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Plant Transcription Factors
Evolutionary, Structural and Functional Aspects
1st Edition - July 7, 2015
Editor: Daniel H Gonzalez
Language: English
Hardback ISBN:9780128008546
9 7 8 - 0 - 1 2 - 8 0 0 8 5 4 - 6
eBook ISBN:9780128011270
9 7 8 - 0 - 1 2 - 8 0 1 1 2 7 - 0
Plant Transcription Factors: Evolutionary, Structural and Functional Aspects is the only publication that provides a comprehensive compilation of plant transcription factor fa…Read more
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Plant Transcription Factors: Evolutionary, Structural and Functional Aspects
is the only publication that provides a comprehensive compilation of plant transcription factor families and their complex roles in plant biology.
While the majority of information about transcription factors is based on mammalian systems, this publication discusses plant transcription factors, including the important aspects and unifying themes to understanding transcription factors and the important roles of particular families in specific processes.
Provides an entry point for transcription factor literature
Offers compilation of information into one single resource for rapid consultation on different plant transcription factor features
Integrates the knowledge about different transcription factors, along with cross-referencing
Provides information on the unique aspects surrounding plant transcription factors
Researchers, students and postdocs studying plant biology, cell biology, and genetics.
List of Contributors
Preface
A: General aspects of plant transcription factors
Chapter 1: Introduction to Transcription Factor Structure and Function
Abstract
1.1. Introduction: Transcription in Eukaryotes
1.2. Structure of Transcription Factors
1.3. DNA Recognition by Transcription Factors
1.4. DNA-binding Domains
1.5. Protein–protein Interactions
1.6. Regulation of Transcription Factor Action
1.7. Plant Transcription Factors
Acknowledgments
Chapter 2: Methods to Study Transcription Factor Structure and Function
Abstract
2.1. Introduction
2.2. In vivo Functional Studies
2.3. Methods for the Analysis of In Vitro Protein–DNA Interactions
2.4. Methods to Study Protein–DNA Interactions In Vivo
2.5. Analysis of Protein–Protein Interactions
Acknowledgments
Chapter 3: General Aspects of Plant Transcription Factor Families
Abstract
3.1. Introduction
3.2. Overview of the Transcription Cycle in Eukaryotes
3.3. Components Involved in the Formation of the RNAPII Preinitiation Complex in Plants
3.4. Plant Transcription Factor Families
3.5. Major TF Families that are Conserved Across Eukaryotes
3.6. Plant-Specific TF Families
3.7. TFs without DBD but Interacting with DBD-Containing TFs
3.8. Conclusion
Acknowledgments
Chapter 4: Structures, Functions, and Evolutionary Histories of DNA-Binding Domains of Plant-Specific Transcription Factors
Abstract
4.1. Introduction
4.2. Description of Respective DBDs
4.3. Evolutionary History of Plant-Specific TFs
Acknowledgments
Chapter 5: The Evolutionary Diversification of Genes that Encode Transcription Factor Proteins in Plants
Abstract
5.1. Introduction – Distinctive Features of TF Genes in Plants (Arabidopsis and Rice)
5.2. A Comparative Analysis of TF Genes Between Plants and Animals
5.3. A Comparative Analysis of Transcription Factor Genes in 32 Diverse Organisms
5.4. The Appearance of New TF Gene Members During Evolution
5.5. The Different Evolutionary Methods of TF Genes in Animals and Plants
5.6. TF Gene Evolution and Its Biological Function
5.7. Conclusion: The Regulatory Role of Individual Transcription Factors
Acknowledgments
B: Evolution and structure of defined plant transcription factor families
Chapter 6: Structure and Evolution of Plant Homeobox Genes
Abstract
6.1. Introduction
6.2. Structure of the Homeodomain
6.3. Specific Contacts with DNA
6.4. Plant Homeodomain Families
6.5. The Evolution of Plant Homeobox Genes
Acknowledgments
Chapter 7: Homeodomain–Leucine Zipper Transcription Factors: Structural Features of These Proteins, Unique to Plants
