weight. Our research highlights the importance of selecting optimal heading and flowering times in contemporary wheat breeding. This understanding can help balance rapid development with yield maximization.
抽穗和开花时间是小麦品种适应和产量的关键因素。在这项研究中,我们在不同环境下的406份材料中确定了与这些性状相关的4个关键qtl。与传统的地方品种相比,现代小麦品种往往表现出更早的抽穗和开花时间。这一趋势表明,现代小麦,特别是长江小麦产区的发展正在加快。值得注意的是,与加速发育相关的四种单倍型中有三种在中国不同的农业生态区是常见的。这些有利的单倍型可能通过增加籽粒重量来提高现代小麦产量。本研究突出了当代小麦育种中抽穗期和花期选择的重要性。这种理解有助于平衡快速发展与产量最大化。
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引用次数: 0
Molecular mechanisms of rice seed germination 水稻种子萌发的分子机制
Pub Date : 2025-12-01 Epub Date: 2024-09-18 DOI: 10.1016/j.ncrops.2024.100051
Dong Fu , Wenhua Wu , Ghazala Mustafa , Yong Yang , Pingfang Yang
Rice is a fundamental dietary worldwide. With the increasing adoption of direct seeding in rice cultivation, the need for rapid and synchronized germination, even under submerged conditions, has become critical. Additionally, addressing challenges such as pre-harvest sprouting and germination under various stress conditions is vital for improving rice production. Therefore, understanding the regulatory mechanisms that control rice seed germination is essential. Numerous studies have highlighted the pivotal roles of the phytohormones gibberellic acid (GA) and abscisic acid (ABA) in modulating rice seed germination, similar to their roles in Arabidopsis. Key factors, including genes that regulate germination under submergence, have been identified, further advancing our understanding of the molecular mechanisms underlying this process. This review synthesizes recent progress in the field, providing insights into the regulation of rice seed germination.
水稻是全世界的基本食物。随着水稻种植越来越多地采用直播,即使在浸没条件下,也需要快速同步发芽。此外,解决收获前发芽和各种胁迫条件下发芽等难题对于提高水稻产量也至关重要。因此,了解控制水稻种子萌发的调控机制至关重要。大量研究强调了植物激素赤霉素(GA)和脱落酸(ABA)在调节水稻种子萌发中的关键作用,这与它们在拟南芥中的作用类似。包括调控浸没条件下萌发的基因在内的关键因子已被确定,这进一步加深了我们对这一过程的分子机制的理解。本综述综述了该领域的最新进展,提供了有关水稻种子萌发调控的见解。
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引用次数: 0
Facing chilling, kinase-transcription factors relay cold tolerance signals 面对寒冷,激酶转录因子传递耐寒信号
Pub Date : 2025-12-01 Epub Date: 2024-11-14 DOI: 10.1016/j.ncrops.2024.100058
Ying Chen, Tiantian Ye, Shaoqing Tang, Peisong Hu
Rice (Oryza sativa L.), native to tropical regions, is highly vulnerable to low temperatures, limiting its geographical range and posing a substantial threat to global rice production. Our understanding of the molecular basis for cold tolerance in rice remains incomplete. A recent study identified OsERF52, an AP2/ERF transcription factor, as a new upstream regulator of OsCBFs, through a mutant screening approach. Under cold stress, phosphorylation of OsERF52 at Ser261 by OsSAPK9 not only stabilizes the protein but also enhances its interaction with IPA1 and OsICE1/OsbHLH002, leading to an increase in OsCBF transcription and enhanced chilling tolerance. Importantly, plants with a base-edited OsERF52S261D-3HA allele show improved cold resistance without yield loss under normal conditions. After chilling stress at the booting stage, these plants had significantly higher seed-setting rates than controls. These findings establish OsERF52 as a key regulator of OsCBFs, highlight a novel kinase-transcription factor complex that modulates cold response, and provide valuable genetic resources for breeding cold-tolerant rice varieties.
