10.5061/DRYAD.8H67T
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
Data from: Large effect quantitative trait loci for salicinoid phenolic
glycosides in Populus: implications for gene discovery
Dryad
dataset
2019
Populus angustifolia
defensive chemistry genes
Populus fremontii
community and ecosystem genetics
Populus trichocarpa
Holocene
salicinoid phenolic glycoside
QTL mapping
National Science Foundation
https://ror.org/021nxhr62
DEB-0425908, DEB-1340852, DBI-1126840
2019-01-25T00:00:00Z
2019-01-25T00:00:00Z
en
https://doi.org/10.1002/ece3.3932
680379 bytes
2
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
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
glycosidesAn 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 S1.xlsxTable S2. Proposed SPG candidate
genesThe 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.Table S2.xlsx
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