Folta / Gardiner Genetics and Genomics of Rosaceae

2009
ISBN: 978-0-387-77491-6
Verlag: Springer US
Format: PDF
Kopierschutz: 1 - PDF Watermark

E-Book, Englisch, Band 6, 636 Seiten

Reihe: Plant Genetics and Genomics: Crops and Models

This is the first book on Rosaceae genomics. It covers progress in recent genomic research among the Rosaceae, grounding this firmly in the historical context of genetic studies and in the application of genomics technologies for crop development.

Autoren/Hrsg.

Folta, Kevin M.

Gardiner, Susan E.

Inhaltsverzeichnis

1;Preface;5
2;Contents;7
3;Contributors;10
4;Introduction;16
5;1. Rosaceae: Taxonomy, Economic Importance, Genomics;17
5.1;1 Nomenclature and Taxonomy;17
5.2;2 Economic Importance;23
5.3;3 Rosaceae Genomics;29
5.4;4 The Future;32
5.5;References;32
6;2. Genomics Approaches to Crop Improvement in the Rosaceae;34
6.1;1 Use of Genomics in Rosaceae;34
6.2;2 Conclusions;61
6.3;References;62
7;3. Genomics Opportunities, New Crops and New Products;69
7.1;1 Introduction;69
7.2;2 Current Use of MAS in Rosaceae Breeding Programs;70
7.3;3 Traits for Which Markers are Currently Available for Use in Developing New Crops;73
7.4;4 Conclusion;79
7.5;References;80
8;Part I Apples (Chapters 4 – 7);85
8.1;4. Introduction to Apple (Malus × domestica);86
8.1.1;1 Origin and History;86
8.1.2;2 Apple Production Worldwide;87
8.1.3;3 Breeding;88
8.1.4;4 Genetic Resources;92
8.1.5;5 Looking Forward;94
8.1.6;References;94
8.2;5. Apple Structural Genomics;98
8.2.1;1 Introduction;98
8.2.2;2 Use of DNA Markers for Evaluating Genetic Diversity in Apple;100
8.2.3;3 Linkage and PhysicalMaps;104
8.2.4;4 Genomic Location of Some Monogenic and Polygenic Traits;107
8.2.5;5 Marker-Assisted Selection;122
8.2.6;6 Current and Future Developments;123
8.2.7;References;124
8.3;6. Apple Functional Genomics;133
8.3.1;1 Malus EST Datasets;133
8.3.2;2 GC Content and Codon Usage;141
8.3.3;3 MicroRNAs and Their Targets Identified from EST Databases;143
8.3.4;4 Global Changes in Apple Gene Expression;145
8.3.5;5 Heterologous Microarrays;150
8.3.6;6 Heterologous Expression of Apple Genes in Arabidopsis;151
8.3.7;7 Transient Assays of Apple Genes in Tobacco;152
8.3.8;8 Apple Functional Genomics;153
8.3.9;References;153
8.4;7. Apple Transformation and Translational Genomics;155
8.4.1;1 Introduction;155
8.4.2;2 Reverse genetic, Gene Function Validation;156
8.4.3;3 Conclusions;169
8.4.4;References;170
8.5;8. Pear Genomics;175
8.5.1;1 Introduction;175
8.5.2;2 Structural Genomics;180
8.5.3;References;193
8.6;9. Genomics of Almond;199
8.6.1;1 History and Evolution;199
8.6.2;2 Breeding for Improved Cultivars;200
8.6.3;3 Development of Molecular Markers and Variability Analysis in Almond;201
8.6.4;4 Marker Maps: Major Gene and QTL Mapping;203
8.6.5;5 Gene Cloning and EST Collections;206
8.6.6;6 Genetic Transformation;206
8.6.7;7 Main Agronomic Characters, and Their Genetic Basis;209
8.6.8;8 Future Prospects;220
8.6.9;References;224
9;Part II Peach (Chapters 10 – 13);232
9.1;10. An Introduction to Peach (Prunus persica);233
9.1.1;1 Introduction;233
9.1.2;2 Traits of Primary Interest for Traditional Breeding Programs;235
9.1.3;References;240
9.2;11. Peach Structural Genomics;245
9.2.1;1 Molecular Markers and Breeding in Peach;245
9.2.2;2 Comparative Genomics in Prunus;249
