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  Prediction of hybrid biomass in Arabidopsis thaliana by selected parental SNP and metabolic markers

Steinfath, M., Gaertner, T., Lisec, J., Meyer, R. C., Altmann, T., Willmitzer, L., et al. (2010). Prediction of hybrid biomass in Arabidopsis thaliana by selected parental SNP and metabolic markers. Theoretical and Applied Genetics, 120(2), 239-247. doi:10.1007/s00122-009-1191-2.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0014-230E-A Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0014-230F-8
Genre: Journal Article

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 Creators:
Steinfath, M.1, Author              
Gaertner, T.2, Author
Lisec, J.3, Author              
Meyer, R. C.4, Author              
Altmann, T.4, Author              
Willmitzer, L.3, Author              
Selbig, J.1, Author              
Affiliations:
1BioinformaticsCRG, Cooperative Research Groups, Max Planck Institute of Molecular Plant Physiology, Max Planck Society, ou_1753315              
2External Organizations, ou_persistent22              
3Small Molecules, Department Willmitzer, Max Planck Institute of Molecular Plant Physiology, Max Planck Society, ou_1753340              
4Developmental Physiology and Genomics, Cooperative Research Groups, Max Planck Institute of Molecular Plant Physiology, Max Planck Society, ou_1753313              

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Free keywords: heterosis performance populations identification characters models qtl
 Abstract: 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.

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Language(s): eng - English
 Dates: 2009-11-172010
 Publication Status: Published in print
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 Table of Contents: -
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 Identifiers: ISI: ISI:000272803700005
DOI: 10.1007/s00122-009-1191-2
ISSN: 1432-2242 (Electronic) 0040-5752 (Linking)
URI: ://000272803700005 http://www.springerlink.com/content/ej7w26w0812741g6/fulltext.pdf
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Title: Theoretical and Applied Genetics
Source Genre: Journal
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Pages: - Volume / Issue: 120 (2) Sequence Number: - Start / End Page: 239 - 247 Identifier: -