达尔文氏棉耐盐基因资源的挖掘与分析
发布时间：2021-12-24 21:59
盐胁迫是影响棉花幼苗生长、产量和品质的重要因素。长期人工选择和驯化,导致陆地棉品种的遗传基础狭窄,因此更多的科学家试投通过遗传重组将野生棉种的优异基因导入栽培品种中,以拓宽栽培棉种的遗传基础。本研究旨在挖掘和分析四倍体野生种达尔文氏棉耐盐的基因源。实验材料是达尔文氏棉07（AD507）,利用陆地棉品种中棉所12（CCRI12）为参照材料。在研究果糖1,6-二磷酸醛缩酶（FBA）基因家族的功能和表达模式时,利用陆地棉（TM-1）、亚洲棉（石系亚1号）和雷蒙德氏棉（雷蒙德氏棉07）等3个棉种的全基因组测序数据,分析得到37个FBA基因（其中陆地棉19个,亚洲棉和雷蒙德氏棉各9个）。根据蛋白质结构域和系统发育分析,将FBA基因分为I和II两类。基因结构和基序的分析表明,多数FBA基因的内含子分布不均匀。据该基因家族的共线性区域分析,发现31个重复基因,分为3种类型:片段型、串联型和分散型。片段型占多数FBA基因,较为保守,这可能是FBA基因在棉花中扩增的原因。GO分析结果表明,FBA基因参与了液泡分隔、糖酵解和锌离子结合等一系列生物学过程。在AD5...
【文章来源】： 中国农业科学院北京市
【文章页数】：131 页
【文章目录】：
附件
摘要
abstract
Abbreviations
CHAPTER1.INTRODUCTION
1.1 WILD COTTON AND GOSSYPIUM DARWINII
1.1.1 Importance of Cotton
1.1.2 Cotton Taxonomy,Wild Cotton and Gossypium Darwinii
1.2 SALINITY,ITS EFFECTS ON PLANTS AND PANT TOLERENCES TO SALINITY
1.2.1 Types of Salinity
1.2.2 Factors Effect Plant Tolerance to Salinity
1.2.3 Plant Responses to Salinity
1.2.4 Three Major Tolerance Mechanisms of Plants to Salinity
1.3 IMPORTANCE OF FRUCTOSE-1,6-BISPHOSPHATE ALDOLASE（FBA）
1.4 SNPS AND ITS ADVANTAGES TO OTHER MOLECULAR MARKERS
1.5 BULKED SEGREGATION ANALYSIS（BSA）
1.5.1 BSA and Its Current Status
1.5.2 Bulks,Sampling and Bulking
1.5.3 Analyses:DNA,RNA and Protein
1.6 RESEARCH OBJECTIVES
CHAPTER2.MATERIALS AND METHODS
2.1 PLANT MATERIALS AND DATA RESOURCES
2.1.1 The De Novo Sequenced Data
2.1.2 G.darwinii with its Referenced G.hirsutum,Their BC2F2 Population and Genetic Linkage Map
2.2 METHODS
2.2.1 Identification,Localization and Structure of FBA Genes
2.2.2 Phylogenetic Analysis
2.2.3 Chromosomal Location and Syntenic Analysis
2.2.4 Gene Ontology（GO）Annotation
2.2.5 Salt Treatment
2.2.6 RNA Extraction
2.2.7 RNA Sequence
2.2.8 Salt Tolerance Identification and RT-qPCR Validation
2.2.9 Gene Mining within SSR Markers,Prediction of mi RNA Target and Cis Elements Analysis
2.2.10 Construction of Sample Pools in the BC2F2 Population
2.2.11 Library Constuction and Resequencing
2.2.12 Assemly and Calculaton of SNP-index
CHAPTER3.RESULTS
3.1 GENOME WIDE ANALYSIS ON FBA GENE FAMILY AND RT-QPCR VALIDATION FOR SALT TOLERENCES
3.1.1 Phylogenetic Analysis and FBA Gene Identifications in the Three De Novo Sequenced Cotton Species
3.1.2 GO Annotation for FBA Gene Functions
3.1.3 RT-q PCR Validation of the Candidate Genes for Salt Telorence in G.darwinii with G.hirsutum as Reference
3.2 IDENTIFICATION AND VALIDATION OF PKINASE GENES FOR SALT TOLERANCES
3.2.1 Pkinase Gene Identification Analysis in A Genetic Map of G.darwinii with G.hirsutum
3.2.2 Structure and Location the Pkinase Genes
