Breeding potato with BreeDB
10
Breeding Potato with BreeDB 31 January 2013, Richard Finkers (@rfinkers) Heleen de Weerd, Benoit Carreres, et al.
-
Upload
richard-finkers -
Category
Science
-
view
77 -
download
7
description
BreeDB is a breeding database and contains an extensive breeding toolbox. BreeDB is developed by Wageningen UR Plant Breeding (https://www.wageningenur.nl/en/show/BreeDB.htm)
Transcript of Breeding potato with BreeDB
Breeding Potato with BreeDB
31 January 2013, Richard Finkers (@rfinkers)
Heleen de Weerd, Benoit Carreres, et al.
Outline
Project flow
Developed tools
Where are we now
Genotyping•Genotyping-by-sequencing
•SNP arrays
Dosage information•fitTetra
Optional: Population Structure correction
LD analysis Marker selection
Future: in sillico
cultivar design
BreeDB Flowchart
Field trial•Observations•~omics analysis
Estimate means
Allele dosage estimation
Example: SNP genotyping array (20.000 loci)
Calculate Allele dosage (R: fitTetra)
Prefer: haplotype reconstruction
doi:10.1186/1471-2105-12-172
Population structure
Software: structure
Segments: old varieties/ American varieties / Fresh consumption / Starch
Pedigree
Potato pedigree
Phenotypic observations
Association analysis
Predictive models
Models based on 5-10 markers
Genotyping•Genotyping-by-sequencing
•SNP arrays
Dosage information•fitTetra
Optional: Population Structure correction
LD analysis Marker selection
Future: in sillico
cultivar design
BreeDB Flowchart
Field trial•Observations•~omics analysis
Estimate means
Questions?
