[PDF] Evolution Of Gene Regulatory Networks In Plant Development eBook

Author : Federico Valverde
Publisher : Frontiers Media SA
Page : 252 pages
File Size : 39,98 MB
Release : 2018-02-15
Category :
ISBN : 288945407X

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During their life cycle plants undergo a wide variety of morphological and developmental changes. Impinging these developmental processes there is a layer of gene, protein and metabolic networks that are responsible for the initiation of the correct developmental transitions at the right time of the year to ensure plant life success. New omic technologies are allowing the acquisition of massive amount of data to develop holistic and integrative analysis to understand complex processes. Among them, Microarray, Next-generation Sequencing (NGS) and Proteomics are providing enormous amount of data from different plant species and developmental stages, thus allowing the analysis of gene networks globally. Besides, the comparison of molecular networks from different species is providing information on their evolutionary history, shedding light on the origin of many key genes/proteins. Moreover, developmental processes are not only genetically programed but are also affected by internal and external signals. Metabolism, light, hormone action, temperature, biotic and abiotic stresses, etc. have a deep effect on developmental programs. The interface and interplay between these internal and external circuits with developmental programs can be unraveled through the integration of systematic experimentation with the computational analysis of the generated omics data (Molecular Systems Biology). This Research Topic intends to deepen in the different plant developmental pathways and how the corresponding gene networks evolved from a Molecular Systems Biology perspective. Global approaches for photoperiod, circadian clock and hormone regulated processes; pattern formation, phase-transitions, organ development, etc. will provide new insights on how plant complexity was built during evolution. Understanding the interface and interplay between different regulatory networks will also provide fundamental information on plant biology and focus on those traits that may be important for next-generation agriculture.

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Publisher :
Page : 0 pages
File Size : 18,17 MB
Release : 2018
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ISBN :

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During their life cycle plants undergo a wide variety of morphological and developmental changes. Impinging these developmental processes there is a layer of gene, protein and metabolic networks that are responsible for the initiation of the correct developmental transitions at the right time of the year to ensure plant life success. New omic technologies are allowing the acquisition of massive amount of data to develop holistic and integrative analysis to understand complex processes. Among them, Microarray, Next-generation Sequencing (NGS) and Proteomics are providing enormous amount of data from different plant species and developmental stages, thus allowing the analysis of gene networks globally. Besides, the comparison of molecular networks from different species is providing information on their evolutionary history, shedding light on the origin of many key genes/proteins. Moreover, developmental processes are not only genetically programed but are also affected by internal and external signals. Metabolism, light, hormone action, temperature, biotic and abiotic stresses, etc. have a deep effect on developmental programs. The interface and interplay between these internal and external circuits with developmental programs can be unraveled through the integration of systematic experimentation with the computational analysis of the generated omics data (Molecular Systems Biology). This Research Topic intends to deepen in the different plant developmental pathways and how the corresponding gene networks evolved from a Molecular Systems Biology perspective. Global approaches for photoperiod, circadian clock and hormone regulated processes; pattern formation, phase-transitions, organ development, etc. will provide new insights on how plant complexity was built during evolution. Understanding the interface and interplay between different regulatory networks will also provide fundamental information on plant biology and focus on those traits that may be important for next-generation agriculture.

Author : Isabel Nelson
Publisher : States Academic Press
Page : 247 pages
File Size : 28,85 MB
Release : 2021-11-16
Category : Science
ISBN : 9781639894208

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Gene regulatory networks are composed of molecular regulators such as transcription factors which bind short, non-coding DNA sequences. These sequences are also called cis-regulatory elements and are located in the promoter region of a gene. Transcription regulators form an interconnected regulatory network which integrates endogenous and environmental signals into changes in gene expression. Gene regulatory networks provide an insight about organization of plant cells and their functions. They consist of thousands of connections between the target genes and transcription factors. Together, they regulate many cellular functions. They also help in understanding the regulation of genes under various conditions. The book studies, analyses and upholds the pillars of gene regulatory networks and its utmost significance in modern times. From theories to research to practical applications, case studies related to all contemporary topics of relevance to this field have been included herein. As this field is emerging at a rapid pace, the contents of this book will help the readers understand the modern concepts and applications of the subject.