水稻(Oryza sativa L.)原产于热带地区,极易受到低温的影响,这限制了其地理范围,并对全球水稻生产构成重大威胁。我们对水稻耐冷性的分子基础的了解仍然不完整。最近的一项研究通过突变体筛选方法发现,AP2/ERF转录因子OsERF52是一种新的OsCBFs上游调节因子。在寒冷胁迫下,OsSAPK9磷酸化OsERF52的Ser261位点,不仅稳定了该蛋白,而且增强了其与IPA1和OsICE1/OsbHLH002的相互作用,导致OsCBF转录增加,增强了耐寒性。重要的是,具有碱基编辑的OsERF52S261D-3HA等位基因的植物在正常条件下表现出更高的抗寒性,而不会损失产量。在孕穗期低温胁迫后,这些植株的结实率显著高于对照。这些发现确立了OsERF52是OsCBFs的关键调控因子,突出了一种新的激酶-转录因子复合物调节冷反应,为培育耐寒水稻品种提供了宝贵的遗传资源。
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引用次数: 0
Genomic and modern biotechnological strategies for enhancing salt tolerance in crops 提高作物耐盐性的基因组和现代生物技术策略
Pub Date : 2025-12-01 Epub Date: 2024-11-02 DOI: 10.1016/j.ncrops.2024.100057
Jingya Yuan, Hongwei Cao, Wenlang Qin, Shijie Yang, Daiwei Zhang, Lin Zhu, Huiling Song, Qun Zhang
Extreme climate change and rapid population growth present significant challenges to global food security. Among these challenges, salt stress is a critical abiotic factor adversely affecting agricultural productivity worldwide. Plants respond to salinity through mechanisms such as ion homeostasis, osmoregulation, activation of antioxidant defense systems, and phytohormone signaling, all of which serve to mitigate ion toxicity and osmotic stress. Despite ongoing efforts, advancements in the breeding and rigorous selection of salt-tolerant crops have been limited. Furthermore, the full potential of genetic diversity found in crop landraces and their wild relatives remains largely unexplored. Investigating novel genes from wild relatives of crops presents a promising opportunity to identify superior salt-tolerant haplotypes. Genomic and molecular approaches for precision breeding are well-positioned to expedite the development of salt-tolerant cultivars. Consequently, this review aims to investigate novel salt-tolerant genes and the application of modern biotechnological tools to enhance salinity tolerance in crops.
极端气候变化和人口快速增长对全球粮食安全构成重大挑战。在这些挑战中,盐胁迫是影响全球农业生产力的关键非生物因素。植物通过离子稳态、渗透调节、抗氧化防御系统激活和植物激素信号传导等机制对盐度做出反应,所有这些机制都有助于减轻离子毒性和渗透胁迫。尽管不断努力,但在耐盐作物的育种和严格选择方面的进展仍然有限。此外,在作物地方品种及其野生近缘种中发现的遗传多样性的全部潜力在很大程度上仍未得到开发。研究来自作物野生近缘的新基因为鉴定优良的耐盐单倍型提供了一个有希望的机会。基因组和分子精确育种方法有利于加快耐盐品种的开发。因此,本文旨在研究新的耐盐基因和现代生物技术手段在提高作物耐盐性方面的应用。
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引用次数: 0
Exploring membrane proteins dynamic in plant cells with fluorescence correlation spectroscopy 利用荧光相关光谱探索植物细胞中的膜蛋白动态
Pub Date : 2025-12-01 Epub Date: 2024-07-01 DOI: 10.1016/j.ncrops.2024.100032
Wenwen Duan , Kaiwen Li , Jialu Li , Ning Ding , Suting Wang , Yaling Zou , Zihao Zhang , Zhikun Duan , Jingjing Xing

Biomolecule interactions and macromolecular rearrangement participate in numerous cellular functions in plants, and resolving the dynamics of plasma membrane proteins represents a central goal in current plant biology. Compared to yeast and mammalian systems, the quantification of heterogeneous distribution and dynamics of membrane proteins in cellular processes remains sparse in plant cells. In this study, we introduce the application of fluorescence correlation spectroscopy (FCS) and fluorescence cross-correlation spectroscopy (FCCS) in measuring membrane protein diffusion, concentration and interactions in living plant cell. The review showed FCS/FCCS as a tool for imaging the membrane proteins fused with a fluorescent tag, quantifying the density fluctuation and interactions of membrane proteins in the living cells of plants. Owing to the single-molecular level sensitivity and minimally invasive of FCS/FCCS, their application provides an ideal approach to understanding plant cell membrane lateral organization.

