|
| Status |
Public on Feb 06, 2011 |
| Title |
Mapping origins of replication in Arabidopsis thaliana |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Other
Genome binding/occupancy profiling by genome tiling array
|
| Summary |
Genomic integrity requires faithful chromosome duplication. Origins of replication are the genomic sites where DNA replication initiates in every cell cycle. There are multiple origins scattered throughout the eukaryotic genome whose genome-wide identification has been a hard challenge, especially in multicellular organisms. Thus, very little is known on the distinctive features of origins in terms of DNA sequence and chromatin context at a genomic scale. Here we have profiled origins in Arabidopsis thaliana by high-throughput sequencing of purified nascent DNA strands. We have identified 1543 replication origins, which were uniformly distributed across the Arabidopsis genome and enriched in binding signals of two replication initiation proteins, CDC6 and ORC1. We have also analyzed novel epigenome maps of various histone modifications and found links between origins and epigenetic signatures, which differ from or have not been reported for other eukaryotic systems. Arabidopsis origins tend to be embedded in G+C-rich regions within the 5’ half of genes, enriched in histone H2A.Z, H3K4me2/3 and acetylated H4, and depleted of H3K4me1 and H3K9me2. Our data establish the basis for the understanding of the epigenetic specification of origins of replication in Arabidopsis and have implications for the mechanisms of origin specification in other eukaryotes.
This SuperSeries is composed of the SubSeries listed below.
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| |
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| Overall design |
Refer to individual Series
|
| |
|
| Citation(s) |
21297636 |
| |
| Submission date |
May 14, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Hume Stroud |
| Organization name |
UT Southwestern
|
| Street address |
5323 Harry Hines Blvd
|
| City |
Dallas |
| State/province |
TX |
| ZIP/Postal code |
75390 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL9302 |
Illumina Genome Analyzer II (Arabidopsis thaliana) |
| GPL10977 |
[At35b_MR] Affymetrix Arabidopsis Tiling 1.0R Array |
|
| Samples (5)
|
|
| This SuperSeries is composed of the following SubSeries: |
| GSE21781 |
Mapping origins of replication in Arabidopsis thaliana: Examination of BrdU labeled DNA and unlabeled DNA in one cell type |
| GSE21827 |
Mapping origins of replication in Arabidopsis thaliana: H4K5ac ChIP vs. unmodified H3 ChIP |
|
| Relations |
| BioProject |
PRJNA127085 |
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