Author : Joel Rodriguez Medina
Publisher :
Page : 0 pages
File Size : 23,9 MB
Release : 2020
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ISBN :

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As most plants lack the ability to move, they grow and adapt to different environmental conditions. The phenotype of a plant is determined by both its genetic makeup and the environment. Understanding the key molecular players that drive these responses has the potential to guide breeding programs for climate-resilient crops, and advance food security. In this dissertation, I used a systems biology framework to explore how gene regulatory networks underlie plant development and growth in three different contexts: in response to changes in the environment, between root cell types and tissues, and between species. In Chapter I, I link newly identified transcription factors that control nitrogen-associated metabolism with their underlying regulatory network in Arabidopsis thaliana. I further used mutations in key metabolic genes to describe a phenomenon whereby there is extensive transcriptional feedback upon genetic perturbation of metabolism. In Chapter II, I integrate genomic datasets from two different Solanum species. A major finding from analysis of these datasets is the identification of a group of genes with different translational regulation between tomato species upon exposure to elevated CO2. In Chapter III, I describe cases of innovation, conservation, and repurpose of gene function in regulatory circuits controlling cell-type specification in the root of tomato. In Chapter IV I return to gene regulation of nitrogen from a temporal dynamic perspective. I analyze time series expression data to elucidate how the regulation of the nitrogen response changes over time. I propose a subnetwork of genes that are temporally regulated and identify transcription factors that might be important for this mechanism. This work expands our knowledge not only of gene networks at a cell and tissue-specific resolution, but also sheds light on the evolutionary relationships between equivalent cell types in tomato, rice and Arabidopsis

Author : Sacha Baginsky
Publisher : Springer Science & Business Media
Page : 362 pages
File Size : 32,42 MB
Release : 2007-06-25
Category : Science
ISBN : 376437439X

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This volume aims to provide a timely view of the state-of-the-art in systems biology. The editors take the opportunity to define systems biology as they and the contributing authors see it, and this will lay the groundwork for future studies. The volume is well-suited to both students and researchers interested in the methods of systems biology. Although the focus is on plant systems biology, the proposed material could be suitably applied to any organism.

Author :
Publisher : Academic Press
Page : 660 pages
File Size : 38,93 MB
Release : 2019-01-04
Category : Science
ISBN : 0128098058

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Plant Development and Evolution, the latest release in the Current Topics in Developmental Biology series, highlights new advances in the field, with this new volume presenting interesting chapters on the Evolution of the plant body plan, Lateral root development and its role in evolutionary adaptation, the Development of the vascular system, the Development of the shoot apical meristem and phyllotaxis, the Evolution of leaf diversity, the Evolution of regulatory networks in land plants, The role of programed cell death in plant development, the Development and evolution of inflorescence architecture, the Molecular regulation of flower development, the Pre-meiotic another development, and much more. Provides the authority and expertise of leading contributors from an international board of authors Presents the latest release in the Current Topics in Developmental Biology series Updated release includes the latest information on Plant Development and Evolution

Author : Kerstin Kaufmann
Publisher : Humana
Page : 0 pages
File Size : 14,35 MB
Release : 2017-06-17
Category : Science
ISBN : 9781493971244

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This volume presents protocols that analyze and explore gene regulatory networks (GRNs) at different levels in plants. This book is divided into two parts: Part I introduces different experimental techniques used to study genes and their regulatory interactions in plants. Part II highlights different computational approaches used for the integration of experimental data and bioinformatics-based predictions of regulatory interactions. This part of the book also provides information on essential database resources that grant access to gene-regulatory and molecular interactions in different plant genomes, with a specific focus on Arabidopsis thaliana. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Thorough and cutting-edge, Plant Gene Regulatory Networks: Methods and Protocols is a valuable resource for scientists and researchers interested in expanding their knowledge of GRNs.

Author : Eric H. Davidson
Publisher : Elsevier
Page : 303 pages
File Size : 22,53 MB
Release : 2010-07-19
Category : Science
ISBN : 0080455573

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Gene regulatory networks are the most complex, extensive control systems found in nature. The interaction between biology and evolution has been the subject of great interest in recent years. The author, Eric Davidson, has been instrumental in elucidating this relationship. He is a world renowned scientist and a major contributor to the field of developmental biology. The Regulatory Genome beautifully explains the control of animal development in terms of structure/function relations of inherited regulatory DNA sequence, and the emergent properties of the gene regulatory networks composed of these sequences. New insights into the mechanisms of body plan evolution are derived from considerations of the consequences of change in developmental gene regulatory networks. Examples of crucial evidence underscore each major concept. The clear writing style explains regulatory causality without requiring a sophisticated background in descriptive developmental biology. This unique text supersedes anything currently available in the market. The only book in the market that is solely devoted to the genomic regulatory code for animal development Written at a conceptual level, including many novel synthetic concepts that ultimately simplify understanding Presents a comprehensive treatment of molecular control elements that determine the function of genes Provides a comparative treatment of development, based on principles rather than description of developmental processes Considers the evolutionary processes in terms of the structural properties of gene regulatory networks Includes 42 full-color descriptive figures and diagrams