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ARS Home » Northeast Area » Beltsville, Maryland (BARC) » Beltsville Agricultural Research Center » Genetic Improvement for Fruits & Vegetables Laboratory » Research » Publications at this Location » Publication #351437
Title: Genetic covariance of environments in the potato national chip processing trial

Author
item SCHMITZ CARLEY, CARI - University Of Wisconsin
item COOMBS, JOSEPH - Michigan State University
item CLOUGH, MARK - North Carolina State University
item DEJONG, WALTER - Cornell University
item DOUCHES, DAVID - Michigan State University
item Haynes, Kathleen
item HIGGINS, CHARLES - Potatoes Usa
item HOLM, DAVID - Colorado State University
item MILLER, CREIGHTON - Texas A&M University
item NAVARRO, FELIX - University Of Wisconsin
item Novy, Richard - Rich
item PALTA, JIWAN - University Of Wisconsin
item PARISH, DAVID - Ais Consulting Llc
item PORTER, GREGORY - University Of Maine
item SATHUVALLI, VIDYASAGAR - Oregon State University
item THOMPSON, ASUNTA - North Dakota State University
item ZOTARELLI, LINCOLN - University Of Florida
item YENCHO, CRAIG - North Carolina State University
item ENDELMAN, JEFFREY - University Of Wisconsin

Submitted to: Crop Science
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 9/11/2018
Publication Date: 11/8/2018
Citation: Schmitz Carley, C.A., Coombs, J.J., Clough, M.E., DeJong, W.S., Douches, D.S., Haynes, K.G., Higgins, C.R., Holm, D.G., Miller, J.C., Navarro, F.M., Novy, R.G., Palta, J.P., Parish, D.L., Porter, G.A., Sathuvalli, V.R., Thompson, A.L., Zotarelli, L., Yencho, G.C., Endelman, J.B. 2018. Genetic covariance of environments in the potato national chip processing trial. Crop Science. 58:1-8.

Interpretive Summary: The National Chip Processing Trial is a collaborative effort among public potato breeding programs to identify new clones with broad adaptation. Utilizing data on yield, specific gravity, vine maturity and chip color from multiple locations and years, three different statistical models were examined to determine which model best fit the data and was optimal for identifying superior potato clones. Breeders can use this information to design more efficient trialing and selection programs in the future.

Technical Abstract: The National Chip Processing Trial is a collaborative effort among public potato breeding programs to identify new clones with broad adaptation. The objective of this study was to gain insight into the genetic covariance of trial locations over years to inform selection. Yield, specific gravity, vine maturity and chip color were evaluated on a set of 337 genotyped clones across 10 states from 2011 to 2016. Three covariance models were considered: (I) assuming a uniform genetic correlation between locations within a year, (II) using a factor-analytic model of the genotypic (clonal) covariance of environments, and (III) using a factor-analytic model of the additive covariance of environments, based on 5278 SNP markers with accurate allele dosage. With Model I, the genetic correlation between locations within year was 0.30 for chip color, 0.50 for vine maturity, 0.54 for yield, and 0.72 for specific gravity. For the factor-analytic models, linear discriminants of the factor loadings were plotted to create a novel, visual representation of the genetic relationship between locations across years. For vine maturity, a mega-environment of WI, MI, TX was observed with the genotypic environmental covariance model, while for yield a north to south gradient of locations was observed. Modeling additive genetic effects resulted in better model fit and more similarity between locations. These results can be used to design more efficient trialing and selection programs, recognizing that different selection indices may be needed when predicting breeding values for parent selection compared to predictions of total genotypic value for clonally propagated cultivars.