首页 > 最新文献

Current opinion in plant biology最新文献

英文 中文
Enjoy the silence: Canonical and non-canonical RNA silencing activity during plant sexual reproduction 享受沉默植物有性生殖过程中的规范和非规范 RNA 沉默活动
IF 8.3 2区 生物学 Q1 PLANT SCIENCES Pub Date : 2024-11-04 DOI: 10.1016/j.pbi.2024.102654
Jinping Cheng, German Martinez
Plants produce small RNAs that accomplish a surprisingly versatile number of functions. The heterogeneity of functions of plant small RNAs is evident at the tissue-specific level. In particular, in the last years, the study of their activity in reproductive tissues has unmasked an unexpected diversity in their biogenesis and roles. Here, we review recent findings about the biogenesis pathways and roles of small RNAs during plant sexual reproduction.
植物产生的小 RNA 具有令人惊讶的多种功能。在组织特异性水平上,植物小 RNA 功能的多样性显而易见。特别是在过去几年中,对它们在生殖组织中活性的研究揭示了它们在生物发生和作用方面意想不到的多样性。在此,我们回顾了有关植物有性生殖过程中小 RNA 的生物发生途径和作用的最新发现。
{"title":"Enjoy the silence: Canonical and non-canonical RNA silencing activity during plant sexual reproduction","authors":"Jinping Cheng,&nbsp;German Martinez","doi":"10.1016/j.pbi.2024.102654","DOIUrl":"10.1016/j.pbi.2024.102654","url":null,"abstract":"<div><div>Plants produce small RNAs that accomplish a surprisingly versatile number of functions. The heterogeneity of functions of plant small RNAs is evident at the tissue-specific level. In particular, in the last years, the study of their activity in reproductive tissues has unmasked an unexpected diversity in their biogenesis and roles. Here, we review recent findings about the biogenesis pathways and roles of small RNAs during plant sexual reproduction.</div></div>","PeriodicalId":11003,"journal":{"name":"Current opinion in plant biology","volume":"82 ","pages":"Article 102654"},"PeriodicalIF":8.3,"publicationDate":"2024-11-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142579049","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
The m6A-YTH regulatory system in plants: A status 植物中的 m6A-YTH 调节系统:现状。
IF 8.3 2区 生物学 Q1 PLANT SCIENCES Pub Date : 2024-11-01 DOI: 10.1016/j.pbi.2024.102650
Peter Brodersen , Laura Arribas-Hernández
Plants use mRNA methylation to regulate gene expression. As in other eukaryotes, the only abundant methylated nucleotide in plant mRNA bodies is N6-methyladenosine (m6A). The conserved core components of m6A-based genetic control are a multi-subunit nuclear methyltransferase, and a set of nuclear and cytoplasmic RNA-binding proteins consisting of an m6A recognition module, the YT521-B homology (YTH) domain, and long intrinsically disordered regions (IDRs). In plants, this system is essential for growth during embryonic and post-embryonic development, but emerging evidence also points to key functions in plant-virus interactions and stimulus-dependent gene regulation. Cytoplasmic YTH-domain proteins are particularly important for these functions, and recent progress has identified two elements of the underlying molecular mechanisms: IDR-mediated phase separation and conserved short linear motifs mediating interactions with other key mRNA-binding proteins.
