Christiane Nawrath, Lukas Schreiber, Rochus Benni Franke, Niko Geldner, José J Reina-Pinto, Ljerka Kunst
{"title":"Apoplastic diffusion barriers in Arabidopsis.","authors":"Christiane Nawrath, Lukas Schreiber, Rochus Benni Franke, Niko Geldner, José J Reina-Pinto, Ljerka Kunst","doi":"10.1199/tab.0167","DOIUrl":"10.1199/tab.0167","url":null,"abstract":"<p><p>During the development of Arabidopsis and other land plants, diffusion barriers are formed in the apoplast of specialized tissues within a variety of plant organs. While the cuticle of the epidermis is the primary diffusion barrier in the shoot, the Casparian strips and suberin lamellae of the endodermis and the periderm represent the diffusion barriers in the root. Different classes of molecules contribute to the formation of extracellular diffusion barriers in an organ- and tissue-specific manner. Cutin and wax are the major components of the cuticle, lignin forms the early Casparian strip, and suberin is deposited in the stage II endodermis and the periderm. The current status of our understanding of the relationships between the chemical structure, ultrastructure and physiological functions of plant diffusion barriers is discussed. Specific aspects of the synthesis of diffusion barrier components and protocols that can be used for the assessment of barrier function and important barrier properties are also presented. </p>","PeriodicalId":74946,"journal":{"name":"The arabidopsis book","volume":"11 ","pages":"e0167"},"PeriodicalIF":0.0,"publicationDate":"2013-12-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1199/tab.0167","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32062658","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
The arabidopsis bookPub Date : 2013-11-01eCollection Date: 2013-01-01DOI: 10.1199/tab.0166
Ruth Finkelstein
{"title":"Abscisic Acid synthesis and response.","authors":"Ruth Finkelstein","doi":"10.1199/tab.0166","DOIUrl":"https://doi.org/10.1199/tab.0166","url":null,"abstract":"<p><p>Abscisic acid (ABA) is one of the \"classical\" plant hormones, i.e. discovered at least 50 years ago, that regulates many aspects of plant growth and development. This chapter reviews our current understanding of ABA synthesis, metabolism, transport, and signal transduction, emphasizing knowledge gained from studies of Arabidopsis. A combination of genetic, molecular and biochemical studies has identified nearly all of the enzymes involved in ABA metabolism, almost 200 loci regulating ABA response, and thousands of genes regulated by ABA in various contexts. Some of these regulators are implicated in cross-talk with other developmental, environmental or hormonal signals. Specific details of the ABA signaling mechanisms vary among tissues or developmental stages; these are discussed in the context of ABA effects on seed maturation, germination, seedling growth, vegetative stress responses, stomatal regulation, pathogen response, flowering, and senescence. </p>","PeriodicalId":74946,"journal":{"name":"The arabidopsis book","volume":"11 ","pages":"e0166"},"PeriodicalIF":0.0,"publicationDate":"2013-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1199/tab.0166","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31900077","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
The arabidopsis bookPub Date : 2013-07-18Print Date: 2013-01-01DOI: 10.1199/tab.0165
Bijoyita Roy, Albrecht G von Arnim
{"title":"Translational Regulation of Cytoplasmic mRNAs.","authors":"Bijoyita Roy, Albrecht G von Arnim","doi":"10.1199/tab.0165","DOIUrl":"10.1199/tab.0165","url":null,"abstract":"<p><p>Translation of the coding potential of a messenger RNA into a protein molecule is a fundamental process in all living cells and consumes a large fraction of metabolites and energy resources in growing cells. Moreover, translation has emerged as an important control point in the regulation of gene expression. At the level of gene regulation, translational control is utilized to support the specific life histories of plants, in particular their responses to the abiotic environment and to metabolites. This review summarizes the diversity of translational control mechanisms in the plant cytoplasm, focusing on specific cases where mechanisms of translational control have evolved to complement or eclipse other levels of gene regulation. We begin by introducing essential features of the translation apparatus. We summarize early evidence for translational control from the pre-Arabidopsis era. Next, we review evidence for translation control in response to stress, to metabolites, and in development. The following section emphasizes RNA sequence elements and biochemical processes that regulate translation. We close with a chapter on the role of signaling pathways that impinge on translation. </p>","PeriodicalId":74946,"journal":{"name":"The arabidopsis book","volume":"11 ","pages":"e0165"},"PeriodicalIF":0.0,"publicationDate":"2013-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3727577/pdf/tab.0165.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31626259","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