3.2.3 GO Annotation for Pkinase Gene Functions
3.2.4 Duplication and Syntenic Analysis of Pkinase Genes in in Three De Novo Sequenced Cotton Species
3.2.5 Prediction of Transcription Factor Biding Sites and mi RNA Analysis of the Pkinase Genes
3.2.6 RNA Sequencing and RT-q PCR Validation of the Pkinase Genes for Salt Tolerance in G.darwinii with G.hirsutum as Reference
3.3.BULKED SEGREGANT ANALYSIS（BSA）ON BC2F2 POPULATION OF G.DARWINII WITH G.HIRSUTUM UNDER SALT STRESS
3.3.1 Phenotypic Identification under Salt Stress and Construction of BSA Pools
3.3.2 Resequencing and Candidate Genes Prediction
3.3.3 Validation of the Candidate Genes in G.darwinii with G.hirsutum as Reference
CHAPTER4.DISCUSSION
4.1 GENIC POTENTIAL OF SALT TOLERANCES IN G.DARWINII
4.2 BSA ANALYSIS
4.3 CHARACTERIZATION OF FBA GENE FAMILY UNDER SALT STRESS
4.4 PHYLOGENY,EXON-INTRON STRUCTURES AND EXPANSION OF FBA GENES IN COTTON
4.5 FUNCTIONAL ANALYSIS OF FBA GENES
4.6 PROTEIN KINASE GENE FAMILY IMPACTS SALINITY STRESS TOLERANCE IN HIGHLY DENSE GENETIC MAP
4.7 ADVANTAGES OF BC2F2 POPULATION AND BSA MARKER
CHAPTER5.CONCLUSIONS
5.1 GENOME WIDE CHARACTERIZATION OF FBA GENE FAMILY UNDER SALT STRESS IN GOSSYPIUM SPECIES
5.2 GENOME-WIDE MINING AND IDENTIfiCATION OF PROTEIN KINASE GENE FAMILY IMPACTS SALINITY STRESS TOLERANCE IN HIGHLY DENSE GENETIC MAP
5.3 BSA MAPPING OF BC2F2 POPULATION
CURRICULUM VITAE
REFERENCES
APPENDICES
【参考文献】：
期刊论文
[1]棉花耐盐性的SSR标记研究 [J]. 张丽娜,叶武威,王俊娟,樊保香. 棉花学报. 2010(02)
本文编号：3551269
【文章来源】： 中国农业科学院北京市
【文章页数】：131 页
【文章目录】：
附件
摘要
abstract
Abbreviations
CHAPTER1.INTRODUCTION
1.1 WILD COTTON AND GOSSYPIUM DARWINII
1.1.1 Importance of Cotton
1.1.2 Cotton Taxonomy,Wild Cotton and Gossypium Darwinii
1.2 SALINITY,ITS EFFECTS ON PLANTS AND PANT TOLERENCES TO SALINITY
1.2.1 Types of Salinity
1.2.2 Factors Effect Plant Tolerance to Salinity
1.2.3 Plant Responses to Salinity
1.2.4 Three Major Tolerance Mechanisms of Plants to Salinity
1.3 IMPORTANCE OF FRUCTOSE-1,6-BISPHOSPHATE ALDOLASE（FBA）
1.4 SNPS AND ITS ADVANTAGES TO OTHER MOLECULAR MARKERS
1.5 BULKED SEGREGATION ANALYSIS（BSA）
1.5.1 BSA and Its Current Status
1.5.2 Bulks,Sampling and Bulking
1.5.3 Analyses:DNA,RNA and Protein
1.6 RESEARCH OBJECTIVES
CHAPTER2.MATERIALS AND METHODS
2.1 PLANT MATERIALS AND DATA RESOURCES
2.1.1 The De Novo Sequenced Data
2.1.2 G.darwinii with its Referenced G.hirsutum,Their BC2F2 Population and Genetic Linkage Map
2.2 METHODS
2.2.1 Identification,Localization and Structure of FBA Genes
2.2.2 Phylogenetic Analysis
