PLoS genetics, 2018-11, Vol.14 (11), p.e1007797-e1007797
2018
Details
- Autor(en) / Beteiligte
- Titel
- Genome-wide identification of RETINOBLASTOMA RELATED 1 binding sites in Arabidopsis reveals novel DNA damage regulators
- Ist Teil von
- PLoS genetics, 2018-11, Vol.14 (11), p.e1007797-e1007797
- Ort / Verlag
- United States: Public Library of Science
- Erscheinungsjahr
- 2018
- Link zum Volltext
- Quelle
- Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals
- Beschreibungen/Notizen
- Retinoblastoma (pRb) is a multifunctional regulator, which was likely present in the last common ancestor of all eukaryotes. The Arabidopsis pRb homolog RETINOBLASTOMA RELATED 1 (RBR1), similar to its animal counterparts, controls not only cell proliferation but is also implicated in developmental decisions, stress responses and maintenance of genome integrity. Although most functions of pRb-type proteins involve chromatin association, a genome-wide understanding of RBR1 binding sites in Arabidopsis is still missing. Here, we present a plant chromatin immunoprecipitation protocol optimized for genome-wide studies of indirectly DNA-bound proteins like RBR1. Our analysis revealed binding of Arabidopsis RBR1 to approximately 1000 genes and roughly 500 transposable elements, preferentially MITES. The RBR1-decorated genes broadly overlap with previously identified targets of two major transcription factors controlling the cell cycle, i.e. E2F and MYB3R3 and represent a robust inventory of RBR1-targets in dividing cells. Consistently, enriched motifs in the RBR1-marked domains include sequences related to the E2F consensus site and the MSA-core element bound by MYB3R transcription factors. Following up a key role of RBR1 in DNA damage response, we performed a meta-analysis combining the information about the RBR1-binding sites with genome-wide expression studies under DNA stress. As a result, we present the identification and mutant characterization of three novel genes required for growth upon genotoxic stress.
- Sprache
- Englisch
- Identifikatoren
- ISSN: 1553-7404, 1553-7390eISSN: 1553-7404DOI: 10.1371/journal.pgen.1007797Titel-ID: cdi_plos_journals_2251024304
- Format
- –
- Schlagworte
- Aluminum, Arabidopsis, Arabidopsis - cytology, Arabidopsis - genetics, Arabidopsis - metabolism, Arabidopsis Proteins - genetics, Arabidopsis Proteins - metabolism, Arabidopsis thaliana, Ataxia, Binding sites, Binding sites (Biochemistry), Binding Sites - genetics, Bioinformatics, Biologists, Biology and Life Sciences, Cancer, Cell cycle, Cell Cycle - genetics, Cell proliferation, Cell Proliferation - genetics, Chromatin, Deoxyribonucleic acid, Development Biology, Developmental biology, DNA, DNA binding proteins, DNA Damage, DNA repair, DNA Transposable Elements - genetics, DNA, Plant - genetics, DNA, Plant - metabolism, E2F protein, E2F Transcription Factors - genetics, E2F Transcription Factors - metabolism, Engineering and Technology, Gene expression, Genetic aspects, Genetics, Genome, Plant, Genome-wide association studies, Genomes, Genomics, Genotoxicity, Immunoprecipitation, Insects, Life Sciences, Novels, Observations, Open Reading Frames, Phosphorylation, Plants genetics, Protein binding, Proteins, Reproductive Biology, Research and Analysis Methods, Retina, Retinoblastoma, Sexual reproduction, Trans-Activators - genetics, Trans-Activators - metabolism, Transcription (Genetics), Transcription factors, Transposons, Tumors, Vegetal Biology