The arabidopsis bookPub Date : 2013-06-11Print Date: 2013-01-01DOI: 10.1199/tab.0164
Kimberley Tilbrook, Adriana B Arongaus, Melanie Binkert, Marc Heijde, Ruohe Yin, Roman Ulm
{"title":"The UVR8 UV-B Photoreceptor: Perception, Signaling and Response.","authors":"Kimberley Tilbrook, Adriana B Arongaus, Melanie Binkert, Marc Heijde, Ruohe Yin, Roman Ulm","doi":"10.1199/tab.0164","DOIUrl":"10.1199/tab.0164","url":null,"abstract":"<p><p>Ultraviolet-B radiation (UV-B) is an intrinsic part of sunlight that is accompanied by significant biological effects. Plants are able to perceive UV-B using the UV-B photoreceptor UVR8 which is linked to a specific molecular signaling pathway and leads to UV-B acclimation. Herein we review the biological process in plants from initial UV-B perception and signal transduction through to the known UV-B responses that promote survival in sunlight. The UVR8 UV-B photoreceptor exists as a homodimer that instantly monomerises upon UV-B absorption via specific intrinsic tryptophans which act as UV-B chromophores. The UVR8 monomer interacts with COP1, an E3 ubiquitin ligase, initiating a molecular signaling pathway that leads to gene expression changes. This signaling output leads to UVR8-dependent responses including UV-B-induced photomorphogenesis and the accumulation of UV-B-absorbing flavonols. Negative feedback regulation of the pathway is provided by the WD40-repeat proteins RUP1 and RUP2, which facilitate UVR8 redimerization, disrupting the UVR8-COP1 interaction. Despite rapid advancements in the field of recent years, further components of UVR8 UV-B signaling are constantly emerging, and the precise interplay of these and the established players UVR8, COP1, RUP1, RUP2 and HY5 needs to be defined. UVR8 UV-B signaling represents our further understanding of how plants are able to sense their light environment and adjust their growth accordingly. </p>","PeriodicalId":74946,"journal":{"name":"The arabidopsis book","volume":"11 ","pages":"e0164"},"PeriodicalIF":0.0,"publicationDate":"2013-06-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1199/tab.0164","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31232778","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
The arabidopsis bookPub Date : 2013-06-07Print Date: 2013-01-01DOI: 10.1199/tab.0163
Hirokazu Tsukaya
{"title":"Leaf development.","authors":"Hirokazu Tsukaya","doi":"10.1199/tab.0163","DOIUrl":"https://doi.org/10.1199/tab.0163","url":null,"abstract":"<p><p>Leaves are the most important organs for plants. Without leaves, plants cannot capture light energy or synthesize organic compounds via photosynthesis. Without leaves, plants would be unable perceive diverse environmental conditions, particularly those relating to light quality/quantity. Without leaves, plants would not be able to flower because all floral organs are modified leaves. Arabidopsis thaliana is a good model system for analyzing mechanisms of eudicotyledonous, simple-leaf development. The first section of this review provides a brief history of studies on development in Arabidopsis leaves. This history largely coincides with a general history of advancement in understanding of the genetic mechanisms operating during simple-leaf development in angiosperms. In the second section, I outline events in Arabidopsis leaf development, with emphasis on genetic controls. Current knowledge of six important components in these developmental events is summarized in detail, followed by concluding remarks and perspectives. </p>","PeriodicalId":74946,"journal":{"name":"The arabidopsis book","volume":"11 ","pages":"e0163"},"PeriodicalIF":0.0,"publicationDate":"2013-06-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1199/tab.0163","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31230319","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
The arabidopsis bookPub Date : 2013-06-06Print Date: 2013-01-01DOI: 10.1199/tab.0162
Lynn Jo Pillitteri, Juan Dong
