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Annual review of plant biology最新文献

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Histone Variants in the Specialization of Plant Chromatin. 植物染色质特化过程中的组蛋白变异
IF 21.3 1区 生物学
Annual review of plant biology Pub Date : 2022-05-20 Epub Date: 2022-02-15 DOI: 10.1146/annurev-arplant-070221-050044
Maryam Foroozani, Dylan H Holder, Roger B Deal
{"title":"Histone Variants in the Specialization of Plant Chromatin.","authors":"Maryam Foroozani, Dylan H Holder, Roger B Deal","doi":"10.1146/annurev-arplant-070221-050044","DOIUrl":"10.1146/annurev-arplant-070221-050044","url":null,"abstract":"<p><p>The basic unit of chromatin, the nucleosome, is an octamer of four core histone proteins (H2A, H2B, H3, and H4) and serves as a fundamental regulatory unit in all DNA-templated processes. The majority of nucleosome assembly occurs during DNA replication when these core histones are produced en masse to accommodate the nascent genome. In addition, there are a number of nonallelic sequence variants of H2A and H3 in particular, known as histone variants, that can be incorporated into nucleosomes in a targeted and replication-independent manner. By virtue of their sequence divergence from the replication-coupled histones, these histone variants can impart unique properties onto the nucleosomes they occupy and thereby influence transcription and epigenetic states, DNA repair, chromosome segregation, and other nuclear processes in ways that profoundly affect plant biology. In this review, we discuss the evolutionary origins of these variants in plants, their known roles in chromatin, and their impacts on plant development and stress responses. We focus on the individual and combined roles of histone variants in transcriptional regulation within euchromatic and heterochromatic genome regions. Finally, we highlight gaps in our understanding of plant variants at the molecular, cellular, and organismal levels, and we propose new directions for study in the field of plant histone variants.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":"73 ","pages":"149-172"},"PeriodicalIF":21.3,"publicationDate":"2022-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9133179/pdf/nihms-1789921.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39926409","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Plant GATA Factors: Their Biology, Phylogeny, and Phylogenomics. 植物GATA因子:生物学、系统发育和系统基因组学。
IF 23.9 1区 生物学
Annual review of plant biology Pub Date : 2022-05-20 Epub Date: 2022-02-07 DOI: 10.1146/annurev-arplant-072221-092913
Claus Schwechheimer, Peter Michael Schröder, Crysten E Blaby-Haas
{"title":"Plant GATA Factors: Their Biology, Phylogeny, and Phylogenomics.","authors":"Claus Schwechheimer,&nbsp;Peter Michael Schröder,&nbsp;Crysten E Blaby-Haas","doi":"10.1146/annurev-arplant-072221-092913","DOIUrl":"https://doi.org/10.1146/annurev-arplant-072221-092913","url":null,"abstract":"<p><p>GATA factors are evolutionarily conserved transcription factors that are found in animals, fungi, and plants. Compared to that of animals, the size of the plant GATA family is increased. In angiosperms, four main GATA classes and seven structural subfamilies can be defined. In recent years, knowledge about the biological role and regulation of plant GATAs has substantially improved. Individual family members have been implicated in the regulation of photomorphogenic growth, chlorophyll biosynthesis, chloroplast development, photosynthesis, and stomata formation, as well as root, leaf, and flower development. In this review, we summarize the current knowledge of plant GATA factors. Using phylogenomic analysis, we trace the evolutionary origin of the GATA classes in the green lineage and examine their relationship to animal and fungal GATAs. Finally, we speculate about a possible conservation of GATA-regulated functions across the animal, fungal, and plant kingdoms.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":"73 ","pages":"123-148"},"PeriodicalIF":23.9,"publicationDate":"2022-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39594134","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 19
Phosphorus Acquisition and Utilization in Plants. 植物磷的获取与利用。
IF 23.9 1区 生物学
Annual review of plant biology Pub Date : 2022-05-20 Epub Date: 2021-12-15 DOI: 10.1146/annurev-arplant-102720-125738
Hans Lambers
