Next Generation Mapping of Enological Traits in an F2 Interspecific Grapevine Hybrid Family

Authors

Shanshan Yang, Cornell University
Jonathan Fresnedo-Ramírez, Cornell University
Qi Sun, Cornell University
David C. Manns, Cornell University
Gavin L. Sacks, Cornell University
Anna Katherine Mansfield, Cornell University
James L. Luby, University of Minnesota - Twin Cities
Jason Londo, USDA, Agricultural Research ServiceFollow
Bruce I. Reisch, Cornell University
lance Cadle-Davidson, USDA, Agricultural Research ServiceFollow
Anne Y. Fennell, South Dakota State UniversityFollow

Document Type

Article

Publication Date

3-2016

Abstract

In winegrapes (Vitis spp.), fruit quality traits such as berry color, total soluble solids content (SS), malic acid content (MA), and yeast assimilable nitrogen (YAN) affect fermentation or wine quality, and are important traits in selecting new hybrid winegrape cultivars. Given the high genetic diversity and heterozygosity of Vitis species and their tendency to exhibit inbreeding depression, linkage map construction and quantitative trait locus (QTL) mapping has relied on F₁ families with the use of simple sequence repeat (SSR) and other markers. This study presents the construction of a genetic map by single nucleotide polymorphisms identified through genotyping-by-sequencing (GBS) technology in an F₂ mapping family of 424 progeny derived from a cross between the wild species V. riparia Michx. and the interspecific hybrid winegrape cultivar, ‘Seyval’. The resulting map has 1449 markers spanning 2424 cM in genetic length across 19 linkage groups, covering 95% of the genome with an average distance between markers of 1.67 cM. Compared to an SSR map previously developed for this F₂ family, these results represent an improved map covering a greater portion of the genome with higher marker density. The accuracy of the map was validated using the well-studied trait berry color. QTL affecting YAN, MA and SS related traits were detected. A joint MA and SS QTL spans a region with candidate genes involved in the malate metabolism pathway. We present an analytical pipeline for calling intercross GBS markers and a high-density linkage map for a large F₂ family of the highly heterozygous Vitis genus. This study serves as a model for further genetic investigations of the molecular basis of additional unique characters of North American hybrid wine cultivars and to enhance the breeding process by marker-assisted selection. The GBS protocols for identifying intercross markers developed in this study can be adapted for other heterozygous species.

Publication Title

PLoS One

Volume

11

Issue

3

First Page

e0149560

Format

application/pdf

DOI of Published Version

10.1371/journal.pone.0149560

Publisher

Public Library of Science

Rights

This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication.

Recommended Citation

Yang, Shanshan; Fresnedo-Ramírez, Jonathan; Sun, Qi; Manns, David C.; Sacks, Gavin L.; Mansfield, Anna Katherine; Luby, James L.; Londo, Jason; Reisch, Bruce I.; Cadle-Davidson, lance; and Fennell, Anne Y., "Next Generation Mapping of Enological Traits in an F2 Interspecific Grapevine Hybrid Family" (2016). Agronomy, Horticulture and Plant Science Faculty Publications. 338.
https://openprairie.sdstate.edu/plant_faculty_pubs/338

Comments

All relevant data are within the paper and its Supporting Information files. All sequence information for the sequence markers are published in the attached supplemental S7 File. (FASTA)