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Parental pericentromeric methylation status drives methylome remodeling and heterosis in Arabidopsis hybrids [WGBS_epiHybrids]

ABSTRACT: WGBS of 169 ddm1-derived epiHybrids and their corresponding maternal msCol lines A large number of epiHybrids families (169 epiHybrids) were generated by crossing a male sterile maternal plant of the Columbia accession (msCol) to different paternal ddm1-2 derived epiRILs (Johannes et al., 2009)

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE211715 | GEO | 2024/01/26

REPOSITORIES: GEO

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Parental pericentromeric methylation status drives methylome remodeling and heterosis in Arabidopsis hybrids [Transcriptome]

Project description:A large number of epiHybrids families were generated by crossing a male sterile maternal plant of the Columbia accession (msCol) to different paternal ddm1-2 derived epiRILs (Johannes et al., 2009)

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Parental pericentromeric methylation status drives methylome remodeling and heterosis in Arabidopsis hybrids [smallRNAseq]

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Parental pericentromeric methylation status drives methylome remodeling and heterosis in Arabidopsis hybrids [WGBS_epiRILs]

Project description:WGBS of 169 ddm1-derived epiRILs 169 ddm1-derived epigenetic recombinant inbred lines (epiRILs) were obtained from the Versailles Arabidopsis Stock center of INRA (http://publiclines.versailles.inra.fr/) and they were propagated in a fully automatic phenotyping facility for small plants at the Leibniz Institute of Plant Genetics and Crop Plant Research (IPK). Whole Genome Bisulphite Sequencing was performed at the Beijing Genome Institute.

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Genome re-sequencing of Arabidopsis epiRILs and epiHybrids

Project description:Despite the importance and wide exploitation of heterosis in commercial crop breeding, the molecular mechanisms behind this phenomenon are not completely understood. In this study we aimed to understand and quantify the contribution of DNA methylation variation to heterosis in various traits of Arabidopsis. Therefore we created epigenetic hybrid lines from ddm1-derived epiRILs. We performed whole genome sequencing on four epiHybrids and their parental lines (epiRILs & Col-wt) in duplicates to examine structural variants in hybrids genome wide and with a focus on previously mapped QTL regions.

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Project description:Despite the importance and wide exploitation of heterosis in commercial crop breeding, the molecular mechanisms behind this phenomenon are not completely understood. In this study we aimed to understand and quantify the contribution of DNA methylation variation to heterosis in various traits of Arabidopsis. Therefore we created epigenetic hybrid lines from ddm1-derived epiRILs. We performed RNA sequencing on four epiHybrids and their parental lines (epiRILs & Col-wt) in duplicates/triplicates to understand gene expression changes in hybrids genome wide and with a focus on previously mapped QTL regions.

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Genome-wide DNA methylation profiles from Arabidopsis epiRILs, epiHybrids and Colombia wild type

Project description:Despite the importance and wide exploitation of heterosis in commercial crop breeding, the molecular mechanisms behind this phenomenon are not completely understood. In this study we aimed to understand and quantify the contribution of DNA methylation variation to heterosis in various traits of Arabidopsis. Therefore we created epigenetic hybrid lines from ddm1-derived epiRILs. We performed whole genome bisulfite sequencing on four epiHybrids and their parental lines (epiRILs & Col-wt) in duplicates to understand methylome remodelling in hybrids genome wide and with a focus on previously mapped QTL regions.

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Whole genome methylation maps of Wild Type (WT), mutant (ddm1) and epiRILs

Project description:DNA methylation profiling in Wild Type (WT), mutant (ddm1) and epiRILs (060-098-202-260-344-480) 1 biological replicate per sample - Bisulfite-seq

2014-10-10 | E-GEOD-62206 | biostudies-arrayexpress

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