Inclusive Composite Interval Mapping of QTL by Environment Interactions in Biparental Populations

Inclusive Composite Interval Mapping of QTL by Environment Interactions in Biparental Populations

Identification of environment-specific QTL and stable QTL having consistent genetic effects across a wide range of environments is of great importance in plant breeding. Inclusive Composite Interval Mapping (ICIM) has been proposed for additive, dominant and epistatic QTL mapping in biparental populations for single environment. In this study, ICIM was extended to QTL by environment interaction...

QTL Analysis using Bayesian Interval Mapping

R/qtlbim (www.qtlbim.org) provides a powerful suite of tools for model selection of the genetic architecture for traits influenced by multiple quantitative trait loci (QTL). The Markov chain Monte Carlo (MCMC) sampling approach draws samples from the more probable genetic architectures. Subsequent visualization and summary provides posterior estimates of the number and location of QTL, their ma...

An Empirical Method for Establishing Positional Confidence Intervals Tailored for Composite Interval Mapping of QTL

BACKGROUND Improved genetic resolution and availability of sequenced genomes have made positional cloning of moderate-effect QTL realistic in several systems, emphasizing the need for precise and accurate derivation of positional confidence intervals (CIs) for QTL. Support interval (SI) methods based on the shape of the QTL likelihood curve have proven adequate for standard interval mapping, bu...

QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations

Article history: Received 20 December 2014 Received in revised form 20 January 2015 Accepted 16 February 2015 Available online 23 February 2015 QTL IciMapping is freely available public software capable of building high-density linkage maps and mapping quantitative trait loci (QTL) in biparental populations. Eight functionalities are integrated in this software package: (1) BIN: binning of redu...

QTL Mapping II: Outbred Populations and Association Mapping Mapping in Outbred Populations