title: The 3D folding of metazoan genomes correlates with the association of similar repetitive elements.
abstract: The potential roles of the numerous repetitive elements found in the genomes of multi-cellular organisms remain speculative. Several studies have suggested a role in stabilizing specific 3D genomic contacts. To test this hypothesis, we exploited inter-chromosomal contacts frequencies obtained from Hi-C experiments and show that the folding of the human, mouse and Drosophila genomes is associated with a significant co-localization of several specific repetitive elements, notably many elements of the SINE family. These repeats tend to be the oldest ones and are enriched in transcription factor binding sites. We propose that the co-localization of these repetitive elements may explain the global conservation of genome folding observed between homologous regions of the human and mouse genome. Taken together, these results support a contribution of specific repetitive elements in maintaining and/or reshaping genome architecture over evolutionary times.
authors.affiliation: LPTMC, Université Pierre et Marie Curie, Sorbonne université, 4 Place Jussieu 75005 Paris, France Institut Pasteur, Group Spatial Regulation of Genomes, Department of Genomes and Genetics, F-75015 Paris, France CNRS, UMR3525, F-75015 Paris, France mozziconacci@lptmc.jussieu.fr.
authors.forename: Axel
authors.initials: A
authors.lastname: Cournac
authors.affiliation: Institut Pasteur, Group Spatial Regulation of Genomes, Department of Genomes and Genetics, F-75015 Paris, France CNRS, UMR3525, F-75015 Paris, France.
authors.forename: Romain
authors.initials: R
authors.lastname: Koszul
authors.affiliation: LPTMC, Université Pierre et Marie Curie, Sorbonne université, 4 Place Jussieu 75005 Paris, France mozziconacci@lptmc.jussieu.fr.
authors.forename: Julien
authors.initials: J
authors.lastname: Mozziconacci
mesh_terms: D000818:Animals; D001665:Binding Sites; D002467:Cell Nucleus; D002874:Chromosome Mapping; D002875:Chromosomes; D019295:Computational Biology / Q000379:methods; D004330:Drosophila; D053595:Embryonic Stem Cells / Q000378:metabolism; D019143:Evolution, Molecular; D016678:Genome; D006801:Humans; D051379:Mice; D058977:Molecular Sequence Annotation; D009690:Nucleic Acid Conformation; D009928:Organ Specificity / Q000235:genetics; D011485:Protein Binding; D012091:Repetitive Sequences, Nucleic Acid; D014157:Transcription Factors / Q000378:metabolism
chemical_list: D014157:Transcription Factors