{"title":"Phosphorus Acquisition and Utilization in Plants.","authors":"Hans Lambers","doi":"10.1146/annurev-arplant-102720-125738","DOIUrl":"https://doi.org/10.1146/annurev-arplant-102720-125738","url":null,"abstract":"<p><p>Tremendous progress has been made on molecular aspects of plant phosphorus (P) nutrition, often without heeding information provided by soil scientists, ecophysiologists, and crop physiologists. This review suggests ways to integrate information from different disciplines. When soil P availability is very low, P-mobilizing strategies are more effective than mycorrhizal strategies. Soil parameters largely determine how much P roots can acquire from P-impoverished soil, and kinetic properties of P transporters are less important. Changes in the expression of P transporters avoid P toxicity. Plants vary widely in photosynthetic P-use efficiency, photosynthesis per unit leaf P. The challenge is to discover what the trade-offs are of different patterns of investment in P fractions. Less investment may save P, but are costs incurred? Are these costs acceptable for crops? These questions can be resolved only by the concerted action of scientists working at both molecular and physiological levels, rather than pursuing these problems independently.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":"73 ","pages":"17-42"},"PeriodicalIF":23.9,"publicationDate":"2022-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39816434","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 140
Long-Distance Transported RNAs: From Identity to Function. 远距离转运rna:从身份到功能。
IF 23.9 1区 生物学
Annual review of plant biology Pub Date : 2022-05-20 Epub Date: 2021-12-15 DOI: 10.1146/annurev-arplant-070121-033601
Julia Kehr, Richard J Morris, Friedrich Kragler
{"title":"Long-Distance Transported RNAs: From Identity to Function.","authors":"Julia Kehr,&nbsp;Richard J Morris,&nbsp;Friedrich Kragler","doi":"10.1146/annurev-arplant-070121-033601","DOIUrl":"https://doi.org/10.1146/annurev-arplant-070121-033601","url":null,"abstract":"<p><p>There is now a wealth of data, from different plants and labs and spanning more than two decades, which unequivocally demonstrates that RNAs can be transported over long distances, from the cell where they are transcribed to distal cells in other tissues. Different types of RNA molecules are transported, including micro- and messenger RNAs. Whether these RNAs are selected for transport and, if so, how they are selected and transported remain, in general, open questions. This aspect is likely not independent of the biological function and relevance of the transported RNAs, which are in most cases still unclear. In this review, we summarize the experimental data supporting selectivity or nonselectivity of RNA translocation and review the evidence for biological functions. After discussing potential issues regarding the comparability between experiments, we propose criteria that need to be critically evaluated to identify important signaling RNAs.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":"73 ","pages":"457-474"},"PeriodicalIF":23.9,"publicationDate":"2022-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39816432","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 11
Plant Proteome Dynamics. 植物蛋白质组动力学。
IF 23.9 1区 生物学
Annual review of plant biology Pub Date : 2022-05-20 Epub Date: 2022-02-09 DOI: 10.1146/annurev-arplant-102620-031308
Julia Mergner, Bernhard Kuster
{"title":"Plant Proteome Dynamics.","authors":"Julia Mergner,&nbsp;Bernhard Kuster","doi":"10.1146/annurev-arplant-102620-031308","DOIUrl":"https://doi.org/10.1146/annurev-arplant-102620-031308","url":null,"abstract":"<p><p>Proteins are intimately involved in executing and controlling virtually all cellular processes. To understand the molecular mechanisms that underlie plant phenotypes, it is essential to investigate protein expression, interactions, and modifications, to name a few. The proteome is highly dynamic in time and space, and a plethora of protein modifications, protein interactions, and network constellations are at play under specific conditions and developmental stages. Analysis of proteomes aims to characterize the entire protein complement of a particular cell type, tissue, or organism-a challenging task, given the dynamic nature of the proteome. Modern mass spectrometry-based proteomics technology can be used to address this complexity at a system-wide scale by the global identification and quantification of thousands of proteins. In this review, we present current methods and technologies employed in mass spectrometry-based proteomics and provide examples of dynamic changes in the plant proteome elucidated by proteomic approaches.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":"73 ","pages":"67-92"},"PeriodicalIF":23.9,"publicationDate":"2022-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39902853","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 14
