Please use this identifier to cite or link to this item:
Full metadata record
DC FieldValueLanguage
dc.contributor.authorMandriani, Barbara
dc.contributor.authorCastellana, Stefano
dc.contributor.authorRinaldi, Carmela
dc.contributor.authorManzoni, Marta
dc.contributor.authorVenuto, Santina
dc.contributor.authorRodriguez-Aznar, Eva
dc.contributor.authorGalceran, Juan
dc.contributor.authorNieto, M Angela
dc.contributor.authorBorsani, Giuseppe
dc.contributor.authorMonti, Eugenio
dc.contributor.authorMazza, Tommaso
dc.contributor.authorMerla, Giuseppe
dc.contributor.authorMicale, Lucia
dc.identifier.citationSci Rep.2016 09;(6):32474
dc.description.abstractTo orchestrate the genomic response to cellular stress signals, p53 recognizes and binds to DNA containing specific and well-characterized p53-responsive elements (REs). Differences in RE sequences can strongly affect the p53 transactivation capacity and occur even between closely related species. Therefore, the identification and characterization of a species-specific p53 Binding sistes (BS) consensus sequence and of the associated target genes may help to provide new insights into the evolution of the p53 regulatory networks across different species. Although p53 functions were studied in a wide range of species, little is known about the p53-mediated transcriptional signature in Danio rerio. Here, we designed and biochemically validated a computational approach to identify novel p53 target genes in Danio rerio genome. Screening all the Danio rerio genome by pattern-matching-based analysis, we found p53 RE-like patterns proximal to 979 annotated Danio rerio genes. Prioritization analysis identified a subset of 134 candidate pattern-related genes, 31 of which have been investigated in further biochemical assays. Our study identified runx1, axin1, traf4a, hspa8, col4a5, necab2, and dnajc9 genes as novel direct p53 targets and 12 additional p53-controlled genes in Danio rerio genome. The proposed combinatorial approach resulted to be highly sensitive and robust for identifying new p53 target genes also in additional animal species.
dc.subject.meshAxin Protein
dc.subject.meshBase Sequence
dc.subject.meshBinding Sites
dc.subject.meshCalcium-Binding Proteins
dc.subject.meshCollagen Type IV
dc.subject.meshCore Binding Factor Alpha 2 Subunit
dc.subject.meshEvolution, Molecular
dc.subject.meshGene Expression Regulation
dc.subject.meshHSC70 Heat-Shock Proteins
dc.subject.meshHSP40 Heat-Shock Proteins
dc.subject.meshPromoter Regions, Genetic
dc.subject.meshProtein Binding
dc.subject.meshSequence Alignment
dc.subject.meshSignal Transduction
dc.subject.meshTNF Receptor-Associated Factor 4
dc.subject.meshTumor Suppressor Protein p53
dc.subject.meshZebrafish Proteins
dc.subject.meshResponse Elements
dc.subject.meshTranscription, Genetic
dc.titleIdentification of p53-target genes in Danio rerio.
dc.identifier.journalScientific reports
dc.pubmedtypeJournal Article
dc.pubmedtypeResearch Support, Non-U.S. Gov't
Appears in Collections:Fundaciones e Institutos de Investigación > IIS H. U. Ramón y Cajal > Artículos

Files in This Item:
File Description SizeFormat 
PMC5007497.pdf1.64 MBAdobe PDFThumbnail

Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.