Related Experiment Video
Updated: Jul 15, 2026
10:18
Agrobacterium-Mediated Virus-Induced Gene Silencing Assay In Cotton
Published on: August 20, 2011
A microsatellite-based, gene-rich linkage map reveals genome structure, function and evolution in Gossypium
Wangzhen Guo1, Caiping Cai, Changbiao Wang
1National Key Laboratory of Crop Genetics & Germplasm Enhancement, Cotton Research Institute, Nanjing Agricultural University, Nanjing 210095, China.
Genetics
|April 6, 2007
Summary
Researchers developed expressed sequence tag simple sequence repeats (eSSRs) to enhance cotton
Area of Science:
- Genomics
- Plant Genetics
- Molecular Biology
Background:
- Functional gene mapping is crucial for understanding genome structure, evolution, and improving crop traits.
- Expressed sequence tag simple sequence repeats (eSSRs) serve as valuable functional markers for gene identification and cloning.
Purpose of the Study:
- To develop and utilize expressed sequence tag simple sequence repeats (eSSRs) for enhancing the genetic map of allotetraploid cotton.
- To analyze the polymorphic rates and characteristics of eSSRs derived from different cotton species.
- To integrate new eSSR loci into an existing genetic map for improved marker density and gene-richness.
Main Methods:
- Development of 2218 eSSRs from G. raimondii and G. hirsutum expressed sequence tags (ESTs).
- Screening for polymorphisms using mapping parents TM-1 and Hai7124.
- Integration of polymorphic eSSRs into the existing cotton genetic map.
- Functional analysis of ESTs associated with mapped eSSR loci using BLASTX and gene ontology categorization.
Main Results:
- A total of 2218 eSSRs were developed, with polymorphic rates of 47.9% for G. raimondii and 23.9% for G. hirsutum.
- The enhanced genetic map comprises 1790 loci across 26 linkage groups, covering 3425.8 cM with an average marker distance of 1.91 cM.
- The gene-rich map contains 71.96% functional marker loci, predominantly eSSRs (87.11%), and confirmed chromosomal translocations post-polyploidization.
- Functional analysis revealed 60% of mapped ESTs had significant BLASTX hits, with 475 associated with major gene ontology categories.
Conclusions:
- The developed eSSRs significantly enhanced the cotton genetic map, increasing marker density and functional gene representation.
- The gene-rich linkage map provides a valuable resource for future research in cotton functional and evolutionary genomics.
- These findings offer insights for targeted gene cloning and marker-assisted selection to improve cotton fiber traits.
More Related Videos
10:08Genetic Mapping of Thermotolerance Differences Between Species of Saccharomyces Yeast via Genome-Wide Reciprocal Hemizygosity Analysis
Published on: August 12, 2019
10:40Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
Published on: December 22, 2017
Related Concept Videos
02:37Gene Duplication and Divergence
The seminal work of Ohno in 1970 popularized the idea of gene duplication and divergence. DNA sequence comparison studies reveal that a large portion of the genes in bacteria, archaebacteria, and eukaryotes was generated by gene duplication and divergence, indicating its critical role in evolution.
The duplicated copies of the gene are called Paralogs. Paralogs with similar sequences and functions form a gene family. Across several species, a large number of gene families are characterized.
The duplicated copies of the gene are called Paralogs. Paralogs with similar sequences and functions form a gene family. Across several species, a large number of gene families are characterized.
01:11Genome-wide Association Studies-GWAS
Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
GWAS does not require the identification of the target gene involved in...
GWAS does not require the identification of the target gene involved in...
01:17Karyotyping
Describing the number and physical features of chromosomes can reveal abnormalities that underlie genetic diseases. This description is facilitated by special staining techniques that produce a particular banding pattern on each chromosome. State-of-the-art techniques make this approach even more powerful, enabling the detection of individual genes that cause disease.A Simple Chromosome Staining Technique Provides Valuable Scientific InsightSome genetic diseases can be detected by looking at...
01:08Evolution of Microbial Genome
Microbial genome evolution is a highly dynamic process shaped by continual gene gain and loss across species and strains. This genomic flexibility allows microorganisms to adapt rapidly to environmental pressures and interactions with other organisms. Central to understanding this diversity is the distinction between the core and pan genomes.The core genome comprises the genes shared by all sampled strains of a species, representing essential functions needed for fundamental cellular processes.
02:34DNA Microarrays
Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
01:25Genetic Variation
Genetic variation is the diversity in DNA sequences found among individuals of the same species. This diversity is crucial for a species' survival because it helps organisms adapt to environmental changes. Genetic variation begins with fertilization, where an egg and sperm cell merge. Each of these cells carries 23 chromosomes, up to 46 in the fertilized egg. Chromosomes are long DNA strands that contain genes, the basic units of heredity.
Genes exist in different versions called alleles, which...
Genes exist in different versions called alleles, which...