Engineering Apomixis: Clonal Seeds Approaching the Fields. 工程无杂交:无性系种子接近田间。
IF 23.9 1区 生物学
Annual review of plant biology Pub Date : 2022-05-20 Epub Date: 2022-02-09 DOI: 10.1146/annurev-arplant-102720-013958
Charles J Underwood, Raphael Mercier
{"title":"Engineering Apomixis: Clonal Seeds Approaching the Fields.","authors":"Charles J Underwood,&nbsp;Raphael Mercier","doi":"10.1146/annurev-arplant-102720-013958","DOIUrl":"https://doi.org/10.1146/annurev-arplant-102720-013958","url":null,"abstract":"<p><p>Apomixis is a form of reproduction leading to clonal seeds and offspring that are genetically identical to the maternal plant. While apomixis naturally occurs in hundreds of plant species distributed across diverse plant families, it is absent in major crop species. Apomixis has a revolutionary potential in plant breeding, as it could allow the instant fixation and propagation though seeds of any plant genotype, most notably F<sub>1</sub> hybrids. Mastering and implementing apomixis would reduce the cost of hybrid seed production, facilitate new types of hybrid breeding, and make it possible to harness hybrid vigor in crops that are not presently cultivated as hybrids. Synthetic apomixis can be engineered by combining modifications of meiosis and fertilization. Here, we review the current knowledge and recent major achievements toward the development of efficient apomictic systems usable in agriculture.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":"73 ","pages":"201-225"},"PeriodicalIF":23.9,"publicationDate":"2022-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39902854","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 15
Phloem Loading and Unloading of Sucrose: What a Long, Strange Trip from Source to Sink. 蔗糖韧皮部的装载和卸载:从源头到汇的漫长而奇怪的旅程。
IF 23.9 1区 生物学
Annual review of plant biology Pub Date : 2022-05-20 Epub Date: 2022-02-16 DOI: 10.1146/annurev-arplant-070721-083240
David M Braun
{"title":"Phloem Loading and Unloading of Sucrose: What a Long, Strange Trip from Source to Sink.","authors":"David M Braun","doi":"10.1146/annurev-arplant-070721-083240","DOIUrl":"https://doi.org/10.1146/annurev-arplant-070721-083240","url":null,"abstract":"<p><p>Sucrose is transported from sources (mature leaves) to sinks (importing tissues such as roots, stems, fruits, and seeds) through the phloem tissues in veins. In many herbaceous crop species, sucrose must first be effluxed to the cell wall by a sugar transporter of the SWEET family prior to being taken up into phloem companion cells or sieve elements by a different sugar transporter, called SUT or SUC. The import of sucrose into these cells is termed apoplasmic phloem loading. In sinks, sucrose can similarly exit the phloem apoplasmically or, alternatively, symplasmically through plasmodesmata into connecting parenchyma storage cells. Recent advances describing the regulation and manipulation of sugar transporter expression and activities provide stimulating new insights into sucrose phloem loading in sources and unloading processes in sink tissues. Additionally, new breakthroughs have revealed distinct subpopulations of cells in leaves with different functions pertaining to phloem loading. These and other discoveries in sucrose transport are discussed.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":"73 ","pages":"553-584"},"PeriodicalIF":23.9,"publicationDate":"2022-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39928193","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 35
Spatial Features and Functional Implications of Plant 3D Genome Organization. 植物三维基因组组织的空间特征及其功能意义
IF 23.9 1区 生物学
Annual review of plant biology Pub Date : 2022-05-20 Epub Date: 2022-02-07 DOI: 10.1146/annurev-arplant-102720-022810
Katherine Domb, Nan Wang, Guillaume Hummel, Chang Liu