植物利用 mRNA 甲基化来调节基因表达。与其他真核生物一样,植物 mRNA 体内唯一丰富的甲基化核苷酸是 N6-甲基腺苷(m6A)。基于 m6A 的基因控制的保守核心成分是一个多亚基核甲基转移酶,以及一组由 m6A 识别模块、YT521-B 同源(YTH)结构域和长内在无序区(IDR)组成的核和细胞质 RNA 结合蛋白。在植物的胚胎和胚后发育过程中,该系统对生长至关重要,但新出现的证据也表明,它在植物与病毒的相互作用和依赖刺激的基因调控中也发挥着关键作用。细胞质 YTH-结构域蛋白对这些功能尤为重要,最近的研究进展已经确定了潜在分子机制的两个要素:最近的进展已经确定了潜在分子机制的两个要素:IDR 介导的相分离和介导与其他关键 mRNA 结合蛋白相互作用的保守短线性基团。
{"title":"The m6A-YTH regulatory system in plants: A status","authors":"Peter Brodersen ,&nbsp;Laura Arribas-Hernández","doi":"10.1016/j.pbi.2024.102650","DOIUrl":"10.1016/j.pbi.2024.102650","url":null,"abstract":"<div><div>Plants use mRNA methylation to regulate gene expression. As in other eukaryotes, the only abundant methylated nucleotide in plant mRNA bodies is <em>N6</em>-methyladenosine (m<sup>6</sup>A). The conserved core components of m<sup>6</sup>A-based genetic control are a multi-subunit nuclear methyltransferase, and a set of nuclear and cytoplasmic RNA-binding proteins consisting of an m<sup>6</sup>A recognition module, the YT521-B homology (YTH) domain, and long intrinsically disordered regions (IDRs). In plants, this system is essential for growth during embryonic and post-embryonic development, but emerging evidence also points to key functions in plant-virus interactions and stimulus-dependent gene regulation. Cytoplasmic YTH-domain proteins are particularly important for these functions, and recent progress has identified two elements of the underlying molecular mechanisms: IDR-mediated phase separation and conserved short linear motifs mediating interactions with other key mRNA-binding proteins.</div></div>","PeriodicalId":11003,"journal":{"name":"Current opinion in plant biology","volume":"82 ","pages":"Article 102650"},"PeriodicalIF":8.3,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142564159","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
Unlocking diversity from wild relatives of perennial fruit crops in the pan-genomics era 在泛基因组学时代发掘多年生水果作物野生近缘植物的多样性。
IF 8.3 2区 生物学 Q1 PLANT SCIENCES Pub Date : 2024-10-30 DOI: 10.1016/j.pbi.2024.102652
Jean Sabety, Anze Svara, Richard Tegtmeier, Hana Feulner, Patrick Cho, Aafreen Sakina, David Hickok, Awais Khan
Crop wild relatives of perennial fruit crops have a wealth of untapped genetic diversity that can be utilized for cultivar development. However, barriers such as linkage drag, long juvenility, and high heterozygosity have hindered their utilization. Advancements in genome sequencing technologies and assembly methods, combined with the integration of chromosome conformation capture have made it possible to construct high-quality reference genomes. These genome assemblies can be combined into pan-genomes, capturing inter- and intraspecific variations across coding and non-coding regions. Pan-genomes of perennial fruit crops are being developed to identify the genetic basis of traits. This will help overcome breeding challenges, enabling faster and more targeted development of new cultivars with novel traits through breeding and biotechnology.
多年生水果作物野生近缘种具有丰富的未开发遗传多样性,可用于栽培品种的开发。然而,连接阻滞、幼年期长和杂合度高等障碍阻碍了对它们的利用。基因组测序技术和组装方法的进步,再加上染色体构象捕捉技术的整合,使得构建高质量的参考基因组成为可能。这些基因组组装可以组合成泛基因组,捕捉编码区和非编码区的种间和种内变异。目前正在开发多年生水果作物的泛基因组,以确定性状的遗传基础。这将有助于克服育种方面的挑战,通过育种和生物技术更快、更有针对性地开发具有新性状的新栽培品种。
{"title":"Unlocking diversity from wild relatives of perennial fruit crops in the pan-genomics era","authors":"Jean Sabety,&nbsp;Anze Svara,&nbsp;Richard Tegtmeier,&nbsp;Hana Feulner,&nbsp;Patrick Cho,&nbsp;Aafreen Sakina,&nbsp;David Hickok,&nbsp;Awais Khan","doi":"10.1016/j.pbi.2024.102652","DOIUrl":"10.1016/j.pbi.2024.102652","url":null,"abstract":"<div><div>Crop wild relatives of perennial fruit crops have a wealth of untapped genetic diversity that can be utilized for cultivar development. However, barriers such as linkage drag, long juvenility, and high heterozygosity have hindered their utilization. Advancements in genome sequencing technologies and assembly methods, combined with the integration of chromosome conformation capture have made it possible to construct high-quality reference genomes. These genome assemblies can be combined into pan-genomes, capturing inter- and intraspecific variations across coding and non-coding regions. Pan-genomes of perennial fruit crops are being developed to identify the genetic basis of traits. This will help overcome breeding challenges, enabling faster and more targeted development of new cultivars with novel traits through breeding and biotechnology.</div></div>","PeriodicalId":11003,"journal":{"name":"Current opinion in plant biology","volume":"82 ","pages":"Article 102652"},"PeriodicalIF":8.3,"publicationDate":"2024-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142544293","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
