Epigenome-wide inheritance of cytosine methylation variants in a recombinant inbred population

Robert J. Schmitz; Yupeng He; Oswaldo Valdés-López; Saad M. Khan; Trupti Joshi; Mark A. Urich; Joseph R. Nery; Brian Diers; Dong Xu; Gary Stacey; Joseph R. Ecker

doi:10.1101/gr.152538.112

Epigenome-wide inheritance of cytosine methylation variants in a recombinant inbred population

Robert J. Schmitz, Yupeng He, Oswaldo Valdés-López, Saad M. Khan, Trupti Joshi, Mark A. Urich, Joseph R. Nery, Brian Diers, Dong Xu, Gary Stacey, Joseph R. Ecker

Agricultural and Consumer Economics

Research output: Contribution to journal › Article › peer-review

Abstract

Cytosine DNA methylation is one avenue for passing information through cell divisions. Here, we present epigenomic analyses of soybean recombinant inbred lines (RILs) and their parents. Identification of differentially methylated regions (DMRs) revealed that DMRs mostly cosegregated with the genotype from which they were derived, but examples of the uncoupling of genotype and epigenotype were identified. Linkage mapping of methylation states assessed from wholegenome bisulfite sequencing of 83 RILs uncovered widespread evidence for local methylQTL. This epigenomics approach provides a comprehensive study of the patterns and heritability of methylation variants in a complex genetic population over multiple generations, paving the way for understanding how methylation variants contribute to phenotypic variation.

Original language	English (US)
Pages (from-to)	1663-1674
Number of pages	12
Journal	Genome Research
Volume	23
Issue number	10
DOIs	https://doi.org/10.1101/gr.152538.112
State	Published - Oct 2013

ASJC Scopus subject areas

Genetics
Genetics(clinical)

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abstract = "Cytosine DNA methylation is one avenue for passing information through cell divisions. Here, we present epigenomic analyses of soybean recombinant inbred lines (RILs) and their parents. Identification of differentially methylated regions (DMRs) revealed that DMRs mostly cosegregated with the genotype from which they were derived, but examples of the uncoupling of genotype and epigenotype were identified. Linkage mapping of methylation states assessed from wholegenome bisulfite sequencing of 83 RILs uncovered widespread evidence for local methylQTL. This epigenomics approach provides a comprehensive study of the patterns and heritability of methylation variants in a complex genetic population over multiple generations, paving the way for understanding how methylation variants contribute to phenotypic variation.",

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AU - Schmitz, Robert J.

AU - He, Yupeng

AU - Valdés-López, Oswaldo

AU - Khan, Saad M.

AU - Joshi, Trupti

AU - Urich, Mark A.

AU - Nery, Joseph R.

AU - Diers, Brian

AU - Xu, Dong

AU - Stacey, Gary

AU - Ecker, Joseph R.

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Epigenome-wide inheritance of cytosine methylation variants in a recombinant inbred population

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