Difference between revisions of "IC4R006-Epigenomic-2016-22110044"
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==Labs working on this Project== | ==Labs working on this Project== | ||
| − | * Department of Horticulture, University of | + | * Department of Horticulture, University of Wisconsin–Madison, Madison, Wisconsin 53706, USA; |
| − | * | + | * Department of Plant and Microbial Biology, University of California–Berkeley, Berkeley, California 94720, USA; |
| + | * Institute for Genome Sciences and Policy, Duke University, Durham, North Carolina 27708, USA | ||
==Corresponding Author== | ==Corresponding Author== | ||
* '''Jiming Jiang''' (jjiang1@wisc.edu) | * '''Jiming Jiang''' (jjiang1@wisc.edu) | ||
Revision as of 04:37, 22 June 2016
Contents
Project Title
- High-resolution mapping of open chromatin in the rice genome
The Background of This Project
- Cytosine DNA methylation is a conserved epigeneti silencing mechanism in higher eukaryotes. Cytosine methylation plays an important role in many biological processes, including defense against transposon proliferation (Tsukahara et al., 2009), control of genomic imprinting (Morison et al., 2005) and regulation of gene expression (Bird, 2002). In mammals, cytosine methylation is controlled by the de novo methyltransferases DNMT3a/b, and is maintained by the methyltransferase DNMT1 (Goll and Bestor, 2005). Methylated cytosines occur almost exclu- sively at CG dinucleotides in mammalian genomes. However, Lister et al. (2009) recently showed that approximately 15% of methylated cytosines are associated with neighbor.
- Despite significant interest in mapping cytosine methylation in various model eukaryotes, genome-wide mapping has only been accomplished in a few species. Mapping cytosine methylation at a single-base resolution has recently been accomplished in Arabidopsis thaliana (Cokus et al., 2008; Lister et al., 2008) and humans (Lister et al., 2009). The researchers are interested in the high-resolution mapping of DNA methylation associated with plant centromeres. Four of the 12 rice centromeres have been fully or nearly fully sequenced (Yan et al., 2008), providing an unprecedented opportunity to study the methylation associated with centromeric DNA in multicellular eukaryotes. The researchers conducted a methylcytosine immunoprecipitation (mCIP) combined with Illumina sequencing (mCIP-seq) assay in rice. We provide a genome-wide cytosine methylation map of rice and report on the dynamic methylation patterns associated with rice genes and centromeres.
Labs working on this Project
- Department of Horticulture, University of Wisconsin–Madison, Madison, Wisconsin 53706, USA;
- Department of Plant and Microbial Biology, University of California–Berkeley, Berkeley, California 94720, USA;
- Institute for Genome Sciences and Policy, Duke University, Durham, North Carolina 27708, USA
Corresponding Author
- Jiming Jiang (jjiang1@wisc.edu)
