声明
Acknowledgements
Abstract
摘要
Contents
1 Introduction
1.1 Literature Review and Background Knowledge
1.1.1 Linkage and Association
1.1.2 Population Structure
1.1.3 Statistical Testing
1.1.4 Correction for Multiple Testing
1.2 Challenges and Our Proposals
2 GWAS for Yield Traits of Upland Cotton
2.1 Introduction
2.2 Methods
2.2.1 Plant Materials and Field Experiment
2.2.2 SNP Genotyping and Quality Control
2.2.3 Statistical Analysis
2.3 Results
2.3.1 GWAS Analysis for Four Yield Traits
2.3.2 Prediction of Best Lines and Superior Lines
2.3.3 Candidate Genes by Comparative Analysis
2.4 Discussion
3 GWAS for Plant Height and Heading Date of Xieyou9308
3.1 Introduction
3.2 Materials and Methods
3.2.1 Plant Materials and SNP Genotyping
3.2.2 Genetic Models and Statistical Analysis
3.3 Results
3.3.1 Structure of Linkage Disequilibrium
3.3.2 Estimated Heritability and Predicted Genetic Effects
3.3.3 Breeding Value Prediction and Candidate Genes
3.4 Discussion
4 Mapping QTX for Quality Traits in Tobacco
4.1 Introduction
4.2 Materials and Methods
4.2.1 Plant Growth and Sample Preparation
4.2.2 Data Generation of Four Omies Genetypes
4.2.3 Statistical Annalysis
4.3 Results
4.3.1 Association Mapping for Chromium Content Based on Omies Data
4.3.2 Association Mapping for Total Sugar Content Based on Omics Data
4.4 Discussion
5 Linear model implementation for MDR
5.1 Introduction
5.2 Materials and Methods
5.2.1 The Original MDR Kernel Algorithm
5.2.2 LMDR Kernel Algorithm
5.2.3 Simulations
5.2.4 Real Data Analysis
5.3 Results
5.3.1 Type Ⅰ Error Rate and Success Rate of LMDR
5.3.2 Genetic Property of LMDR and Correlation with MDR
5.3.3 Real Data Results
5.4 Discussion
Reference