2.2.3 Chromosomal Location and Syntenic Analysis
2.2.4 Gene Ontology（GO）Annotation
2.2.5 Salt Treatment
2.2.6 RNA Extraction
2.2.7 RNA Sequence
2.2.8 Salt Tolerance Identification and RT-qPCR Validation
2.2.9 Gene Mining within SSR Markers,Prediction of mi RNA Target and Cis Elements Analysis
2.2.10 Construction of Sample Pools in the BC2F2 Population
2.2.11 Library Constuction and Resequencing
2.2.12 Assemly and Calculaton of SNP-index
CHAPTER3.RESULTS
3.1 GENOME WIDE ANALYSIS ON FBA GENE FAMILY AND RT-QPCR VALIDATION FOR SALT TOLERENCES
3.1.1 Phylogenetic Analysis and FBA Gene Identifications in the Three De Novo Sequenced Cotton Species
3.1.2 GO Annotation for FBA Gene Functions
3.1.3 RT-q PCR Validation of the Candidate Genes for Salt Telorence in G.darwinii with G.hirsutum as Reference
3.2 IDENTIFICATION AND VALIDATION OF PKINASE GENES FOR SALT TOLERANCES
3.2.1 Pkinase Gene Identification Analysis in A Genetic Map of G.darwinii with G.hirsutum
3.2.2 Structure and Location the Pkinase Genes
3.2.3 GO Annotation for Pkinase Gene Functions
3.2.4 Duplication and Syntenic Analysis of Pkinase Genes in in Three De Novo Sequenced Cotton Species
3.2.5 Prediction of Transcription Factor Biding Sites and mi RNA Analysis of the Pkinase Genes
3.2.6 RNA Sequencing and RT-q PCR Validation of the Pkinase Genes for Salt Tolerance in G.darwinii with G.hirsutum as Reference
3.3.BULKED SEGREGANT ANALYSIS（BSA）ON BC2F2 POPULATION OF G.DARWINII WITH G.HIRSUTUM UNDER SALT STRESS
3.3.1 Phenotypic Identification under Salt Stress and Construction of BSA Pools
3.3.2 Resequencing and Candidate Genes Prediction
3.3.3 Validation of the Candidate Genes in G.darwinii with G.hirsutum as Reference
CHAPTER4.DISCUSSION
4.1 GENIC POTENTIAL OF SALT TOLERANCES IN G.DARWINII
4.2 BSA ANALYSIS
4.3 CHARACTERIZATION OF FBA GENE FAMILY UNDER SALT STRESS
4.4 PHYLOGENY,EXON-INTRON STRUCTURES AND EXPANSION OF FBA GENES IN COTTON
4.5 FUNCTIONAL ANALYSIS OF FBA GENES
4.6 PROTEIN KINASE GENE FAMILY IMPACTS SALINITY STRESS TOLERANCE IN HIGHLY DENSE GENETIC MAP
4.7 ADVANTAGES OF BC2F2 POPULATION AND BSA MARKER
CHAPTER5.CONCLUSIONS
5.1 GENOME WIDE CHARACTERIZATION OF FBA GENE FAMILY UNDER SALT STRESS IN GOSSYPIUM SPECIES
5.2 GENOME-WIDE MINING AND IDENTIfiCATION OF PROTEIN KINASE GENE FAMILY IMPACTS SALINITY STRESS TOLERANCE IN HIGHLY DENSE GENETIC MAP
5.3 BSA MAPPING OF BC2F2 POPULATION
CURRICULUM VITAE
REFERENCES
APPENDICES
【参考文献】：
期刊论文
[1]棉花耐盐性的SSR标记研究 [J]. 张丽娜,叶武威,王俊娟,樊保香. 棉花学报. 2010(02)
本文编号：3551269
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