9.2.3;3 Mapping Polygenic Traits in Peach;252
9.2.4;4 Functional Markers in Peach;257
9.2.5;5 Marker Assisted Selection (MAS) in Peach;259
9.2.6;6 Peach Physical Mapping;261
9.2.7;References;263
9.3;12. Functional Genomics in Peach;268
9.3.1;1 Introduction;268
9.3.2;2 Proteomics Analysis;271
9.3.3;3 Functional Genomics Tools in Rosaceae;272
9.3.4;4 Functional Genomics Candidate Gene Databases;274
9.3.5;5 The Transcriptome;275
9.3.6;6 The Peach Integrated Genetic/Physical/EST Functional Genomics Database;276
9.3.7;7 The Prunus Resistance Gene Map as a Functional Genomics Tool;277
9.3.8;8 The Peach Proteome;279
9.3.9;9 Perspectives;280
9.3.10;References;280
9.4;13. Genetic Engineering of Plum (Prunusdomestica L.) for Plant Improvement andGenomics Research in Rosaceae;285
9.4.1;1 Introduction;285
9.4.2;2 The Plum System;286
9.4.3;3 Future Applications;292
9.4.4;4 Conclusions;295
9.4.5;References;296
9.5;14. Sweet and Sour Cherries: Linkage Maps, QTL Detection and Marker Assisted Selection;299
9.5.1;1 Introduction;299
9.5.2;2 Construction of Genetic Maps;303
9.5.3;3 Gene Mapping and QTLs Detected;307
9.5.4;4 Analysis of Self Incompatibility;311
9.5.5;5 Conclusion and Future Scope of Work;315
9.5.6;References;316
9.6;15. Genomics-Based Opportunities in Apricot;322
9.6.1;1 Introduction;322
9.6.2;2 Molecular Markers;326
9.6.3;3 Significant Traits;330
9.6.4;4 Genomics Resources;336
9.6.5;5 Regeneration and Transformation;336
9.6.6;6 Conclusions;337
9.6.7;References;337
10;Part III Rose (Chapters 16 – 19);343
10.1;16. Introduction to Rosa;344
10.1.1;1 Major Economic Use/Value of Roses and Limitations to Production;344
10.1.2;2 Garden Roses (Including Landscape Roses);344
10.1.3;3 CutRoses;346
10.1.4;4 PotRoses;346
10.1.5;5 Rose Oil Production;347
10.1.6;6 Ornamental Fruits;347
10.1.7;7 Culinary and Medicinal Fruits;348
10.1.8;8 Rootstocks;348
10.1.9;9 Taxonomy and Classification;349
10.1.10;10 Available Genetic Resources;352
10.1.11;11 Major Features of Rose Genetics;352
10.1.12;12 Cross Breeding;353
10.1.13;References;354
10.2;17. Rose Structural Genomics;357
10.2.1;1 DNA Markers Available and Future Developments;357
10.2.2;2 Use of Markers for Identification and Studies of Rose Population Structure, Taxonomy, Domestication, and Diversity Studies;360
10.2.3;3 Current Situation for Linkage Maps;361
10.2.4;4 Inheritance of Known Characters;368
10.2.5;5 Flower Traits;368
10.2.6;6 PlantTraits;374
10.2.7;7 Adaptation Traits;375
10.2.8;8 Physical Maps, BAC Libraries and Current Situation for Positional Cloning;376
10.2.9;9 Synteny to Other Rosaceous Crops;377
10.2.10;References;378
10.3;18. Functional Genomics in Rose;384
10.3.1;1 Introduction;384
10.3.2;2 The Tools Available for the Genomic Approaches;384
10.3.3;3 Ethylene Signaling and Metabolism and Its Involvement in Rose Opening and Senescence;390
10.3.4;4 Cloning of Genes Involved in Ethylene Signaling and Synthesis;390
10.3.5;5 Ethylene and Flower Opening;391
10.3.6;6 Ethylene and Flower Senescence;391
10.3.7;7 Anthocyanin Biosynthesis in Flower Color;392
10.3.8;References;393
10.4;19. Genetic Engineering and Tissue Culture of Roses;396
10.4.1;1 Introduction;396
10.4.2;2 Regeneration;397
10.4.3;3 Genetic Transformation;400
10.4.4;4 Gene Function Studies by Expression in Model Organisms;404
10.4.5;References;408
11;Part IV Strawberry (Chapters 20 – 23);413
