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ARS Home » Pacific West Area » Corvallis, Oregon » Horticultural Crops Research » Research » Publications at this Location » Publication #324305

Research Project: Genetic Improvement and Virus Management of Small Fruit Crops

Location: Horticultural Crops Research

Title: Public availability of a genotyped, segregating population may foster marker assisted breeding (MAB) and quantitative trait loci (QTL) discovery: An example using strawberry

Author
item Hancock, J - Michigan State University
item Sooriyapathirana, S - Michigan State University
item Bassil, Nahla
item Stegmeir, T - Michigan State University
item Cai, L - Michigan State University
item Finn, Chad
item Van De Weg, E - Wageningen University
item Weebadde, C - Michigan State University

Submitted to: Frontiers in Plant Science
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 4/22/2016
Publication Date: 5/9/2016
Citation: Hancock, J.F., Sooriyapathirana, S., Bassil, N.V., Stegmeir, T., Cai, L., Finn, C.E., Van De Weg, E., Weebadde, C. 2016. Public availability of a genotyped, segregating population may foster marker assisted breeding (MAB) and quantitative trait loci (QTL) discovery: An example using strawberry. Frontiers in Plant Science. 7(619):1-4. doi: 10.3389/fpls.2016.00619.

Interpretive Summary: As marker assisted selection is developed in strawberry (Fragaria x ananassa), better and cheaper tools are needed to make the process useful and affordable. Much of the cost associated with marker discovery for marker assisted breeding can be eliminated if a diverse, segregating population is generated, genotyped and made available to the global breeding community. Herein, we present an example of a hybrid, wild-derived family of the octoploid strawberry that can be used by other breeding programs to economically find and tag useful genes for MAB. FVC 11 is a pseudo test cross population between F. virginiana and F chiloensis that was generated and evaluated for a set of observable traits. Over 100 individuals in FVC 11 were genotyped for 29,251 single nucleotide polymorphisms (SNPs) utilizing a commercially available, genome-wide scanning platform (Affymetrix Axiom IStraw90TW). The marker trait associations were deduced using TASSEL software. The FVC 11 population segregated for number of runners per mother, inflorescence number, inflorescence height, crown production, flower number, fruit size, yield, internal color, soluble solids, fruit firmness, and plant vigor. Coefficients of variations ranged from 10% for fruit firmness to 68% for daughters per mother, indicating an underlying quantitative inheritance for each trait. This data indicates that FVC 11 can be used as a reference population for quantitative trait loci (QTL) detection and subsequent MAB across different breeding programs and geographical locations.

Technical Abstract: Much of the cost associated with marker discovery for marker assisted breeding (MAB) can be eliminated if a diverse, segregating population is generated, genotyped and made available to the global breeding community. Herein, we present an example of a hybrid, wild-derived family of the octoploid strawberry that can be used by other breeding programs to economically find and tag useful genes for MAB. A pseudo test cross population between two wild species of F. virginiana and F chiloensis (FVC 11) was generated and evaluated for a set of phenotypic traits. A total of 106 individuals in FVC 11 were genotyped for 29,251 single nucleotide polymorphisms (SNPs) utilizing a commercially available, genome-wide scanning platform (Affymetrix Axiom IStraw90TW). The marker trait associations were deduced using TASSEL software. The FVC 11 population segregated for daughters per mother, inflorescence number, inflorescence height, crown production, flower number, fruit size, yield, internal color, soluble solids, fruit firmness, and plant vigor. Coefficients of variations ranged from 10% for fruit firmness to 68% for daughters per mother, indicating an underlying quantitative inheritance for each trait. A total of 2,474 SNPs were found to be polymorphic in FVC 11 and strong marker trait associations were observed for vigor, daughters per mother, yield and fruit weight. This data indicates that FVC 11 can be used as a reference population for quantitative trait loci (QTL) detection and subsequent MAB across different breeding programs and geographical locations.