Genome-wide mapping of Arabidopsis thaliana origins of DNA replication and their associated epigenetic marks

Celina Costas, Maria De La Paz Sanchez, Hume Stroud, Yanchun Yu, Juan Carlos Oliveros, Suhua Feng, Alberto Benguria, Irene López-Vidriero, Xiaoyu Zhang, Roberto Solano, Steven E. Jacobsen, Crisanto Gutierrez

Research output: Contribution to journalArticlepeer-review

Abstract

Genome integrity requires faithful chromosome duplication. Origins of replication, the genomic sites at which DNA replication initiates, are scattered throughout the genome. Their mapping at a genomic scale in multicellular organisms has been challenging. In this study we profiled origins in Arabidopsis thaliana by high-throughput sequencing of newly synthesized DNA and identified ∼1,500 putative origins genome-wide. This was supported by chromatin immunoprecipitation and microarray (ChIP-chip) experiments to identify ORC1- and CDC6-binding sites. We validated origin activity independently by measuring the abundance of nascent DNA strands. The midpoints of most A. thaliana origin regions are preferentially located within the 5' half of genes, enriched in G+C, histone H2A.Z, H3K4me2, H3K4me3 and H4K5ac, and depleted in H3K4me1 and H3K9me2. Our data help clarify the epigenetic specification of DNA replication origins in A. thaliana and have implications for other eukaryotes.

Original languageEnglish (US)
Pages (from-to)395-400
Number of pages6
JournalNature Structural and Molecular Biology
Volume18
Issue number3
DOIs
StatePublished - Mar 2011
Externally publishedYes

ASJC Scopus subject areas

  • Structural Biology
  • Molecular Biology

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