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Genetic-epigenetic interplay in the determination of plant 3D genome organization.

Xiaoning HeChloé Dias LopesLeonardo I Pereyra-BistraínYing HuangJing AnRim Brik ChaoucheHugo ZalzaléQingyi WangXing MaJavier Antunez-SanchezCatherine BergouniouxSophie PiquerezSotirios FragkostefanakisYijing ZhangShaojian ZhengMartin D CrespiMagdy M MahfouzOlivier MathieuFederico D ArielJosé Gutiérrez MarcosXingwang LiNicolas BouchéCécile RaynaudDavid LatrasseMoussa Benhamed
Published in: Nucleic acids research (2024)
The 3D chromatin organization plays a major role in the control of gene expression. However, our comprehension of the governing principles behind nuclear organization remains incomplete. Particularly, the spatial segregation of loci with similar repressive transcriptional states in plants poses a significant yet poorly understood puzzle. In this study, employing a combination of genetics and advanced 3D genomics approaches, we demonstrated that a redistribution of facultative heterochromatin marks in regions usually occupied by constitutive heterochromatin marks disrupts the 3D genome compartmentalisation. This disturbance, in turn, triggers novel chromatin interactions between genic and transposable element (TE) regions. Interestingly, our results imply that epigenetic features, constrained by genetic factors, intricately mold the landscape of 3D genome organisation. This study sheds light on the profound genetic-epigenetic interplay that underlies the regulation of gene expression within the intricate framework of the 3D genome. Our findings highlight the complexity of the relationships between genetic determinants and epigenetic features in shaping the dynamic configuration of the 3D genome.
Keyphrases
  • genome wide
  • dna methylation
  • gene expression
  • copy number
  • transcription factor
  • single cell
  • dna damage
  • oxidative stress
  • living cells
  • quantum dots
  • sensitive detection