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Replication data for: The single Andigenum origin of Neo-Tuberosum potato materials is not supported by microsatellite and plastid marker analyses

International Potato Center Dataverse OAI Archive

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Title Replication data for: The single Andigenum origin of Neo-Tuberosum potato materials is not supported by microsatellite and plastid marker analyses
 
Identifier https://doi.org/10.21223/P3/C2ZA7R
 
Creator Ghislain, Marc
Nuñez, Jorge
Herrera, Maria del Rosario
Spooner, David M.
 
Publisher International Potato Center
 
Description Genomic DNA was obtained by using standard protocols at CIP (Herrera and Ghislain 2000). DNA concentration was calculated by using PicoGreen dsDNA quantification reagent and a TBS-380 Fluorometer (Turner BioSystems). DNA dilutions were performed to achieve a Wnal concentration of 3 ng/ul using 96-well plates. We used 24 SSR markers from a new Potato Genetic Identity kit (Table 1; paper under review; Herrera et al. 2006) that updates one by Ghislain et al. (2004). PCR reactions were performed and carried out as described in Spooner et al. (2007). PCR products were separated by electrophoresis on a LI-COR 4300 DNA Analyzer System.


Simple sequence repeat alleles were detected and scored using the SAGA Generation 2 software (LI-COR, USA). The SSR alleles were identiWed by their size in base pairs of the upper band of the allele and scored as present (1), absent (0), or missing (9). Missing data were less than 5% (3.8%) which is acceptable for cluster analysis.


The 241 bp plastid deletion marker was analyzed for all 688 landrace accessions by using the PCR primers and protocols from Hosaka (2002). PCR products were separated by electrophoresis on a 1% agarose gel, and Lambda phage digested by PstI was used as a molecular weight marker. The 241 bp deletion polymorphism was determined for size in base pairs and scored as “T” (with the deletion) or “X” (lacking it) based on clearly separating bands.
 
Subject Agricultural Sciences
Neo-Tuberosum
SSR
Plastid DNA marker
 
Language English
 
Contributor Administrator, CIP
CGIAR Research Program on Roots, Tubers and Bananas (RTB)
International Potato Center
Enrique Grande
Dr. Shelley Jansky