Data from: Large effect quantitative trait loci for salicinoid phenolic glycosides in Populus: implications for gene discovery
Woolbright, Scott A., University of Arkansas at Little Rock
Rehill, Brian J., Northern Arizona University
Lindroth, Richard L., University of Wisconsin-Madison
DiFazio, Stephen P., West Virginia University
Martinsen, Gregory D., Northern Arizona University
Zinkgraf, Mathew S., Northern Arizona University
Allan, Gerard J., Northern Arizona University
Keim, Paul, Northern Arizona University
Whitham, Thomas G., Northern Arizona University
Zinkgraf, Matthew S., Western Washington University
Published Jan 25, 2019 on Dryad.
Cite this dataset
Woolbright, Scott A. et al. (2019). Data from: Large effect quantitative trait loci for salicinoid phenolic glycosides in Populus: implications for gene discovery [Dataset]. Dryad. https://doi.org/10.5061/dryad.8h67t
Genomic studies have been used to identify genes underlying many important plant secondary metabolic pathways. However, genes for salicinoid phenolic glycosides (SPGs)—ecologically important compounds with significant commercial, cultural, and medicinal applications—remain largely undescribed. We used a linkage map derived from a full‐sib population of hybrid cottonwoods (Populus spp.) to search for quantitative trait loci (QTL) for the SPGs salicortin and HCH‐salicortin. SSR markers and primer sequences were used to anchor the map to the V3.0 P. trichocarpa genome. We discovered 21 QTL for the two traits, including a major QTL for HCH‐salicortin (R2 = .52) that colocated with a QTL for salicortin on chr12. Using the V3.0 Populus genome sequence, we identified 2,983 annotated genes and 1,480 genes of unknown function within our QTL intervals. We note ten candidate genes of interest, including a BAHD‐type acyltransferase that has been potentially linked to PopulusSPGs. Our results complement other recent studies in Populus with implications for gene discovery and the evolution of defensive chemistry in a model genus. To our knowledge, this is the first study to use a full‐sib mapping population to identify QTL intervals and gene lists associated with SPGs.
Table S1. Candidate gene lists for Populus salicinoid phenolic glycosides
An Excel file of candidate genes from QTL intervals for the salicinoid phenolic glycosides, salicortin and HCH-salicortin in a backcross population of hybrid cottonwoods (Populus fremontii x P. angustifolia. Each worksheet in the file contains the gene lists for a particular interval. In cases where QTL intervals overlapped on the same chromosome, the +/- 1.3Mb interval pertains to the furthest/nearest point from the chromosome start (i.e. co-occurring peaks at 1Mb and 2Mb would have an interval ranging from 0Mb to 3.3Mb). Each table includes gene name, start and end positions in bp, description. QTL peaks from our study, shared SSR makers from Caseys et al. (2015), and candidate genes are all shown in red text.
Table S2. Proposed SPG candidate genes
The table summarizes gene information for fourteen candidate genes that stand out with regard to their potential roles in SPG synthesis or regulation. Data are arranged by transcript name, gene name, gene start and end positions in bp, and a general description.
National Science Foundation, Award: DEB-0425908, DEB-1340852, DBI-1126840