{"title":"Spatial Features and Functional Implications of Plant 3D Genome Organization.","authors":"Katherine Domb,&nbsp;Nan Wang,&nbsp;Guillaume Hummel,&nbsp;Chang Liu","doi":"10.1146/annurev-arplant-102720-022810","DOIUrl":"https://doi.org/10.1146/annurev-arplant-102720-022810","url":null,"abstract":"<p><p>The advent of high-throughput sequencing-based methods for chromatin conformation, accessibility, and immunoprecipitation assays has been a turning point in 3D genomics. Altogether, these new tools have been pushing upward the interpretation of pioneer cytogenetic evidence for a higher order in chromatin packing. Here, we review the latest development in our understanding of plant spatial genome structures and different levels of organization and discuss their functional implications. Then, we spotlight the complexity of organellar (i.e., mitochondria and plastids) genomes and discuss their 3D packing into nucleoids. Finally, we propose unaddressed research axes to investigate functional links between chromatin-like dynamics and transcriptional regulation within organellar nucleoids.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":"73 ","pages":"173-200"},"PeriodicalIF":23.9,"publicationDate":"2022-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39594133","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 7
Adventures in Life and Science, from Light to Rhythms. 生命与科学的冒险，从光到节奏。
IF 23.9 1区 生物学
Annual review of plant biology Pub Date : 2022-05-20 Epub Date: 2022-02-07 DOI: 10.1146/annurev-arplant-090921-091346
Elaine Tobin
{"title":"Adventures in Life and Science, from Light to Rhythms.","authors":"Elaine Tobin","doi":"10.1146/annurev-arplant-090921-091346","DOIUrl":"https://doi.org/10.1146/annurev-arplant-090921-091346","url":null,"abstract":"<p><p>The author describes her life's pathway from her beginnings at a time when women were not well represented in the sciences. Her grandparents were immigrants to the United States. Although her parents were not able to go to college because of the Great Depression, they supported her education and other adventures. In addition to her interest in science, she describes her interest and involvement in politics. Her education at Oberlin, Stanford, and Harvard prepared her for her independent career at the University of California, Los Angeles, where she was an affirmative action appointment. Her research initially centered on the plant photoreceptor phytochrome, but later in her career she investigated circadian rhythms in plants, discovering and characterizing one of the members of the central oscillator.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":"73 ","pages":"1-16"},"PeriodicalIF":23.9,"publicationDate":"2022-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39594132","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
VIGS Goes Viral: How VIGS Transforms Our Understanding of Plant Science. VIGS病毒:VIGS如何改变我们对植物科学的理解。
IF 23.9 1区 生物学
Annual review of plant biology Pub Date : 2022-05-20 Epub Date: 2022-02-09 DOI: 10.1146/annurev-arplant-102820-020542
Clemens Rössner, Dominik Lotz, Annette Becker
{"title":"VIGS Goes Viral: How VIGS Transforms Our Understanding of Plant Science.","authors":"Clemens Rössner,&nbsp;Dominik Lotz,&nbsp;Annette Becker","doi":"10.1146/annurev-arplant-102820-020542","DOIUrl":"https://doi.org/10.1146/annurev-arplant-102820-020542","url":null,"abstract":"<p><p>Virus-induced gene silencing (VIGS) has developed into an indispensable approach to gene function analysis in a wide array of species, many of which are not amenable to stable genetic transformation. VIGS utilizes the posttranscriptional gene silencing (PTGS) machinery of plants to restrain viral infections systemically and is used to downregulate the plant's endogenous genes. Here, we review the molecular mechanisms of DNA- and RNA-virus-based VIGS, its inherent connection to PTGS, and what is known about the systemic spread of silencing. Recently, VIGS-based technologies have been expanded to enable not only gene silencing but also overexpression [virus-induced overexpression (VOX)], genome editing [virus-induced genome editing (VIGE)], and host-induced gene silencing (HIGS). These techniques expand the genetic toolbox for nonmodel organisms even more. Further, we illustrate the versatility of VIGS and the methods derived from it in elucidating molecular mechanisms, using tomato fruit ripening and programmed cell death as examples. Finally, we discuss challenges of and future perspectives on the use of VIGS to advance gene function analysis in nonmodel plants in the postgenomic era.</p>","PeriodicalId":8335,"journal":{"name":"Annual review of plant biology","volume":"73 ","pages":"703-728"},"PeriodicalIF":23.9,"publicationDate":"2022-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39607434","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 20
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