Current status of MSI research in Japan to measure the localization of natural products in plants 日本测量植物中天然产品定位的 MSI 研究现状。
IF 8.3 2区 生物学 Q1 PLANT SCIENCES Pub Date : 2024-10-19 DOI: 10.1016/j.pbi.2024.102651
Kotaro Yamamoto , Mai Uzaki , Katsutoshi Takahashi , Tetsuro Mimura
To understand biological functions in organisms, it is important to investigate what is happening in different locations in cells and tissues. The conventional approach is to extract compounds from whole tissue, and then to measure their concentrations or other characteristics using equipment tailored to the different molecules. Recent advances in mass spectrometry have made it possible to measure trace amounts of compounds. Mass spectrometry imaging (MSI), which uses positional information and mass spectrometry data to show where and how much of each compound is present in tissues, has been in the spotlight. Improvements in MSI over the past few decades have enabled its use for visualizing the localization of small molecules including drugs, lipids, and many other compounds in a range of organisms. MSI has also been used to clarify the localization of natural products in plant tissues.
This review summarizes the recent research related to MSI technology in Japan.
要了解生物体内的生物功能,就必须研究细胞和组织内不同位置发生了什么。传统的方法是从整个组织中提取化合物,然后使用专门针对不同分子的设备测量其浓度或其他特征。质谱技术的最新进展使测量痕量化合物成为可能。质谱成像(MSI)利用位置信息和质谱数据来显示每种化合物在组织中的位置和含量,一直备受关注。在过去的几十年中,质谱成像技术不断进步,使其能够用于可视化小分子(包括药物、脂质和许多其他化合物)在一系列生物体中的定位。MSI 还被用于阐明天然产物在植物组织中的定位。本综述总结了日本与 MSI 技术有关的最新研究。
{"title":"Current status of MSI research in Japan to measure the localization of natural products in plants","authors":"Kotaro Yamamoto ,&nbsp;Mai Uzaki ,&nbsp;Katsutoshi Takahashi ,&nbsp;Tetsuro Mimura","doi":"10.1016/j.pbi.2024.102651","DOIUrl":"10.1016/j.pbi.2024.102651","url":null,"abstract":"<div><div>To understand biological functions in organisms, it is important to investigate what is happening in different locations in cells and tissues. The conventional approach is to extract compounds from whole tissue, and then to measure their concentrations or other characteristics using equipment tailored to the different molecules. Recent advances in mass spectrometry have made it possible to measure trace amounts of compounds. Mass spectrometry imaging (MSI), which uses positional information and mass spectrometry data to show where and how much of each compound is present in tissues, has been in the spotlight. Improvements in MSI over the past few decades have enabled its use for visualizing the localization of small molecules including drugs, lipids, and many other compounds in a range of organisms. MSI has also been used to clarify the localization of natural products in plant tissues.</div><div>This review summarizes the recent research related to MSI technology in Japan.</div></div>","PeriodicalId":11003,"journal":{"name":"Current opinion in plant biology","volume":"82 ","pages":"Article 102651"},"PeriodicalIF":8.3,"publicationDate":"2024-10-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142460095","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
Biosynthesis of oxindole alkaloids: Recent advances and challenges 吲哚生物碱的生物合成:最新进展与挑战。
IF 8.3 2区 生物学 Q1 PLANT SCIENCES Pub Date : 2024-10-03 DOI: 10.1016/j.pbi.2024.102648
Ana C. Ramos-Valdivia , Carlos M. Cerda-García-Rojas
The monoterpenoid oxindole alkaloids (MOA) are specialized plant metabolites of pharmacological importance, whose biosynthesis is linked to a unique oxidative process of monoterpenoid indole alkaloids (MIA). These transformations arise from complex biosynthetic pathways defined by species, organs, tissues, and growth stages. Initial studies of their biosynthesis using labeled precursors date back more than five decades ago. This review shows the advances in this topic within the years 2022–2023, which highlight the research by integrative omics strategies, validating previously stated hypotheses. The MOA biosynthesis pathway is beginning to be elucidated, especially in the early and intermediate stages starting from MIA. Also, progress in the characterization of enzymes that regulate the process has been made. The discovery of a key enzyme in the formation of the spirooxindole scaffold represents a starting point for an enormous amount of work that remains to be done to clarify and understand the formation mechanisms of MOA.
