Data from: QTL analysis of behavior in nine-spined sticklebacks (Pungitius pungitius)

Laine, Veronika N., University of Turku

Herczeg, Gábor, University of Helsinki, Eötvös Loránd University

Shikano, Takahito, University of Helsinki

Vilkki, Johanna, Agrifood Research Finland

Merilä, Juha, University of Helsinki

Published Oct 25, 2014 on Dryad. https://doi.org/10.5061/dryad.62380

Cite this dataset

Laine, Veronika N. et al. (2014). Data from: QTL analysis of behavior in nine-spined sticklebacks (Pungitius pungitius) [Dataset]. Dryad. https://doi.org/10.5061/dryad.62380

Abstract

The genetic architecture of behavioral traits is yet relatively poorly understood in most non-model organisms. Using an F2-intercross (n = 283 offspring) between behaviorally divergent nine-spined stickleback (Pungitius pungitius) populations, we tested for and explored the genetic basis of different behavioral traits with the aid of quantitative trait locus (QTL) analyses based on 226 microsatellite markers. The behaviors were analyzed both separately (viz. feeding activity, risk-taking and exploration) and combined in order to map composite behavioral type. Two significant QTL—explaining on average 6 % of the phenotypic variance—were detected for composite behavioral type on the experiment-wide level, located on linkage groups 3 and 8. In addition, several suggestive QTL located on six other linkage groups were detected on the chromosome-wide level. Apart from providing evidence for the genetic basis of behavioral variation, the results provide a good starting point for finer-scale analyses of genetic factors influencing behavioral variation in the nine-spined stickleback.

Usage notes

Genotype input file for GridQTL

Genotypes of 226 microsatellite markers used in GridQTL analyses. Line 1: Number of markers Line 2: List of names of the markers Line 3: Names given to each of the generations. Line 4: Names given to males and females. Line 5: Symbol or symbols for missing genotype data. Line 6 on Data for each individual in turn. Contains in order: Individual ID Sire ID Dam ID Sex Line or generation Marker genotypes

GENOTYPES.txt

Map input file for GridQTL

The linkage map, obtained from Crimap, of nine-spined stickleback for GridQTL analyses. Line 1: Number of chromosomes Line 2: Interval for calculation of genotype probabilities and coefficients in cM. Line 3: Name of first chromosome, number of markers on first chromosome and whether map is same for two sexes (=1) or not (=2). Line 4: For first linkage group, marker names in order separated by distances between them in cM.

MAP.txt

Phenotype (behavior) input file for GridQTL

Behavior measurements in nine-spined sticklebacks for QTL mapping analyses in GridQTL. Line 1: Numbers of fixed effects (factors), covariates and traits, respectively Line 2: Name of each fixed effect, covariate and trait. Line 3: Code for missing trait value Line 4 : Individual ID and values for fixed effects, covariates and traits for that individual. Sex: 0 female, 1 male. Feedbi, riskbi, expbi: 0 moving fish, 1 non-moving fish

PHENOTYPES_behavior.txt