11.1;20. Strawberry Genomics: Botanical History, Cultivation, Traditional Breeding, and New Technologies;414
11.1.1;1 Origin, Speciation, and Evolution;414
11.1.2;2 Diploid Species;415
11.1.3;3 Higher Ploidy Species;420
11.1.4;4 Cultivated Octoploid Strawberries;422
11.1.5;5 Intergeneric Hybrid;423
11.1.6;6 History of Cultivation;423
11.1.7;7 Traditional Breeding;427
11.1.8;8 Structural Genomics;429
11.1.9;9 Functional Genomics;430
11.1.10;10 Biotechnological Approaches to Genetic Improvement;430
11.1.11;References;432
11.2;21. Strawberry (Fragaria spp.) StructuralGenomics;437
11.2.1;1 Cytology and Interfertility;437
11.2.2;2 Phylogenetic Analyses;439
11.2.3;3 Molecular Markers;439
11.2.4;4 Resistance Gene Analogues;444
11.2.5;5 Linkage and PhysicalMaps-Diploid;444
11.2.6;6 Whole Genome Sequencing;450
11.2.7;References;451
11.3;22. Functional Molecular Biology Research in Fragaria;457
11.3.1;1 Introduction;457
11.3.2;2 Fruit-Related Traits;458
11.3.3;3 Volatile Compounds;458
11.3.4;4 Polyphenol Compounds;462
11.3.5;5 Fruit Firmness;466
11.3.6;6 Hormone Metabolism;469
11.3.7;7 Vitamins;470
11.3.8;8 Sugar and Acid Composition;470
11.3.9;9 Allergens;471
11.3.10;10 Control of Flowering;472
11.3.11;11 Resistance to Abiotic Stress;473
11.3.12;12 Resistance to Biotic Agents;475
11.3.13;References;477
11.4;23. GMO Strawberry: Methods, Risk and Benefits;487
11.4.1;1 Introduction;487
11.4.2;2 Strawberry Regeneration and Agrobacterium Transformation;488
11.4.3;3 Genes for Strawberry Improvement;491
11.4.4;4 Biotechnology for Berry Nutritional Quality;497
11.4.5;5 GM Strawberry Field Trials and Risk Assessment;499
11.4.6;6 Conclusions;501
11.4.7;References;502
11.5;24. Raspberries and Blackberries:The Genomics of Rubus;507
11.5.1;1 Taxonomy;507
11.5.2;2 Diversity;507
11.5.3;3 Breeding Objectives;509
11.5.4;4 Limitations;511
11.5.5;5 Structural Genomics;512
11.5.6;6 DNA Markers;512
11.5.7;7 Linkage Mapping;513
11.5.8;8 Physical Mapping;516
11.5.9;9 Functional Genomics;517
11.5.10;10 Future Strategies;519
11.5.11;References;519
11.6;25. Loquat (Eriobotrya Lindl.);525
11.6.1;1 Origin and Botany;525
11.6.2;2 Genetic Resources and Diversity;526
11.6.3;3 Genetic Mapping;532
11.6.4;4 Biotechnology Techniques Applied in Loquat Breeding;535
11.6.5;References;535
11.7;26. Genomics Tools Across Rosaceae Species;539
11.7.1;1 Introduction – Toward a Rosaceae Genome as a Unique System?;539
11.7.2;2 The Genome Structure of Rosaceae;541
11.7.3;3 Tools for Genomics Analyses in Rosaceae;544
11.7.4;4 Challenges for the Future;552
11.7.5;References;554
11.8;27. Application of Genetic Markers in Rosaceous Crops;562
11.8.1;1 Introduction;562
11.8.2;2 The Cost/Benefit of Marker Assisted Selection;564
11.8.3;3 Marker Applications in the Rosaceae;568
11.8.4;4 Marker Assisted Selection;570
11.8.5;5 Prunus;575
11.8.6;6 Fragaria;579
11.8.7;7 Rubus;580
11.8.8;8 Background Selection;581
11.8.9;9 Conclusion and Perspectives;583
11.8.10;References;584
11.9;28. Rosaceaous Genome Sequencing: Perspectives and Progress;599
11.9.1;1 Plant Genome Sequencing Overview and History;599
11.9.2;2 Sequencing Technologies;602
11.9.3;3 Next Generation Technologies;603
11.9.4;4 Peach Genome Sequencing;604
11.9.5;5 Apple Genome Sequencing;606
11.9.6;6 Fragaria Genome Sequencing;608
11.9.7;References;610
12;Index;614