单萜吲哚生物碱(MOA)是具有重要药理作用的特殊植物代谢产物,其生物合成与单萜吲哚生物碱(MIA)的独特氧化过程有关。这些转化产生于不同物种、器官、组织和生长阶段的复杂生物合成途径。利用标记前体对其生物合成的初步研究可追溯到五十多年前。这篇综述展示了 2022-2023 年这一主题的研究进展,其中突出强调了通过综合全息策略进行的研究,验证了之前提出的假设。MOA的生物合成途径已开始被阐明,特别是从MIA开始的早期和中期阶段。此外,对调节该过程的酶的特征描述也取得了进展。螺吲哚支架形成过程中一种关键酶的发现是一个起点,要阐明和了解 MOA 的形成机制,还有大量工作要做。
{"title":"Biosynthesis of oxindole alkaloids: Recent advances and challenges","authors":"Ana C. Ramos-Valdivia ,&nbsp;Carlos M. Cerda-García-Rojas","doi":"10.1016/j.pbi.2024.102648","DOIUrl":"10.1016/j.pbi.2024.102648","url":null,"abstract":"<div><div>The monoterpenoid oxindole alkaloids (MOA) are specialized plant metabolites of pharmacological importance, whose biosynthesis is linked to a unique oxidative process of monoterpenoid indole alkaloids (MIA). These transformations arise from complex biosynthetic pathways defined by species, organs, tissues, and growth stages. Initial studies of their biosynthesis using labeled precursors date back more than five decades ago. This review shows the advances in this topic within the years 2022–2023, which highlight the research by integrative omics strategies, validating previously stated hypotheses. The MOA biosynthesis pathway is beginning to be elucidated, especially in the early and intermediate stages starting from MIA. Also, progress in the characterization of enzymes that regulate the process has been made. The discovery of a key enzyme in the formation of the spirooxindole scaffold represents a starting point for an enormous amount of work that remains to be done to clarify and understand the formation mechanisms of MOA.</div></div>","PeriodicalId":11003,"journal":{"name":"Current opinion in plant biology","volume":"82 ","pages":"Article 102648"},"PeriodicalIF":8.3,"publicationDate":"2024-10-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142375280","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
Diversity and development of domatia: Symbiotic plant structures to host mutualistic ants or mites 蚁巢的多样性和发展:寄生蚂蚁或螨虫的共生植物结构
IF 8.3 2区 生物学 Q1 PLANT SCIENCES Pub Date : 2024-09-30 DOI: 10.1016/j.pbi.2024.102647
Guillaume Chomicki , Nathanael Walker–Hale , J. Peter Etchells , Eleanore J. Ritter , Marjorie G. Weber
Across the tree of life, specialized structures that offer nesting sites to ants or mites – known as domatia – have evolved independently hundreds of times, facilitating ecologically important defence and/or nutritional mutualisms. Domatia show remarkable diversity in morphology and developmental origin. Here we review the morpho-anatomical diversity of domatia, aiming to unveil the primary mechanisms governing their development. We propose hypotheses to explain the formation of these structures, based on anatomical studies of domatia and developmental genetic analyses in model species. While genes involved in domatium formation are so far unknown, domatia appear to originate via spatiotemporal shifts in the expression of common developmental genetic pathways. Our review paves the way to the genetic dissection of domatium development.