Abstract
7.1. Homeoboxes and Homeodomains in Eukaryotic Kingdoms
7.2. Plant Homeoboxes
7.3. The Plant Homeodomain Superfamily
7.4. Different Domains Present in Homeodomain Transcription Factors
7.5. The HD-Zip Family
7.6. Target Sequences Recognized by the HD-Containing Transcription Factors
7.7. What do we Know About the Target Sequences of the HD-Zip Proteins?
7.8. Concluding Remarks
Chapter 8: Structure and Evolution of Plant MADS Domain Transcription Factors
Abstract
8.1. Introduction: Who Cares About MADS Domain Transcription Factors?
8.2. The Structure of MADS Domain Proteins
8.3. Evolution of MADS Domain Transcription Factors
8.4. Concluding Remarks
Acknowledgments
Chapter 9: TCP Transcription Factors: Evolution, Structure, and Biochemical Function
Abstract
9.1. Introduction
9.2. Evolution of TCP Proteins
9.3. The TCP Domain: Structure and Function
9.4. Activation and Repression Domains
9.5. TCP Factors as Intrinsically Disordered Proteins
9.6. Posttranslational Modifications of TCP
9.7. Concluding Remarks
Acknowledgments
Chapter 10: Structure and Evolution of Plant GRAS Family Proteins
Abstract
10.1. Presence of GRAS Proteins in Plants and other Organisms
10.2. Genomic Organization (intron/exon)
10.3. Structure of GRAS Proteins
10.4. Conclusion
Chapter 11: Structure and Evolution of WRKY Transcription Factors
Abstract
11.1. Introduction
11.2. The Structure of the WRKY Domain
11.3. The Evolution of WRKY Genes
11.4. R Protein–WRKY Genes
11.5. Conclusion: A Reevaluation of WRKY Evolution
Acknowledgments
Chapter 12: Structure, Function, and Evolution of the Dof Transcription Factor Family
Abstract
12.1. Discovery and Definition of the Dof Transcription Factor family
12.2. Structure and Molecular Characteristics of Dof Transcription Factors
12.3. Molecular Evolution of the Dof Transcription Factor Family
12.4. Physiological Functions of Dof Transcription Factors
12.5. Perspective
Acknowledgments
Chapter 13: NAC Transcription Factors: From Structure to Function in Stress-Associated Networks
Abstract
13.1. Introduction
13.2. NAC Structure
13.3. Evolution of NAC Proteins
13.4. NAC Proteins: From Structure to Interactions with DNA and Other Proteins
13.5. NAC Networks in Abiotic Stress Responses
13.6. Conclusion
Acknowledgments
C: Functional aspects of plant transcription factor action
Chapter 14: Homeobox Transcription Factors and the Regulation of Meristem Development and Maintenance
Abstract
14.1. Introduction
14.2. KNOX and BELL: TALE Superfamily Homeobox Genes
Acknowledgment
Chapter 15: CUC Transcription Factors: To the Meristem and Beyond
Abstract
15.1. Introduction
15.2. Evolution and Structure of NAM/CUC3 Proteins
15.3. NAM/CUC3 Genes Define Boundaries in Meristems and Beyond
15.4. Multiple Regulatory Pathways Contribute to the Fine Regulation of NAM/CUC3 Genes
15.5. NAM/CUC3 Control Plant Development via Modifications of the Cellular Behavior
15.6. Conclusion
Chapter 16: The Role of TCP Transcription Factors in Shaping Flower Structure, Leaf Morphology, and Plant Architecture
Abstract
16.1. Introduction
16.2. TCP Genes and the Control of Leaf Development
16.3. TCP Genes and the Control of Shoot Branching
16.4. TCP Genes and the Control of Flower Shape
16.5. TCP Genes Affect Flowering Time
16.6. Concluding Remarks
Acknowledgments
Chapter 17: Growth-Regulating Factors, A Transcription Factor Family Regulating More than Just Plant Growth
Abstract
17.1. GROWTH-REGULATING FACTORs, a Plant-specific Family of Transcription Factors
17.2. Control of GRF Activity
17.3. Role of GRFs in Organ Growth and Other Developmental Processes
17.4. Conclusion and Perspectives
Acknowledgments
Chapter 18: The Multifaceted Roles of miR156-targeted SPL Transcription Factors in Plant Developmental Transitions
Abstract
18.1. Introduction to Developmental Transitions
18.2. miR156 and its Targets
18.3. miR156-SPL Module in Timing Embryonic Development
18.4. miR156-SPL Module in Juvenile-to-Adult Phase Transition in Higher Plants
18.5. The miR156-SPL Module Regulates Flowering Time in Higher Plants
18.6. The miR156-SPL Module in Developmental Transitions in Moss
18.7. The miR156-SPL Module in Other Developmental Processes
18.8. Perspectives
Acknowledgments
Chapter 19: Functional Aspects of GRAS Family Proteins
Abstract
19.1. The Role of GRAS Proteins in Development
19.2. The Role of GRAS Proteins in Signaling
19.3. General Principles of GRAS Function
19.4. Conclusion
Chapter 20: DELLA Proteins, a Group of GRAS Transcription Regulators that Mediate Gibberellin Signaling
Abstract
20.1. About DELLAs and Gibberellins
20.2. GA Signaling through DELLAs
20.3. The Molecular Mechanism of DELLA Action: DELLA–Protein Interactions and Target Genes
20.4. Conclusion and Future Perspectives
Acknowledgments
Chapter 21: bZIP and bHLH Family Members Integrate Transcriptional Responses to Light
Abstract
21.1. The Role of Light in the Control of Plant Development: A Brief Introduction
21.2. PIFs: Factors that Link Light Perception, Changes in Gene Expression, and Plant Development
21.3. HFR1 and PAR1: Atypical bHLH Factors that Act as Transcriptional Cofactors
21.4. HY5: A Paradigm of a bZIP Member in Integrating Light Responses
21.5. Conclusions
Acknowledgments
Chapter 22: What Do We Know about Homeodomain–Leucine Zipper I Transcription Factors? Functional and Biotechnological Considerations
Abstract
22.1. HD–Zip Transcription Factors are Unique to Plants
22.2. Brief History of the Discovery of HD-Zip Transcription Factors
22.3. Expression Patterns of HD-Zip I Genes
22.4. Environmental Factors Regulate the Expression of HD-Zip I Encoding Genes
22.5. The Function of HD-Zip I TFs from Model Plants
22.6. HD-Zip I TFs from Nonmodel Species
22.7. Divergent HD-Zip I Proteins from Nonmodel Plants
22.8. Knowledge Acquired from Ectopic Expressors
22.9. HD-Zip I TFs in Biotechnology
22.10. Concluding Remarks
D: Modulation of plant transcription factor action
Chapter 23: Intercellular Movement of Plant Transcription Factors, Coregulators, and Their mRNAs
Abstract
23.1. Introduction to Noncell-autonomous Mobile Signals
23.2. Mobile Transcription Factors of the Shoot Apex in Protein Form
23.3. Mobile Root Transcription Factors
23.4. Transcription Factors and Coregulators that Move Long Distance Through the Sieve Element System
23.5. Full-length Mobile mRNAs and their Roles in Development