Seed Genomics

by Becraft, Philip W.

• ISBN13: 9780470960158
• ISBN10: 0470960159
• Edition: 1st
• Format: Hardcover
• Copyright: 2013-04-01
• Publisher: Wiley-Blackwell

Summary

This up-to-date review of seed genomics, from basic seed biology to practical applications in crop science, provides a thorough background understanding of seed biology from a basic science perspective. A valuable resource for advanced graduate students, post-docs, researchers and professionals in the Plant and Crop Sciences, this book brings together top researchers in the field to cover three general themes: genomic approaches to studying seeds, genomic analysis of basic seed biology, and crop seed genomics.

Author Biography

Philip W. Becraft is Professor in the Department of Genetics, Development, and Cell Biology, and the Department of Agronomy at Iowa State University

Table of Contents

Contributors

Introduction

Philip W. Becraft

Chapter 1 Large-Scale Mutant Analysis of Seed Development in Arabidopsis

David W. Meinke

Introduction

Historical Perspective

Arabidopsis Embryo Mutant System

Large-Scale Forward Genetic Screens for Seed Mutants

Approaches to Mutant Analysis

Strategies for Approaching Saturation

SeedGenes Database of Essential Genes in Arabidopsis

Embryo Mutants with Gametophyte Defects

General Features of EMB Genes in Arabidopsis

Value of Large Datasets of Essential Genes

Directions for Future Research

Acknowledgments

Chapter 2 Embryogenesis in Arabidopsis: Signaling, Genes, and the Control of Identity

D. L. C. Kumari Fonseka, Xiyan Yang, Anna Mudge, Jennifer F. Topping, and Keith Lindsey

Introduction

Cellular Events

Genes and Signaling – the Global Picture

Coordination of Genes and Cellular Processes: a Role for Hormones

Genes and Pattern

Conclusion and Future Directions

References

Chapter 3 Endosperm Development

Odd-Arne Olsen and Philip W. Becraft

Introduction

Overview of Endosperm Structure and Development

Endosperm Cell Fate Specification and Differentiation

Genomic Resources

Transcriptional Profiling of Endosperm Development

Gene Imprinting in Cereal Endosperm

Conclusion

Acknowledgments

References

Chapter 4 Epigenetic Control of Seed Gene Imprinting

Christian A. Ibarra, Jennifer M. Frost, Juhyun Shin, Tzung-Fu Hsieh, and Robert L. Fischer

Introduction

Genomic Imprinting and Parental Conflict Theory

Epigenetic Regulators of Arabidopsis Imprinting

Mechanisms Establishing Arabidopsis Gene Imprinting

Imprinting in the Embryo

Imprinting in Monocots

Evolution of Plant Imprinting

Conclusion

Acknowledgments

Chapter 5 Apomixis

Anna M. G. Koltunow, Peggy Ozias-Akins, and Imran Siddiqi

Introduction

Biology of Apomixis in Natural Systems

Phylogenetic and Geographical Distribution of Apomixis

Inheritance of Apomixis

Genetic Diversity in Natural Apomictic Populations

Molecular Relationships between Sexual and Apomictic Pathways

Features of Chromosomes Carrying Apomixis Loci and Implications for Regulation of Apomixis

Genes Associated with Apomixis

Transferring Apomixis to Sexual Plants: Clues from Apomicts

Synthetic Approach to Building Apomixis

Synthetic Clonal Seed Formation

Conclusion and Future Prospects

References

Chapter 6 High-Throughput Genetic Dissection of Seed Dormancy

Jose M. Barrero, Colin Cavanagh, and Frank Gubler

Introduction

Profiling of Transcriptomic Changes

Use of New Sequencing Platforms and Associated Techniques to Study Seed Dormancy

Visualization Tools

Coexpression Studies and Systems Biology Approaches

Mapping Populations for Gene Discovery

Perspective

Acknowledgments

Chapter 7 Genomic Specification of Starch Biosynthesis in Maize Endosperm

Tracie A. Hennen-Bierwagen and Alan M. Myers

Introduction

Overview of Starch Biosynthetic Pathway

Genomic Specification of Endosperm Starch Biosynthesis in Maize

Conclusion

References

Chapter 8 Evolution, Structure, and Function of Prolamin Storage Proteins

David Holding and Joachim Messing

Introduction

Prolamin Multigene Families

Endosperm Texture and Storage of Prolamins

Conclusion

References

Chapter 9 Improving Grain Quality: Wheat

Peter R. Shewry

Introduction

Grain Structure and Composition

End Use Quality

Redesigning the Grain

Manipulation of Grain Protein Content and Quality

Manipulation of Grain Texture

Development of Wheat with Resistant Starch

Improving Content and Composition of Dietary Fiber

Wheat Grain Cell Walls

Conclusion

Acknowledgments

References

Chapter 10 Legume Seed Genomics: How to Respond to the Challenges and Potential of a Key Plant Family?

M´elanie Noguero, Karine Gallardo, J´erˆome Verdier, Christine Le Signor, Judith Burstin, and Richard Thompson

Introduction

Development of Genomics Tools

Applications of Genomics Tools to Legume Seed Biology

Future Challenges

References

 

Chapter 11 Cotton Fiber Genomics

Xueying Guan and Z. Jeffrey Chen

Introduction

Cotton Fiber Development

Roles for Transcription Factors in Development of Arabidopsis Leaf Trichomes, Seed Hairs, and Cotton Fibers

Fiber Cell Expansion through Cell Wall Biosynthesis

Regulation of Phytohormones during Cotton Fiber Development

Cotton Fiber Genes in Diploid and Tetraploid Cotton

Roles for Small RNAs in Cotton Fiber Development

Conclusion

References

Chapter 12 Genomic Changes in Response to 110 Cycles of Selection for Seed Protein and Oil Concentration in Maize

Christine J. Lucas, Han Zhao, Martha Schneerman, and Stephen P. Moose

Introduction

Background on the Illinois Long-Term Selection Experiment

Phenotypic Responses to Selection

Additional Traits Affected by Selection

Unlimited Genetic Variation?

Genetic Response to Selection: QTL Mapping in the Crosses of IHP x ILP and IHO x ILO

New Mapping Population: Illinois Protein Strain Recombinant Inbreds

Characterization of Zein Genes and Their Expression in Illinois Protein Strains

Contribution of Zein Regulatory Factor Opaque2 to Observed Responses to Selection in Illinois Protein Strains

Major Effect QTL May Explain IRHP Phenotype

Zein Promoter-Reporter Lines to Investigate Regulation of 22-kDa _-Zein Gene Expression in Illinois Protein Strains

Regulatory Changes in FL2-mRFP Expression When Crossed to Illinois Protein Strains

Regulation of FL2-mRFP

Acknowledgments

References

Chapter 13 Machine Vision for Seed Phenomics

Jeffery L. Gustin and A. Mark Settles

Introduction

High-Energy Imaging: X-ray Tomography and Fluorescence

Optical Imaging: Visible Spectrum

Resonance Absorption: Infrared Spectrum

Resonance Emission: Nuclear Magnetic Resonance

Conclusion

Acknowledgments

References

Index