在生命之树上,为蚂蚁或螨虫提供筑巢场所的特化结构--即 "巢穴"(domatia)--已经独立进化了数百次,促进了具有重要生态意义的防御和/或营养互惠关系。蚁巢在形态和发育起源方面表现出显著的多样性。在此,我们回顾了多瘤动物的形态解剖多样性,旨在揭示其发育的主要机制。我们根据穹隆的解剖学研究和模式物种的发育遗传分析,提出了解释这些结构形成的假说。虽然参与穹隆形成的基因迄今尚不清楚,但穹隆似乎是通过共同发育遗传途径表达的时空变化而形成的。我们的综述为从遗传学角度剖析穹隆的发育铺平了道路。
{"title":"Diversity and development of domatia: Symbiotic plant structures to host mutualistic ants or mites","authors":"Guillaume Chomicki ,&nbsp;Nathanael Walker–Hale ,&nbsp;J. Peter Etchells ,&nbsp;Eleanore J. Ritter ,&nbsp;Marjorie G. Weber","doi":"10.1016/j.pbi.2024.102647","DOIUrl":"10.1016/j.pbi.2024.102647","url":null,"abstract":"<div><div>Across the tree of life, specialized structures that offer nesting sites to ants or mites – known as domatia – have evolved independently hundreds of times, facilitating ecologically important defence and/or nutritional mutualisms. Domatia show remarkable diversity in morphology and developmental origin. Here we review the morpho-anatomical diversity of domatia, aiming to unveil the primary mechanisms governing their development. We propose hypotheses to explain the formation of these structures, based on anatomical studies of domatia and developmental genetic analyses in model species. While genes involved in domatium formation are so far unknown, domatia appear to originate via spatiotemporal shifts in the expression of common developmental genetic pathways. Our review paves the way to the genetic dissection of domatium development.</div></div>","PeriodicalId":11003,"journal":{"name":"Current opinion in plant biology","volume":"82 ","pages":"Article 102647"},"PeriodicalIF":8.3,"publicationDate":"2024-09-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142357884","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
Emerging trends in plant natural products biosynthesis: a chemical perspective 植物天然产物生物合成的新趋势:化学视角
IF 8.3 2区 生物学 Q1 PLANT SCIENCES Pub Date : 2024-09-30 DOI: 10.1016/j.pbi.2024.102649
Sarah Szwarc, Pierre Le Pogam, Mehdi A. Beniddir
Biosynthetic pathways are multistep processes transforming simple substrates into more complex structures. Over the past two decades, our understanding of these pathways, especially for specialized plant metabolites, has significantly increased. This surge is due to numerous scientific advancements such as next-generation sequencing, improved analytical platforms, and metabolite-transcript networks. The uprising of data sharing through public databases has also fostered collaboration and knowledge dissemination. Growing concerns about the supply of therapeutic natural products and their environmental impact have led to exploring sustainable alternatives like heterologous expression, which requires extensive knowledge of these pathways. Herein, we review emerging approaches in biosynthetic pathway elucidations and their prospects for their efficient integration.
生物合成途径是将简单底物转化为更复杂结构的多步骤过程。在过去的二十年里,我们对这些途径的了解,尤其是对特殊植物代谢物的了解有了显著提高。这一突飞猛进得益于众多科学进步,如下一代测序、改进的分析平台和代谢物-转录物网络。通过公共数据库实现数据共享也促进了合作和知识传播。人们日益关注治疗性天然产品的供应及其对环境的影响,因此开始探索可持续的替代方法,如异源表达,这需要对这些途径有广泛的了解。在此,我们回顾了生物合成途径阐释的新兴方法及其有效整合的前景。
{"title":"Emerging trends in plant natural products biosynthesis: a chemical perspective","authors":"Sarah Szwarc,&nbsp;Pierre Le Pogam,&nbsp;Mehdi A. Beniddir","doi":"10.1016/j.pbi.2024.102649","DOIUrl":"10.1016/j.pbi.2024.102649","url":null,"abstract":"<div><div>Biosynthetic pathways are multistep processes transforming simple substrates into more complex structures. Over the past two decades, our understanding of these pathways, especially for specialized plant metabolites, has significantly increased. This surge is due to numerous scientific advancements such as next-generation sequencing, improved analytical platforms, and metabolite-transcript networks. The uprising of data sharing through public databases has also fostered collaboration and knowledge dissemination. Growing concerns about the supply of therapeutic natural products and their environmental impact have led to exploring sustainable alternatives like heterologous expression, which requires extensive knowledge of these pathways. Herein, we review emerging approaches in biosynthetic pathway elucidations and their prospects for their efficient integration.</div></div>","PeriodicalId":11003,"journal":{"name":"Current opinion in plant biology","volume":"82 ","pages":"Article 102649"},"PeriodicalIF":8.3,"publicationDate":"2024-09-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142357883","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
Transcriptional junk: Waste or a key regulator in diverse biological processes? 转录垃圾:垃圾还是各种生物过程的关键调节器?
