Cell-type specialization is encoded by specific chromatin topologies View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2021-11-17

AUTHORS

Warren Winick-Ng, Alexander Kukalev, Izabela Harabula, Luna Zea-Redondo, Dominik Szabó, Mandy Meijer, Leonid Serebreni, Yingnan Zhang, Simona Bianco, Andrea M. Chiariello, Ibai Irastorza-Azcarate, Christoph J. Thieme, Thomas M. Sparks, Sílvia Carvalho, Luca Fiorillo, Francesco Musella, Ehsan Irani, Elena Torlai Triglia, Aleksandra A. Kolodziejczyk, Andreas Abentung, Galina Apostolova, Eleanor J. Paul, Vedran Franke, Rieke Kempfer, Altuna Akalin, Sarah A. Teichmann, Georg Dechant, Mark A. Ungless, Mario Nicodemi, Lonnie Welch, Gonçalo Castelo-Branco, Ana Pombo

ABSTRACT

The three-dimensional (3D) structure of chromatin is intrinsically associated with gene regulation and cell function1-3. Methods based on chromatin conformation capture have mapped chromatin structures in neuronal systems such as in vitro differentiated neurons, neurons isolated through fluorescence-activated cell sorting from cortical tissues pooled from different animals and from dissociated whole hippocampi4-6. However, changes in chromatin organization captured by imaging, such as the relocation of Bdnf away from the nuclear periphery after activation7, are invisible with such approaches8. Here we developed immunoGAM, an extension of genome architecture mapping (GAM)2,9, to map 3D chromatin topology genome-wide in specific brain cell types, without tissue disruption, from single animals. GAM is a ligation-free technology that maps genome topology by sequencing the DNA content from thin (about 220 nm) nuclear cryosections. Chromatin interactions are identified from the increased probability of co-segregation of contacting loci across a collection of nuclear slices. ImmunoGAM expands the scope of GAM to enable the selection of specific cell types using low cell numbers (approximately 1,000 cells) within a complex tissue and avoids tissue dissociation2,10. We report cell-type specialized 3D chromatin structures at multiple genomic scales that relate to patterns of gene expression. We discover extensive 'melting' of long genes when they are highly expressed and/or have high chromatin accessibility. The contacts most specific of neuron subtypes contain genes associated with specialized processes, such as addiction and synaptic plasticity, which harbour putative binding sites for neuronal transcription factors within accessible chromatin regions. Moreover, sensory receptor genes are preferentially found in heterochromatic compartments in brain cells, which establish strong contacts across tens of megabases. Our results demonstrate that highly specific chromatin conformations in brain cells are tightly related to gene regulation mechanisms and specialized functions. More... »

