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Genetic Mapping of Thermotolerance Differences Between Species of Saccharomyces Yeast via Genome-Wide Reciprocal Hemizygosity Analysis
Published on: August 12, 2019
A multi-population consensus genetic map reveals inconsistent marker order among maps likely attributed to structural
Muhammad Awais Khan1, Yuepeng Han, Youfu Frank Zhao
1Department of Natural Resources & Environmental Sciences, University of Illinois, Urbana, Illinois, United States of America.
Plos One
|November 13, 2012
Summary
A dense genetic map was constructed for apples, integrating five maps to create a global consensus map. This map aids in understanding apple genetics and identifying markers for trait mapping and comparative studies.
Area of Science:
- Genomics
- Plant Genetics
- Bioinformatics
Background:
- Genetic maps are crucial for understanding quantitative trait architecture, genome structure, and facilitating association and comparative genetic studies in plants.
- Previous genetic maps of apple have provided foundational data, but a comprehensive, high-density map is needed for advanced genomic analyses.
Purpose of the Study:
- To construct a dense genetic map of apple using a high-throughput SNP genotyping platform.
- To establish a global consensus map by integrating a new map with four existing apple genetic maps.
- To identify marker positioning conflicts and investigate their causes, including genome structure variations and technical errors.
Main Methods:
- Utilized a 1,536 EST-derived SNP GoldenGate genotyping platform for map construction.
- Integrated the newly generated map with four existing apple genetic maps to create a global consensus map.
- Analyzed marker positioning consistency and identified discrepancies across the five maps.
Main Results:
- Successfully positioned 2875 markers (2033 SNPs, 843 SSRs) on the global consensus map, distributed across 17 linkage groups.
- The consensus map has a total length of 1991.38 cM, with an average marker density of 0.70 cM.
- Identified major inconsistencies in marker positions, suggesting structural variations in the apple genome or technical issues.
Conclusions:
- The developed dense consensus genetic map provides a valuable framework for high-resolution quantitative trait loci (QTL) mapping in apple.
- The map and newly identified functional SNPs will advance research on important apple traits and facilitate comparative genomics within the Rosaceae family.
- Addressing marker inconsistencies is vital for improving genome assembly accuracy and understanding apple genome structure.
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