November 14, 2019November 14, 2019 by plant-breeding-genomics

How to Develop SNP-based Tetraploid Maps for Potato

Authors:

David Douches, Michigan State University; Joe Coombs, Michigan State University; Heather L. Merk, The Ohio State University

During this webinar, Dave Douches and Joe Coombs from Michigan State University discuss the generation of a tetraploid map for potato using single nucleotide polymorphisms (SNPs) identified in the Solanaceae Coordinated Agricultural Project (SolCAP). This webinar demonstrates high-throughput SNP calling in a tetraploid and introduces some of the issues inherent in tetraploid genetics and mapping.

Part 1: Introduction and Review of Resources for Diploid Mapping

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Part 2: Resources Used to Develop and Tetraploid Map

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Part 3: Calling SNPs using Genome Studio Software

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Part 4: Filtering SNPs and Tetraploid Segregation and SNP Distribution in Premier Russet x Rio Grande Russet

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Part 5: Single Marker ANOVA in Premier Russet x Rio Grande Russet

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Part 6: Genetic Mapping and QTL Analysis using TetraploidMap Software

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Part 7: Summary and Discussion for Webinar

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Full Recording

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Learning Objectives

At the end of this webinar you should be able to:

Visualize single nucleotide polymorphisms (SNPs) using Genome Studio software (including five cluster calling)
Filter SNPs for mapping populations
Generate a map using tetraploid map software
Initiate quantitative trait locus (QTL) analysis

About the Presenters

Dr. Dave Douches is a professor in Crop and Soil Sciences at Michigan State University. He leads a breeding program that focuses on developing varieties for the potato industry that have improved processing quality and disease and insect resistance.

Joe Coombs has been working with the Michigan State University potato breeding program since 1996 as an assistant breeder focused on the program’s breeding and statistical analysis.

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Additional Resources

Funding Statement

Development of this page was supported in part by the National Institute of Food and Agriculture (NIFA) Solanaceae Coordinated Agricultural Project, agreement 2009-85606-05673, administered by Michigan State University. Any opinions, findings, conclusions, or recommendations expressed in this publication are those of the author(s) and do not necessarily reflect the view of the United States Department of Agriculture.

Mention of specific companies is not intended for promotional purposes.

Attachments:

eXtension webinar 4-5-2012 Tetraploid SNP mapping SolCAPFINAL.pdf (12.35 MB)

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