IF 8.3 2区 生物学 Q1 PLANT SCIENCES Pub Date : 2024-09-26 DOI: 10.1016/j.pbi.2024.102639
Anwesha Anyatama, Tapasya Datta, Shambhavi Dwivedi, Prabodh Kumar Trivedi
Plant genomes, through their evolutionary journey, have developed a complex composition that includes not only protein-coding sequences but also a significant amount of non-coding DNA, repetitive sequences, and transposable elements, traditionally labeled as “junk DNA”. RNA molecules from these regions, labeled as “transcriptional junk,” include non-coding RNAs, alternatively spliced transcripts, untranslated regions (UTRs), and short open reading frames (sORFs). However, recent research shows that this genetic material plays crucial roles in gene regulation, affecting plant growth, development, hormonal balance, and responses to stresses. Additionally, some of these regulatory regions encode small proteins, such as miRNA-encoded peptides (miPEPs) and microProteins (miPs), which interact with DNA or nuclear proteins, leading to chromatin remodeling and modulation of gene expression. This review aims to consolidate our understanding of the diverse roles that these so-called “transcriptional junk” regions play in regulating various physiological processes in plants.
植物基因组在进化过程中形成了复杂的组成,不仅包括蛋白质编码序列,还包括大量非编码 DNA、重复序列和可转座元件(传统上称为 "垃圾 DNA")。这些区域的 RNA 分子被称为 "转录垃圾",包括非编码 RNA、替代剪接转录本、非翻译区(UTR)和短开放阅读框(sORF)。然而,最近的研究表明,这些遗传物质在基因调控中发挥着至关重要的作用,影响着植物的生长、发育、激素平衡和对胁迫的反应。此外,这些调控区中有一些编码小蛋白,如 miRNA 编码肽(miPEPs)和微蛋白(miPs),它们与 DNA 或核蛋白相互作用,导致染色质重塑和基因表达调控。本综述旨在巩固我们对这些所谓的 "转录垃圾 "区域在调控植物各种生理过程中所起的不同作用的认识。
{"title":"Transcriptional junk: Waste or a key regulator in diverse biological processes?","authors":"Anwesha Anyatama,&nbsp;Tapasya Datta,&nbsp;Shambhavi Dwivedi,&nbsp;Prabodh Kumar Trivedi","doi":"10.1016/j.pbi.2024.102639","DOIUrl":"10.1016/j.pbi.2024.102639","url":null,"abstract":"<div><div>Plant genomes, through their evolutionary journey, have developed a complex composition that includes not only protein-coding sequences but also a significant amount of non-coding DNA, repetitive sequences, and transposable elements, traditionally labeled as “junk DNA”. RNA molecules from these regions, labeled as “transcriptional junk,” include non-coding RNAs, alternatively spliced transcripts, untranslated regions (UTRs), and short open reading frames (sORFs). However, recent research shows that this genetic material plays crucial roles in gene regulation, affecting plant growth, development, hormonal balance, and responses to stresses. Additionally, some of these regulatory regions encode small proteins, such as miRNA-encoded peptides (miPEPs) and microProteins (miPs), which interact with DNA or nuclear proteins, leading to chromatin remodeling and modulation of gene expression. This review aims to consolidate our understanding of the diverse roles that these so-called “transcriptional junk” regions play in regulating various physiological processes in plants.</div></div>","PeriodicalId":11003,"journal":{"name":"Current opinion in plant biology","volume":"82 ","pages":"Article 102639"},"PeriodicalIF":8.3,"publicationDate":"2024-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142322816","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
β-Glucosidases in specialized metabolism: Towards a new understanding of the gatekeepers of plant chemical arsenal 特殊代谢中的β-葡糖苷酶:重新认识植物化学武库的看门人
IF 8.3 2区 生物学 Q1 PLANT SCIENCES Pub Date : 2024-09-25 DOI: 10.1016/j.pbi.2024.102638
Angeliki Stathaki , Georgia Pantidi , Margarita Thomopoulou , Konstantinos Koudounas
Plants produce an exceptional multitude of chemicals to compensate with challenging environments. Despite the structural pluralism of specialized metabolism, often defensive compounds are stored in planta as glycosides and reactive aglycones are conditionally activated by specific β-glucosidases—a large family of enzymes with pluripotent contribution in homeostasis and a pivotal role in plant chemical defense. Typically, these detonating enzymes are characterized by exceptional substrate specificity and, in several cases, even isoenzymes exhibit differentiated molecular or biochemical characteristics. This article focuses on important intrinsic characteristics of plant β-glucosidases detonating defensive compounds and highlights recent studies with novel implications in regulatory mechanisms.
