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ARS Home » Northeast Area » Geneva, New York » Grape Genetics Research Unit (GGRU) » Research » Publications at this Location » Publication #325991
Title: A next-generation marker genotyping platform (AmpSeq) in heterozygous crops: A case study for marker assisted selection in grapevine

Author
item YANG, SHANSHAN - Cornell University
item FRESNEDO, JONATHAN - Cornell University
item WANG, MINGHUI - Cornell University
item COTE, LINDA - Cornell University
item SCHWEITZER, PETER - Cornell University
item BARBA, PAOLA - Cornell University
item TAKACS, ELIZABETH - Cornell University
item CLARK, MATT - University Of Minnesota
item LUBY, JIM - University Of Minnesota
item MANNS, DAVID - Cornell University
item SACKS, GAVIN - Cornell University
item MANSFIELD, ANNA KATHERINE - Cornell University
item Londo, Jason
item FENNELL, ANNE - South Dakota State University
item GADOURY, DAVID - Cornell University
item REISCH, BRUCE - Cornell University
item Cadle-Davidson, Lance
item SUN, QI - Cornell University

Submitted to: Plant and Animal Genome Conference
Publication Type: Abstract Only
Publication Acceptance Date: 10/31/2015
Publication Date: 1/1/2016
Publication URL: https://pag.confex.com/pag/xxiv/meetingapp.cgi/Paper/18715
Citation: Yang, S., Fresnedo, J., Wang, M., Cote, L., Schweitzer, P., Barba, P., Takacs, E., Clark, M., Luby, J., Manns, D., Sacks, G., Mansfield, A., Londo, J.P., Fennell, A., Gadoury, D., Reisch, B., Cadle Davidson, L.E., Sun, Q. 2016. A Next-Generation Marker Genotyping Platform (AmpSeq) in Heterozygous Crops: A Case Study for Marker Assisted Selection in Grapevine. Plant and Animal Genome Conference.

Interpretive Summary:

Technical Abstract: Marker assisted selection (MAS) has become widely used in perennial crop breeding programs to accelerate and enhance cultivar development via selection during the juvenile phase and parental selection prior to crossing. Next generation sequencing (NGS) has been widely used for whole genome molecular marker discovery, but it also offers a potential opportunity for tailored molecular marker development with high-throughput and low per-sample cost. This study presents a novel and efficient MAS strategy for molecular marker development incorporating a semi-automated primer design pipeline based on amplicon sequencing (AmpSeq). The results document the development of an MAS package using three relevant traits (flower sex, disease resistance, and modified anthocyanins) in grapevine breeding. Here we discuss several strengths of the amplicon sequencing platform that make this approach of broad interest in diverse crop species: accuracy, flexibility, high throughput, low cost, easily automated analysis, and rapid results.