| ABSTRACT | 第10-12页 |
| 摘要 | 第13-15页 |
| LIST OF ABBREVATIONS | 第15-17页 |
| CHAPTER 1 LITERATURE REVIEW | 第17-29页 |
| 1.1. RICE INTRODUCTION AND ITS IMPORTANCE | 第17-19页 |
| 1.1.1. Rice | 第17页 |
| 1.1.2. Morphology of rice plant | 第17-18页 |
| 1.1.3. Production and consumption of rice | 第18-19页 |
| 1.2. RICE BREEDING | 第19-21页 |
| 1.2.1. Breeding methods | 第19页 |
| 1.2.2. Hybrid rice breeding, a comparative analysis | 第19-21页 |
| 1.3. MECHANISM OF PARENTAL SELECTION | 第21-23页 |
| 1.3.1. Principle and utilization of combining ability in plant breeding | 第21-22页 |
| 1.3.2. The GCA effect | 第22-23页 |
| 1.4. MOLECULAR MARKER RESOURCES FOR GCA | 第23-25页 |
| 1.4.1. Dissection of GCA with molecular markers | 第23-24页 |
| 1.4.2. SNPs and its significance in rice breeding | 第24-25页 |
| 1.4.3. The genotyping by sequencing method for SNP discovery | 第25页 |
| 1.5. MARKER-TRAIT ASSOCIATION ANALYSIS IN RICE | 第25-27页 |
| 1.5.1. Application of marker-trait association analysis in plant breeding | 第25-26页 |
| 1.5.2. Association analysis using SNPLDBs | 第26-27页 |
| 1.6. RESEARCH OBJECTIVE | 第27-29页 |
| CHAPTER 2 MATERIALS AND METHODS | 第29-41页 |
| 2.1. PLANT MATERIALS AND HYBRIDS DEVELOPMENT | 第29-33页 |
| 2.1.1. Nursery establishment | 第29页 |
| 2.1.2. Transplantation | 第29-30页 |
| 2.1.3. Pollination | 第30-33页 |
| 2.2. PHENOTYPIC EVALUATION OF DEVELOPED HYBRIDS | 第33页 |
| 2.3. TRAITS MEASUREMENT | 第33-34页 |
| 2.4. STASTICAL ANALYSIS AND GENERAL COMBINING ABILITY CALCULATION | 第34-35页 |
| 2.5. DNA ISOLATION | 第35页 |
| 2.6. LIBRARY CONSTRUCTION AND SEQUENCING | 第35-36页 |
| 2.7. SHORT READS MAPPING | 第36页 |
| 2.8. SNP CALLING AND ANNOTATIONS OF IDENTIFIED SNPs | 第36-37页 |
| 2.9. CONSTRUCTION OF SNPLDBS | 第37-39页 |
| 2.10. ASSOCIATION ANALYSIS | 第39-41页 |
| CHAPTER 3 RESULTS | 第41-69页 |
| 3.1. PERFORMANCES OF DEVELOPED HYBRIDS | 第41-42页 |
| 3.2. GCA EFFECTS OF INDICA CMS AND RESTORER LINES | 第42-45页 |
| 3.3. GCA EFFECTS OF JAPONICA CMS AND RESTORER LINES | 第45-48页 |
| 3.4. MAPPING OF SHORT READS ONTO THE NIPPONBARE REFERENCE GENOME | 第48页 |
| 3.5. DETECTION AND DISTRIBUTION OF SNPs IN INDICA CMS AND RESTORERLINES | 第48-49页 |
| 3.6. DETECTION AND DISTRIBUTION OF SNPs IN JAPONICA CMS AND RESTORERLINES | 第49-51页 |
| 3.7. ANNOTATION OF IDENTIFIED SNPs OF INDICA CMS AND RESTORER LINES | 第51-52页 |
| 3.8. ANNOTATION OF IDENTIFIED SNPs OF JAPONICA CMS AND RESTORER LINES | 第52-53页 |
| 3.9. ANALYSIS OF TRANSITIONS AND TRANSITIONS SUBSTITUTIONS | 第53-55页 |
| 3.10. CONSTRUCTION AND CHARACTERIZATION OF SNPLDBs | 第55-56页 |
| 3.11. ASSOCIATION ANALYSIS BETWEEN CONSTRUCTED SNPLDBs AND GCAEFFECTS | 第56-65页 |
| 3.11.1. Days to heading | 第56-57页 |
| 3.11.2. Plant height | 第57页 |
| 3.11.3. Number of panicles per plant | 第57-58页 |
| 3.11.4. Number of spikelets per panicles | 第58页 |
| 3.11.5. Number of filled grain per panicles | 第58页 |
| 3.11.6. Panicle length | 第58-59页 |
| 3.11.7. Seed width | 第59页 |
| 3.11.8. Seed thickness | 第59-60页 |
| 3.11.9. Seed length | 第60页 |
| 3.11.10. Thousand grain weight | 第60-61页 |
| 3.11.11. Grain yield | 第61-65页 |
| 3.12. SELECTION OF SUPERIOR ALLELES | 第65-67页 |
| 3.13. ELITE PARENTAL LINES FOR DEVELOPING OF SUPERIOR HYBRIDCULTIVARS | 第67-69页 |
| CHAPTER 4 DISCUSSION | 第69-81页 |
| 4.1. MATING DESIGN AND SIGNIFICANCE OF GCA EVALUATION TRIAL | 第69-71页 |
| 4.2. SIGNIFICANCE OF GCA EVALUATION BY MARKERS | 第71页 |
| 4.3. DISCOVERY OF GENOME-WIDE SNPs IN PARENTAL GENOMESOF HYBRID RICE USING GBS ASSAY | 第71-73页 |
| 4.4. ANNOTATION OF IDENTIFIED SNPs | 第73-74页 |
| 4.5. THE POSSIBLE USES OF SNPs | 第74-75页 |
| 4.6. ADVANTAGE OF CONSTRUCTION OF SNPLDBs | 第75-76页 |
| 4.7. ASSOCIATION ANALYSIS | 第76页 |
| 4.8. GENE ONTOLOGY OF DETECTED GENES SITUATED WITHIN THE INTERVALSOF ASSOCIATED SNPLDBs | 第76-81页 |
| CHAPTER 5 CONCLUSION | 第81-83页 |
| 5.1. BREEDING APPLICATION OF GCA EVALUATION | 第81页 |
| 5.2. SIGNIFICANCE OF SNP DISCOVERY IN RICE | 第81-82页 |
| 5.3. MINING OF SUPERIOR GCA ALLELES IN PARENTAL GENOMES BYASSOCIATION ANALYSIS | 第82-83页 |
| CHAPTER 6 MAJOR INNOVATION POINTS | 第83-85页 |
| REFERENCES | 第85-99页 |
| APPENDICES | 第99-215页 |
| ACKNOWLEDGEMENT | 第215页 |
| BIOGRAPHICAL DATA | 第215-217页 |
| PUBLICATIONS DURING THE PERIOD OF STUDY FOR PHD DEGREE | 第217页 |