PAGES

684-691

References to SciGraph publications

  • 2020-05-25. Three-dimensional genome restructuring across timescales of activity-induced neuronal gene expression in NATURE NEUROSCIENCE
  • 2018-03-19. Myelin remodeling through experience-dependent oligodendrogenesis in the adult somatosensory cortex in NATURE NEUROSCIENCE
  • 2017-08-28. An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues in NATURE METHODS
  • 1976-03. Gene control in eukaryotes and thec-value paradox “Excess” DNA as an impediment to transcription of coding sequences in JOURNAL OF MOLECULAR EVOLUTION
  • 2020-07-03. Comprehensive identification of mRNA isoforms reveals the diversity of neural cell-surface molecules with roles in retinal development and disease in NATURE COMMUNICATIONS
  • 2020-03-26. Distinct features of nucleolus-associated domains in mouse embryonic stem cells in CHROMOSOMA
  • 2021-05-07. Comparison of the Hi-C, GAM and SPRITE methods using polymer models of chromatin in NATURE METHODS
  • 2003-01-13. Conversion of embryonic stem cells into neuroectodermal precursors in adherent monoculture in NATURE BIOTECHNOLOGY
  • 2014-12-05. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 in GENOME BIOLOGY
  • 2017-06-26. Flipping between Polycomb repressed and active transcriptional states introduces noise in gene expression in NATURE COMMUNICATIONS
  • 2013-08-28. Topoisomerases facilitate transcription of long genes linked to autism in NATURE
  • 1988-01. Paralysis of skeletal muscle by butanedione monoxime, a chemical phosphatase in PFLÜGERS ARCHIV - EUROPEAN JOURNAL OF PHYSIOLOGY
  • 2005-07. Neural crest origins of the neck and shoulder in NATURE
  • 2017-03-08. Complex multi-enhancer contacts captured by Genome Architecture Mapping (GAM) in NATURE
  • 2018-11-12. Disease-specific oligodendrocyte lineage cells arise in multiple sclerosis in NATURE MEDICINE
  • 2012-03-04. Fast gapped-read alignment with Bowtie 2 in NATURE METHODS
  • 2021-02-25. ArchR is a scalable software package for integrative single-cell chromatin accessibility analysis in NATURE GENETICS
  • 2011-08-04. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome in BMC BIOINFORMATICS
  • 2015-02-18. Chromatin architecture reorganization during stem cell differentiation in NATURE
  • 2019-08-29. EGR1 recruits TET1 to shape the brain methylome during development and upon neuronal activity in NATURE COMMUNICATIONS
  • 2019-09-09. A Compendium of Promoter-Centered Long-Range Chromatin Interactions in the Human Genome in NATURE GENETICS
  • 2019-01-09. Lhx2/Ldb1-mediated trans interactions regulate olfactory receptor choice in NATURE
  • 2016-07-13. Polymer physics of chromosome large-scale 3D organisation in SCIENTIFIC REPORTS
  • 2019-03-26. From Louvain to Leiden: guaranteeing well-connected communities in SCIENTIFIC REPORTS
  • 2007-09-18. Co-regulation of a large and rapidly evolving repertoire of odorant receptor genes in BMC NEUROSCIENCE
  • 2015-02-02. Identifying candidate drivers of alcohol dependence-induced excessive drinking by assembly and interrogation of brain-specific regulatory networks in GENOME BIOLOGY
  • 2016-03-02. Shisa6 traps AMPA receptors at postsynaptic sites and prevents their desensitization during synaptic activity in NATURE COMMUNICATIONS
  • 2012-06-28. Fiji: an open-source platform for biological-image analysis in NATURE METHODS
  • 2015-06-01. Condensin-Driven Remodeling of X-Chromosome Topology during Dosage Compensation in NATURE
  • 2018-04-16. Polymer physics predicts the effects of structural variants on chromatin architecture in NATURE GENETICS
  • 2015-03-11. Disruption of DNA methylation-dependent long gene repression in Rett syndrome in NATURE
  • Journal

    TITLE

    Nature

    ISSUE

    7886

    VOLUME

    599

    Author Affiliations

  • Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Epigenetic Regulation and Chromatin Architecture Group, Berlin, Germany
  • Institute of Biology, Humboldt-Universität zu Berlin, Berlin, Germany
  • Laboratory of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden
  • Present Address: Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Vienna, Austria
  • School of Electrical Engineering and Computer Science, Ohio University, Athens, OH USA
  • Dipartimentio di Fisica, Università di Napoli Federico II, and INFN Napoli, Complesso Universitario di Monte Sant’Angelo, Naples, Italy
  • Graduate Program in Areas of Basic and Applied Biology, Universidade do Porto, Porto, Portugal
  • Berlin Institute of Health, Berlin, Germany
  • Present Address: Broad Institute of MIT and Harvard, Cambridge, MA USA
  • Present Address: Immunology Department, Weizmann Institute of Science, Rehovot, Israel
  • Present Address: Department of Clinical and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway
  • Institute for Neuroscience, Medical University of Innsbruck, Innsbruck, Austria
  • Present Address: MRC Center for Neurodevelopmental Disorders, King’s College London, London, UK
  • Max-Delbrück Centre for Molecular Medicine, Berlin Institute for Medical Systems Biology, Bioinformatics and Omics Data Science Platform, Berlin, Germany
  • Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK
  • Institute of Clinical Sciences, Imperial College London, London, UK
  • Ming Wai Lau Centre for Reparative Medicine, Stockholm node, Karolinska Institutet, Stockholm, Sweden
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/s41586-021-04081-2

    DOI

    http://dx.doi.org/10.1038/s41586-021-04081-2

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1142627398

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/34789882


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