{"title":"Stomatal development in Arabidopsis.","authors":"Lynn Jo Pillitteri, Juan Dong","doi":"10.1199/tab.0162","DOIUrl":"https://doi.org/10.1199/tab.0162","url":null,"abstract":"<p><p>Stomata consist of two guard cells that function as turgor-operated valves that regulate gas exchange in plants. In Arabidopsis, a dedicated cell lineage is initiated and undergoes a series of cell divisions and cell-state transitions to produce a stoma. A set of basic helix-loop-helix (bHLH) transcription factors regulates the transition and differentiation events through the lineage, while the placement of stomata relative to each other is controlled by intercellular signaling via peptide ligands, transmembrane receptors, and mitogen-activated protein kinase (MAPK) modules. Some genes involved in regulating stomatal differentiation or density are also involved in hormonal and environmental stress responses, which may provide a link between modulation of stomatal development or function in response to changes in the environment. Premitotic polarlylocalized proteins provide an added layer of regulation, which can be addressed more thoroughly with the identification of additional proteins in this pathway. Linking the networks that control stomatal development promises to bring advances to our understanding of signal transduction, cell polarity, and cell-fate specification in plants. </p>","PeriodicalId":74946,"journal":{"name":"The arabidopsis book","volume":"11 ","pages":"e0162"},"PeriodicalIF":0.0,"publicationDate":"2013-06-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1199/tab.0162","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31230318","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
The arabidopsis bookPub Date : 2013-01-01Epub Date: 2013-01-29DOI: 10.1199/tab.0161
Yonghua Li-Beisson, Basil Shorrosh, Fred Beisson, Mats X Andersson, Vincent Arondel, Philip D Bates, Sébastien Baud, David Bird, Allan Debono, Timothy P Durrett, Rochus B Franke, Ian A Graham, Kenta Katayama, Amélie A Kelly, Tony Larson, Jonathan E Markham, Martine Miquel, Isabel Molina, Ikuo Nishida, Owen Rowland, Lacey Samuels, Katherine M Schmid, Hajime Wada, Ruth Welti, Changcheng Xu, Rémi Zallot, John Ohlrogge
{"title":"Acyl-lipid metabolism.","authors":"Yonghua Li-Beisson, Basil Shorrosh, Fred Beisson, Mats X Andersson, Vincent Arondel, Philip D Bates, Sébastien Baud, David Bird, Allan Debono, Timothy P Durrett, Rochus B Franke, Ian A Graham, Kenta Katayama, Amélie A Kelly, Tony Larson, Jonathan E Markham, Martine Miquel, Isabel Molina, Ikuo Nishida, Owen Rowland, Lacey Samuels, Katherine M Schmid, Hajime Wada, Ruth Welti, Changcheng Xu, Rémi Zallot, John Ohlrogge","doi":"10.1199/tab.0161","DOIUrl":"10.1199/tab.0161","url":null,"abstract":"<p><p>Acyl lipids in Arabidopsis and all other plants have a myriad of diverse functions. These include providing the core diffusion barrier of the membranes that separates cells and subcellular organelles. This function alone involves more than 10 membrane lipid classes, including the phospholipids, galactolipids, and sphingolipids, and within each class the variations in acyl chain composition expand the number of structures to several hundred possible molecular species. Acyl lipids in the form of triacylglycerol account for 35% of the weight of Arabidopsis seeds and represent their major form of carbon and energy storage. A layer of cutin and cuticular waxes that restricts the loss of water and provides protection from invasions by pathogens and other stresses covers the entire aerial surface of Arabidopsis. Similar functions are provided by suberin and its associated waxes that are localized in roots, seed coats, and abscission zones and are produced in response to wounding. This chapter focuses on the metabolic pathways that are associated with the biosynthesis and degradation of the acyl lipids mentioned above. These pathways, enzymes, and genes are also presented in detail in an associated website (ARALIP: http://aralip.plantbiology.msu.edu/). Protocols and methods used for analysis of Arabidopsis lipids are provided. Finally, a detailed summary of the composition of Arabidopsis lipids is provided in three figures and 15 tables.</p>","PeriodicalId":74946,"journal":{"name":"The arabidopsis book","volume":"11 ","pages":"e0161"},"PeriodicalIF":0.0,"publicationDate":"2013-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3563272/pdf/tab.0161.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31408357","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
The arabidopsis bookPub Date : 2012-01-01Epub Date: 2012-05-22DOI: 10.1199/tab.0159
Joe Louis, Vijay Singh, Jyoti Shah
