TY  - GEN
A1  - Steinfath, Matthias
A1  - Gärtner, Tanja
A1  - Lisec, Jan
A1  - Meyer, Rhonda C.
A1  - Altmann, Thomas
A1  - Willmitzer, Lothar
A1  - Selbig, Joachim
T1  - Prediction of hybrid biomass in Arabidopsis thaliana by selected parental SNP and metabolic markers
T2  - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe
N2  - A recombinant inbred line (RIL) population, derived from two Arabidopsis thaliana accessions, and the corresponding testcrosses with these two original accessions were used for the development and validation of machine learning models to predict the biomass of hybrids. Genetic and metabolic information of the RILs served as predictors. Feature selection reduced the number of variables (genetic and metabolic markers) in the models by more than 80% without impairing the predictive power. Thus, potential biomarkers have been revealed. Metabolites were shown to bear information on inherited macroscopic phenotypes. This proof of concept could be interesting for breeders. The example population exhibits substantial mid-parent biomass heterosis. The results of feature selection could therefore be used to shed light on the origin of heterosis. In this respect, mainly dominance effects were detected.
T3  - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 1324 
KW  - Quantitative Trait Locus
KW  - feature selection
KW  - Partial Little Square
KW  - recombinant inbred line
KW  - Quantitative Trait Locus analysis
Y1  - 2009
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-431115
SN  - 1866-8372
IS  - 1324
ER  - 
TY  - GEN
A1  - Gärtner, Tanja
A1  - Steinfath, Matthias
A1  - Andorf, Sandra
A1  - Lisec, Jan
A1  - Meyer, Rhonda C.
A1  - Altmann, Thomas
A1  - Willmitzer, Lothar
A1  - Selbig, Joachim
T1  - Improved heterosis prediction by combining information on DNA- and metabolic markers
N2  - Background: Hybrids represent a cornerstone in the success story of breeding programs. The fundamental principle underlying this success is the phenomenon of hybrid vigour, or heterosis. It describes an advantage of the offspring as compared to the two parental lines with respect to parameters such as growth and resistance against abiotic or biotic stress. Dominance, overdominance or epistasis based models are commonly used explanations. Conclusion/Significance: The heterosis level is clearly a function of the combination of the parents used for offspring production. This results in a major challenge for plant breeders, as usually several thousand combinations of parents have to be tested for identifying the best combinations. Thus, any approach to reliably predict heterosis levels based on properties of the parental lines would be highly beneficial for plant breeding. Methodology/Principal Findings: Recently, genetic data have been used to predict heterosis. Here we show that a combination of parental genetic and metabolic markers, identified via feature selection and minimum-description-length based regression methods, significantly improves the prediction of biomass heterosis in resulting offspring. These findings will help furthering our understanding of the molecular basis of heterosis, revealing, for instance, the presence of nonlinear genotype-phenotype relationships. In addition, we describe a possible approach for accelerated selection in plant breeding.
T3  - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - paper 142 
Y1  - 2009
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus-45132
ER  -