生物分子相互作用和大分子重排参与了植物细胞的许多功能,而解析质膜蛋白的动态是当前植物生物学的一个核心目标。与酵母和哺乳动物系统相比,植物细胞中膜蛋白在细胞过程中的异质分布和动态的定量研究仍然很少。本研究介绍了荧光相关光谱(FCS)和荧光交叉相关光谱(FCCS)在测量活体植物细胞中膜蛋白扩散、浓度和相互作用方面的应用。综述显示,FCS/FCCS 是对融合了荧光标签的膜蛋白进行成像的工具,可量化植物活细胞中膜蛋白的密度波动和相互作用。由于 FCS/FCCS 具有单分子水平的灵敏度和微创性,其应用为了解植物细胞膜横向组织提供了一种理想的方法。
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引用次数: 0
Design of rice with low cadmium accumulation in grain using single segment substitution line 利用单段替代系设计谷粒中镉积累量低的水稻
Pub Date : 2025-12-01 Epub Date: 2024-07-14 DOI: 10.1016/j.ncrops.2024.100035
Xue Yuan , Ruiqing Liang , Gan Wang , Shuaipeng Ma , Na Liu , Yongfu Gong , Susan R. Mccouch , Haitao Zhu , Zupei Liu , Zhan Li , GuiFu Liu , Suhong Bu , Guiquan Zhang , Shaokui Wang

Rice (Oryza sativa L.) is a major dietary source of cadmium (Cd). Developing rice varieties with reduced Cd levels in the grain is a cost-effective and practical approach to enhance food safety, particularly in regions with high Cd contamination. However, the genetic mechanisms underlying Cd accumulation in rice grains are not fully understood. In this study, we identified eight quantitative trait loci (QTLs) associated with Cd accumulation in rice grains through substitution mapping using single segment substitution lines (SSSLs). These QTLs, named qCd‐2‐1, qCd‐3‐1, qCd‐3‐2, qCd‐5‐1, qCd‐6‐1, qCd‐7‐1, qCd‐8‐1, and qCd‐11‐1, are distributed across seven chromosomes. Notably, the qCd‐5‐1 and qCd‐6‐1 loci are reported for the first time. We performed a detailed haplotype analysis of candidate genes related to heavy metal metabolism, specifically focusing on Cd accumulation. All SSSLs carrying alleles from donor parents exhibited a significant reduction in Cd accumulation, with additive effects ranging from −0.061 to −0.105. To further develop rice varieties with lower Cd accumulation in the grain, we developed six pyramided lines through crossing and marker-assisted selection. These pyramided lines showed significantly reduced Cd content in the grain compared to the elite indica recurrent parent, Huajingxian74 (HJX74). Importantly, most agronomic characteristics of the pyramided lines were similar to those of HJX74. In conclusion, this study demonstrates that identifying and pyramiding QTLs associated with reduced Cd accumulation is an effective strategy for developing rice varieties with lower Cd content in the grain.

水稻(Oryza sativa L.)是镉(Cd)的主要膳食来源。特别是在镉污染严重的地区,开发谷物中镉含量降低的水稻品种是提高食品安全的一种具有成本效益的实用方法。然而,稻谷中镉积累的遗传机制尚未完全明了。在这项研究中,我们通过使用单节段替代系(SSSLs)进行替代图谱绘制,确定了八个与稻谷镉积累相关的数量性状位点(QTLs)。这些 QTL 分布在 7 条染色体上,分别被命名为 qCd-2-1、qCd-3-1、qCd-3-2、qCd-5-1、qCd-6-1、qCd-7-1、qCd-8-1 和 qCd-11-1。值得注意的是,qCd-5-1 和 qCd-6-1 位点是首次报道。我们对与重金属代谢相关的候选基因进行了详细的单倍型分析,尤其侧重于镉的积累。所有携带供体亲本等位基因的 SSSL 都表现出镉积累的显著降低,加性效应从-0.061 到-0.105 不等。为了进一步培育谷粒中镉积累量更低的水稻品种,我们通过杂交和标记辅助选择培育出了六个金字塔型品系。与优良籼稻复交亲本华恢74(HJX74)相比,这些金字塔型品系的谷粒中镉含量明显降低。重要的是,金字塔型品系的大多数农艺性状与 HJX74 相似。总之,本研究表明,鉴定与减少镉积累相关的 QTLs 并将其进行分层是培育谷粒中镉含量较低的水稻品种的有效策略。
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引用次数: 0
The development and prospects of insect-resistant crops expressing double-strand RNAs 表达双链rna的抗虫作物的研究进展与展望
Pub Date : 2025-12-01 Epub Date: 2024-11-28 DOI: 10.1016/j.ncrops.2024.100061
Wei Zhang , Shihui Li , Zaihui Zhou , Weihua Ma
RNA interference (RNAi) triggered by double-stranded RNA (dsRNA) has shown effectiveness against many major agricultural insect pests worldwide. With its remarkable specificity and high efficiency, RNAi holds great promise for modern pest management in agriculture. Modern plant biotechnology has advanced the use of plant-mediated RNAi for pest control, known as host-induced gene silencing (HIGS), which specifically targets essential genes in pest species. It has now been over 20 years since HIGS was first introduced. This review will summarize recent progress in developing insect-resistant crops that express dsRNA, and will discuss the future potential of this technology in agricultural pest management.
