DOI: 10.5061/dryad.1k4gq
title: Data from: Complex genetic effects on early vegetative development shape resource allocation differences between Arabidopsis lyrata populations

description: Costs of reproduction due to resource allocation trade-offs have long been
 recognized as key forces in life history evolution, but little is known
 about their functional or genetic basis. Arabidopsis lyrata, a perennial
 relative of the annual model plant A. thaliana with a wide climatic
 distribution, has populations that are strongly diverged in resource
 allocation. In this study, we evaluated the genetic and functional basis
 for variation in resource allocation in a reciprocal transplant
 experiment, using four A. lyrata populations and F2 progeny from a cross
 between North Carolina (USA) and Norway parents, which had the most
 divergent resource allocation patterns. Local alleles at quantitative
 trait loci (QTL) at a North Carolina field site increased reproductive
 output while reducing vegetative growth. These QTL had little overlap with
 flowering date QTL. Structural equation models incorporating QTL genotypes
 and traits indicated that resource allocation differences result primarily
 from QTL effects on early vegetative growth patterns, with cascading
 effects on later vegetative and reproductive development. At a Norway
 field site, North Carolina alleles at some of the same QTL regions reduced
 survival and reproductive output components, but these effects were not
 associated with resource allocation trade-offs in the Norway environment.
 Our results indicate that resource allocation in perennial plants may
 involve important adaptive mechanisms largely independent of flowering
 time. Moreover, the contributions of resource allocation QTL to local
 adaptation appear to result from their effects on developmental timing and
 its interaction with environmental constraints, and not from simple models
 of reproductive costs.
description: NC field site
 dataMeasurement data from
 the NC field site, including samples from four populations and F1/F2
 progeny from Spiterstulen-Mayodan cross. Column headings are explained in
 ReadMe file.FieldDataNCCombined.csvQTL analysis data from North Carolina field siteMarker and trait data for F2 progeny from Spiterstulen-Mayodan cross grown at NC field site. Data are formatted for reading into R/qtl. Detailed explanation of column headings is in ReadMe file.Alyrata1105DataF2RqtlE.csvQTL analysis data from Norway field siteMarker and trait data for F2 progeny from Spiterstulen-Mayodan cross grown at Norway field site. Data are formatted for reading into R/qtl. Detailed explanation of column headings is in ReadMe file.SpMaNorwayDec2010G.csvScripts for NC field data analysisThis file contains the R scripts used for analysis of the NC field data (non-QTL analyses). Use of the various scripts is described in comment lines within the file. Some of the scripts require loading the lme4 and Hmisc packages.FieldDataScripts_NC_GeneticsMs.RQTL analysis scripts for North Carolina dataThis file contains the R scripts used for QTL analysis of the F2 data from the NC field site. Use of the various scripts is described in comment lines within the file. Scripts require loading the qtl package for R.QTLScripts_NC_GeneticsMs.RQTL analysis scripts for Norway dataThis file contains the R scripts used for QTL analysis of the F2 data from the Norway field site. Use of the various scripts is described in comment lines within the file. Scripts require loading the qtl package for R.QTLScripts_Norway_GeneticsMs.RSEM analysis scripts for North Carolina dataThis file contains the R scripts used for structural equation model (SEM) analysis of the F2 data from the NC field site. Use of the various scripts is described in comment lines within the file. Scripts require loading the sem package for R, and prior generation of the R/qtl object for these data.SEMScripts_NC_GeneticsMs.RSEM analysis scripts for Norway dataThis file contains the R scripts used for structural equation model (SEM) analysis of the F2 data from the Norway field site. Use of the various scripts is described in comment lines within the file. Scripts require loading the sem package for R, and prior generation of the R/qtl object for these data.SEMScripts_Norway_GeneticsMs.R