植物会产生大量特殊的化学物质,以应对充满挑战的环境。尽管特化代谢的结构多种多样,但防御性化合物通常以苷的形式储存在植物体内,而活性苷凝物则由特定的β-葡萄糖苷酶有条件地激活--β-葡萄糖苷酶是一个庞大的酶家族,在植物体内平衡中具有多能性,在植物化学防御中起着关键作用。通常,这些引爆酶具有特殊的底物特异性,在某些情况下,甚至同工酶也表现出不同的分子或生化特征。本文重点介绍了植物β-葡萄糖苷酶引爆防御性化合物的重要内在特征,并着重介绍了对调控机制有新影响的最新研究。
{"title":"β-Glucosidases in specialized metabolism: Towards a new understanding of the gatekeepers of plant chemical arsenal","authors":"Angeliki Stathaki ,&nbsp;Georgia Pantidi ,&nbsp;Margarita Thomopoulou ,&nbsp;Konstantinos Koudounas","doi":"10.1016/j.pbi.2024.102638","DOIUrl":"10.1016/j.pbi.2024.102638","url":null,"abstract":"<div><div>Plants produce an exceptional multitude of chemicals to compensate with challenging environments. Despite the structural pluralism of specialized metabolism, often defensive compounds are stored <em>in planta</em> as glycosides and reactive aglycones are conditionally activated by specific β-glucosidases—a large family of enzymes with pluripotent contribution in homeostasis and a pivotal role in plant chemical defense. Typically, these detonating enzymes are characterized by exceptional substrate specificity and, in several cases, even isoenzymes exhibit differentiated molecular or biochemical characteristics. This article focuses on important intrinsic characteristics of plant β-glucosidases detonating defensive compounds and highlights recent studies with novel implications in regulatory mechanisms.</div></div>","PeriodicalId":11003,"journal":{"name":"Current opinion in plant biology","volume":"82 ","pages":"Article 102638"},"PeriodicalIF":8.3,"publicationDate":"2024-09-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142320196","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
Plant cell walls: source of carbohydrate-based signals in plant-pathogen interactions 植物细胞壁:植物与病原体相互作用中基于碳水化合物的信号源
IF 8.3 2区 生物学 Q1 PLANT SCIENCES Pub Date : 2024-09-21 DOI: 10.1016/j.pbi.2024.102630
Antonio Molina , Andrea Sánchez-Vallet , Lucía Jordá , Cristian Carrasco-López , José Juan Rodríguez-Herva , Emilia López-Solanilla

Plant cell walls are essential elements for disease resistance that pathogens need to overcome to colonise the host. Certain pathogens secrete a large battery of enzymes to hydrolyse plant cell wall polysaccharides, which leads to the release of carbohydrate-based molecules (glycans) that are perceived by plant pattern recognition receptors and activate pattern-triggered immunity and disease resistance. These released glycans are used by colonizing microorganisms as carbon source, chemoattractants to locate entry points at plant surface, and as signals triggering gene expression reprogramming. The release of wall glycans and their perception by plants and microorganisms determines plant-microbial interaction outcome. Here, we summarise and discuss the most recent advances in these less explored aspects of plant-microbe interaction.