由双链RNA (dsRNA)引发的RNA干扰(RNAi)技术在世界范围内已显示出对多种主要农业害虫的有效防治作用。RNAi具有显著的特异性和高效率,在现代农业有害生物防治中具有广阔的应用前景。现代植物生物技术促进了植物介导的RNAi在害虫防治中的应用,即宿主诱导的基因沉默(HIGS),它专门针对害虫物种的必需基因。自HIGS首次问世至今,已经过去了20多年。本文综述了近年来表达dsRNA的抗虫作物的研究进展,并讨论了该技术在农业病虫害防治中的应用前景。
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引用次数: 0
Unveiling CRISPR/Cas in rapeseed: Triumphs, trials, and tomorrow 揭开 CRISPR/Cas 在油菜籽中的神秘面纱:胜利、考验和明天
Pub Date : 2025-12-01 Epub Date: 2024-08-30 DOI: 10.1016/j.ncrops.2024.100045
Shahid Ullah Khan , Minchao Qian , Shengting Li , Yonghai Fan , Hui Wang , Wei Chang , Osama Alam , Sumbul Saeed , Kun Lu
The clustered regularly interspaced short palindromic repeats (CRISPR) genome-editing technique has revolutionized our understanding of plant genomes. Over a decade ago, scientists began using CRISPR/Cas to rapidly breed plant species, model and non-model crops, and modify plant genomes to study specific genes and metabolic pathways. While the CRISPR/Cas system holds immense potential for genome editing, numerous obstacles may prevent it from fully realizing this potential. This paper reviews the history and current state of CRISPR/Cas9-mediated gene editing technology in rapeseed. Our discussion focuses on the advancements CRISPR/Cas9 has made in enhancing plant characteristics such as yield traits, quality, and disease resistance. To provide comprehensive insights for research focused on gene function studies or genetic improvement through genome editing technology, we review the latest progress in plant applications using emerging precise genome editing technologies and discuss the limitations, including technological hurdles. We also explore CRISPR/Cas applications in oilseed rape to achieve improved results within this framework. This review covers genes controlling abiotic stresses in rapeseed at various developmental stages and examines related literature on CRISPR/Cas technology applications. While much remains to be discovered, the existing background information will guide future investigations into genetic enhancement using CRISPR, beyond what is discussed here. We believe this literature will inspire deep interest and create new opportunities for scientists working on rapeseed improvement.
聚类规则间隔短回文重复序列(CRISPR)基因组编辑技术彻底改变了我们对植物基因组的认识。十多年前,科学家们开始利用 CRISPR/Cas 快速培育植物物种、模式和非模式作物,并修改植物基因组以研究特定基因和代谢途径。虽然 CRISPR/Cas 系统在基因组编辑方面拥有巨大潜力,但许多障碍可能会阻碍它充分发挥这一潜力。本文回顾了 CRISPR/Cas9 介导的油菜基因编辑技术的历史和现状。我们的讨论重点是 CRISPR/Cas9 在提高产量性状、品质和抗病性等植物特性方面取得的进展。为了给侧重于基因功能研究或通过基因组编辑技术进行遗传改良的研究提供全面的见解,我们回顾了利用新兴精确基因组编辑技术在植物应用方面的最新进展,并讨论了其局限性,包括技术障碍。我们还探讨了 CRISPR/Cas 在油菜中的应用,以便在此框架内取得更好的结果。本综述涵盖油菜不同发育阶段控制非生物胁迫的基因,并研究了 CRISPR/Cas 技术应用的相关文献。虽然还有很多东西有待发现,但现有的背景信息将指导未来利用 CRISPR 进行遗传改良的研究,而不局限于本文所讨论的内容。我们相信,这些文献将激发人们的浓厚兴趣,并为从事油菜籽改良的科学家创造新的机遇。
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引用次数: 0
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New Crops
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