Journal article
Genome-wide Maps of Nuclear Lamina Interactions in Single Human Cells
J Kind, L Pagie, SS De Vries, L Nahidiazar, SS Dey, M Bienko, Y Zhan, B Lajoie, CA De Graaf, M Amendola, G Fudenberg, M Imakaev, LA Mirny, K Jalink, J Dekker, A Van Oudenaarden, B Van Steensel
Cell | CELL PRESS | Published : 2015
Abstract
Mammalian interphase chromosomes interact with the nuclear lamina (NL) through hundreds of large lamina-associated domains (LADs). We report a method to map NL contacts genome-wide in single human cells. Analysis of nearly 400 maps reveals a core architecture consisting of gene-poor LADs that contact the NL with high cell-to-cell consistency, interspersed by LADs with more variable NL interactions. The variable contacts tend to be cell-type specific and are more sensitive to changes in genome ploidy than the consistent contacts. Single-cell maps indicate that NL contacts involve multivalent interactions over hundreds of kilobases. Moreover, we observe extensive intra-chromosomal coordination..
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Awarded by Nederlandse Organisatie voor Wetenschappelijk Onderzoek
Funding Acknowledgements
We thank the NKI Genomics Core Facility for technical assistance, Thijn Brummelkamp for help with KBM7 cells, Erik Wernersson for FISH image analysis, and members of the B.v.S. lab for helpful comments. This study was supported by a Nederlandse Organisatie voor Wetenschappelijk Onderzoek (NWO) ALW-VENI fellowship (to J.K.), an NHMRC Early Career Fellowship (to C.A.d.G.), an NWO ZonMW-TOP and European Research Council (ERC) Advanced Grant AdG 293662-CHROMATINPRINCIPLES (to B.v.S.), a STW grant (12150) (to K.J.), an ERC Advanced Grant AdG 294325-GeneNoiseControl and NWO VICI Award (to S.S.D., M.B., and A.v.O.), a NIH grant (R01 GM114190) (to L.A.M., M.I., and G.F.), and a National Human Genome Research Institute grant (R01 HG003143) (to J.D., L.A.M., M.I., and G.F.).