植物细胞壁是抗病的基本要素,病原体需要克服这些要素才能在宿主体内定居。某些病原体会分泌大量酶来水解植物细胞壁多糖,从而释放出以碳水化合物为基础的分子(聚糖),这些分子会被植物模式识别受体感知,并激活模式触发免疫和抗病能力。定殖微生物利用这些释放的聚糖作为碳源和趋化吸引剂,以确定植物表面的进入点,并作为触发基因表达重编程的信号。植物和微生物对壁糖的释放和感知决定了植物与微生物相互作用的结果。在此,我们总结并讨论了植物与微生物相互作用中这些探索较少的方面的最新进展。
{"title":"Plant cell walls: source of carbohydrate-based signals in plant-pathogen interactions","authors":"Antonio Molina ,&nbsp;Andrea Sánchez-Vallet ,&nbsp;Lucía Jordá ,&nbsp;Cristian Carrasco-López ,&nbsp;José Juan Rodríguez-Herva ,&nbsp;Emilia López-Solanilla","doi":"10.1016/j.pbi.2024.102630","DOIUrl":"10.1016/j.pbi.2024.102630","url":null,"abstract":"<div><p>Plant cell walls are essential elements for disease resistance that pathogens need to overcome to colonise the host. Certain pathogens secrete a large battery of enzymes to hydrolyse plant cell wall polysaccharides, which leads to the release of carbohydrate-based molecules (glycans) that are perceived by plant pattern recognition receptors and activate pattern-triggered immunity and disease resistance. These released glycans are used by colonizing microorganisms as carbon source, chemoattractants to locate entry points at plant surface, and as signals triggering gene expression reprogramming. The release of wall glycans and their perception by plants and microorganisms determines plant-microbial interaction outcome. Here, we summarise and discuss the most recent advances in these less explored aspects of plant-microbe interaction.</p></div>","PeriodicalId":11003,"journal":{"name":"Current opinion in plant biology","volume":"82 ","pages":"Article 102630"},"PeriodicalIF":8.3,"publicationDate":"2024-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S1369526624001213/pdfft?md5=9b3cccb746532c55406a1c639ceeda4d&pid=1-s2.0-S1369526624001213-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142274311","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
期刊
Current opinion in plant biology
全部 Acc. Chem. Res. ACS Applied Bio Materials ACS Appl. Electron. Mater. ACS Appl. Energy Mater. ACS Appl. Mater. Interfaces ACS Appl. Nano Mater. ACS Appl. Polym. Mater. ACS BIOMATER-SCI ENG ACS Catal. ACS Cent. Sci. ACS Chem. Biol. ACS Chemical Health & Safety ACS Chem. Neurosci. ACS Comb. Sci. ACS Earth Space Chem. ACS Energy Lett. ACS Infect. Dis. ACS Macro Lett. ACS Mater. Lett. ACS Med. Chem. Lett. ACS Nano ACS Omega ACS Photonics ACS Sens. ACS Sustainable Chem. Eng. ACS Synth. Biol. Anal. Chem. BIOCHEMISTRY-US Bioconjugate Chem. BIOMACROMOLECULES Chem. Res. Toxicol. Chem. Rev. Chem. Mater. CRYST GROWTH DES ENERG FUEL Environ. Sci. Technol. Environ. Sci. Technol. Lett. Eur. J. Inorg. Chem. IND ENG CHEM RES Inorg. Chem. J. Agric. Food. Chem. J. Chem. Eng. Data J. Chem. Educ. J. Chem. Inf. Model. J. Chem. Theory Comput. J. Med. Chem. J. Nat. Prod. J PROTEOME RES J. Am. Chem. Soc. LANGMUIR MACROMOLECULES Mol. Pharmaceutics Nano Lett. Org. Lett. ORG PROCESS RES DEV ORGANOMETALLICS J. Org. Chem. J. Phys. Chem. J. Phys. Chem. A J. Phys. Chem. B J. Phys. Chem. C J. Phys. Chem. Lett. Analyst Anal. Methods Biomater. Sci. Catal. Sci. Technol. Chem. Commun. Chem. Soc. Rev. CHEM EDUC RES PRACT CRYSTENGCOMM Dalton Trans. Energy Environ. Sci. ENVIRON SCI-NANO ENVIRON SCI-PROC IMP ENVIRON SCI-WAT RES Faraday Discuss. Food Funct. Green Chem. Inorg. Chem. Front. Integr. Biol. J. Anal. At. Spectrom. J. Mater. Chem. A J. Mater. Chem. B J. Mater. Chem. C Lab Chip Mater. Chem. Front. Mater. Horiz. MEDCHEMCOMM Metallomics Mol. Biosyst. Mol. Syst. Des. Eng. Nanoscale Nanoscale Horiz. Nat. Prod. Rep. New J. Chem. Org. Biomol. Chem. Org. Chem. Front. PHOTOCH PHOTOBIO SCI PCCP Polym. Chem.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1