{"title":"Arabidopsis thaliana-Aphid Interaction.","authors":"Joe Louis, Vijay Singh, Jyoti Shah","doi":"10.1199/tab.0159","DOIUrl":"10.1199/tab.0159","url":null,"abstract":"<p><p>Aphids are important pests of plants that use their stylets to tap into the sieve elements to consume phloem sap. Besides the removal of photosynthates, aphid infestation also alters source-sink patterns. Most aphids also vector viral diseases. In this chapter, we will summarize on recent significant findings in plant-aphid interaction, and how studies involving Arabidopsis thaliana and Myzus persicae (Sülzer), more commonly known as the green peach aphid (GPA), are beginning to provide important insights into the molecular basis of plant defense and susceptibility to aphids. The recent demonstration that expression of dsRNA in Arabidopsis can be used to silence expression of genes in GPA has further expanded the utility of Arabidopsis for evaluating the contribution of the aphid genome-encoded proteins to this interaction.</p>","PeriodicalId":74946,"journal":{"name":"The arabidopsis book","volume":" ","pages":"e0159"},"PeriodicalIF":0.0,"publicationDate":"2012-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3365623/pdf/tab.0159.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39972501","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
The arabidopsis bookPub Date : 2012-01-01Epub Date: 2012-09-24DOI: 10.1199/tab.0160
Sebastian Streb, Samuel C Zeeman
{"title":"Starch metabolism in Arabidopsis.","authors":"Sebastian Streb, Samuel C Zeeman","doi":"10.1199/tab.0160","DOIUrl":"10.1199/tab.0160","url":null,"abstract":"<p><p>Starch is the major non-structural carbohydrate in plants. It serves as an important store of carbon that fuels plant metabolism and growth when they are unable to photosynthesise. This storage can be in leaves and other green tissues, where it is degraded during the night, or in heterotrophic tissues such as roots, seeds and tubers, where it is stored over longer time periods. Arabidopsis accumulates starch in many of its tissues, but mostly in its leaves during the day. It has proven to be a powerful genetic system for discovering how starch is synthesised and degraded, and new proteins and processes have been discovered. Such work has major significance for our starch crops, whose yield and quality could be improved by the application of this knowledge. Research into Arabidopsis starch metabolism has begun to reveal how its daily turnover is integrated into the rest of metabolism and adapted to the environmental conditions. Furthermore, Arabidopsis mutant lines deficient in starch metabolism have been employed as tools to study other biological processes ranging from sugar sensing to gravitropism and flowering time control. This review gives a detailed account of the use of Arabidopsis to study starch metabolism. It describes the major discoveries made and presents an overview of our understanding today, together with some as-yet unresolved questions.</p>","PeriodicalId":74946,"journal":{"name":"The arabidopsis book","volume":"10 ","pages":"e0160"},"PeriodicalIF":0.0,"publicationDate":"2012-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3527087/pdf/tab.0160.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"31315414","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
The arabidopsis bookPub Date : 2012-01-01Epub Date: 2012-01-31DOI: 10.1199/tab.0147
Andrej A Arsovski, Anahit Galstyan, Jessica M Guseman, Jennifer L Nemhauser
{"title":"Photomorphogenesis.","authors":"Andrej A Arsovski, Anahit Galstyan, Jessica M Guseman, Jennifer L Nemhauser","doi":"10.1199/tab.0147","DOIUrl":"https://doi.org/10.1199/tab.0147","url":null,"abstract":"<p><p>As photoautotrophs, plants are exquisitely sensitive to their light environment. Light affects many developmental and physiological responses throughout plants' life histories. The focus of this chapter is on light effects during the crucial period of time between seed germination and the development of the first true leaves. During this time, the seedling must determine the appropriate mode of action to best achieve photosynthetic and eventual reproductive success. Light exposure triggers several major developmental and physiological events. These include: growth inhibition and differentiation of the embryonic stem (hypocotyl); maturation of the embryonic leaves (cotyledons); and establishment and activation of the stem cell population in the shoot and root apical meristems. Recent studies have linked a number of photoreceptors, transcription factors, and phytohormones to each of these events.</p>","PeriodicalId":74946,"journal":{"name":"The arabidopsis book","volume":"10 ","pages":"e0147"},"PeriodicalIF":0.0,"publicationDate":"2012-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1199/tab.0147","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"30614656","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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