Epigenomics and chromosome architecture one cell at a time

3D chromatin interactions involving Drosophila insulators are infrequent but preferential and arise before TADs and transcription

Autori: Olivier Messina, Flavien Raynal, Julian Gurgo, Jean-Bernard Fiche, Vera Pancaldi, Marcelo Nollmann
Pubblicato in: Nature Communications, Numero in press, 2023, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1101/2022.12.12.520036

Multi-scale dynamic imaging reveals that cooperative motility behaviors promote efficient predation in bacteria

Autori: Rombouts Sara, Anna Mas, Antoine Le Gall, Jean-Bernard Fiche, Tam Mignot, Marcelo Nollmann
Pubblicato in: Nature Communications, 2023, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1101/2022.12.20.521001

Multiple parameters shape the 3D chromatin structure of single nuclei at the doc locus in Drosophila

Autori: Markus Goetz, Olivier Messina, Sergio Espinola, Jean-Bernard Fiche, Marcelo Nollmann
Pubblicato in: Nature Communications, 2022, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-022-32973-y

Qudi-HiM: an open-source acquisition software package for highly multiplexed sequential and combinatorial optical imaging

Autori: Franziska Barho, Jean-Bernard Fiche, Marion Bardou, Olivier Messina, Alexandre Martiniere, Christophe Houbron, Marcelo NOLLMANN
Pubblicato in: Open Research Europe, 2021, ISSN 2732-5121
Editore: F1000 Research Limited on behalf of the European Commission
DOI: 10.12688/openreseurope.14641.1

bacto_tracker: a method for single-cell tracking of M. xanthus in dense and multispecies colonies

Autori: Sara Rombouts, Jean-Bernard Fiche, Tam Mignot, Marcelo Nollmann
Pubblicato in: Open Research Europe, 2023, ISSN 2732-5121
Editore: F1000 Research Limited on behalf of the European Commission
DOI: 10.12688/openreseurope.15255.1

Microscopy-Based Chromosome Conformation Capture Enables Simultaneous Visualization of Genome Organization and Transcription in Intact Organisms

Autori: Andrés M. Cardozo Gizzi, Diego I. Cattoni, Jean-Bernard Fiche, Sergio M. Espinola, Julian Gurgo, Olivier Messina, Christophe Houbron, Yuki Ogiyama, Giorgio L. Papadopoulos, Giacomo Cavalli, Mounia Lagha, Marcelo Nollmann
Pubblicato in: Molecular Cell, Numero 74/1, 2019, Pagina/e 212-222.e5, ISSN 1097-2765
Editore: Cell Press
DOI: 10.1016/j.molcel.2019.01.011

TADs are 3D structural units of higher-order chromosome organization in Drosophila

Autori: Quentin Szabo, Daniel Jost, Jia-Ming Chang, Diego I. Cattoni, Giorgio L. Papadopoulos, Boyan Bonev, Tom Sexton, Julian Gurgo, Caroline Jacquier, Marcelo Nollmann, Frédéric Bantignies, Giacomo Cavalli
Pubblicato in: Science Advances, Numero 4/2, 2018, Pagina/e eaar8082, ISSN 2375-2548
Editore: Science
DOI: 10.1126/sciadv.aar8082

Direct and simultaneous observation of transcription and chromosome architecture in single cells with Hi-M

Autori: Andrés M. Cardozo Gizzi, Sergio M. Espinola, Julian Gurgo, Christophe Houbron, Jean-Bernard Fiche, Diego I. Cattoni, Marcelo Nollmann
Pubblicato in: Nature Protocols, Numero 15/3, 2020, Pagina/e 840-876, ISSN 1754-2189
Editore: Nature Publishing Group
DOI: 10.1038/s41596-019-0269-9

TADs or no TADS: Lessons From Single-cell Imaging of Chromosome Architecture

Autori: Andrés M. Cardozo Gizzi, Diego I. Cattoni, Marcelo Nollmann
Pubblicato in: Journal of Molecular Biology, Numero 432/3, 2020, Pagina/e 682-693, ISSN 0022-2836
Editore: Academic Press
DOI: 10.1016/j.jmb.2019.12.034

Single-cell absolute contact probability detection reveals chromosomes are organized by multiple low-frequency yet specific interactions

Autori: Diego I. Cattoni, Andrés M. Cardozo Gizzi, Mariya Georgieva, Marco Di Stefano, Alessandro Valeri, Delphine Chamousset, Christophe Houbron, Stephanie Déjardin, Jean-Bernard Fiche, Inma González, Jia-Ming Chang, Thomas Sexton, Marc A. Marti-Renom, Frédéric Bantignies, Giacomo Cavalli, Marcelo Nollmann
Pubblicato in: Nature Communications, Numero 8/1, 2017, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-017-01962-x

Contributions of 3D chromatin structure to cell-type-specific gene regulation

Autori: Marie Schaeffer; Marcelo Nollmann
Pubblicato in: Current Opinion in Genetics & Development, 2022, ISSN 0959-437X
Editore: Elsevier BV
DOI: 10.1016/j.gde.2023.102032

Cis-regulatory chromatin loops arise before TADs and gene activation, and are independent of cell fate during early Drosophila development

Autori: Sergio Martin Espinola, Markus Götz, Maelle Bellec, Olivier Messina, Jean-Bernard Fiche, Christophe Houbron, Matthieu Dejean, Ingolf Reim, Andrés M. Cardozo Gizzi, Mounia Lagha, Marcelo Nollmann
Pubblicato in: Nature Genetics, Numero 53, pages 477-486, 2021, ISSN 1061-4036
Editore: Nature Publishing Group
DOI: 10.1038/s41588-021-00816-z

ATP-Driven Separation of Liquid Phase Condensates in Bacteria

Autori: B. Guilhas, J.C. Walter, J. Rech, G. David, N.-O. Walliser, J. Palmeri, C., Mathieu-Demaziere, A. Parmeggiani, J.Y. Bouet, A. Le Gall, Marcelo Nollmann
Pubblicato in: Mol Cell., Numero 2020 Jul 16;79(2):293-303.e4, 2020, ISSN 1097-2765
Editore: Cell Press
DOI: 10.1016/j.molcel.2020.06.034

The Impact of Space and Time on the Functional Output of the Genome.

Autori: Nollmann M, Bennabi I, Götz M, Gregor T.
Pubblicato in: Cold Spring Harb Perspect Biol, 2022, ISSN 1943-0264
Editore: Cold Spring Harb
DOI: 10.1101/cshperspect.a040378

pyHiM, a new open-source, multi-platform software package for spatial genomics based on multiplexed DNA-FISH imaging

Autori: Devos Xavier, Fiche Jean-Bernard, Bardou Marion, Messina Olivier, Houbron Christophe, Gurgo Julian, Schaeffer Marie, Götz Markus, Walter Thomas, Mueller Florian, Nollmann Marcelo
Pubblicato in: BioRxiv, 2023, ISSN 2692-8205
Editore: bioRxiv
DOI: 10.1101/2023.09.19.558412

Multiple parameters shape the 3D chromatin structure of single nuclei

Autori: Markus Goetz, Olivier Messina, Sergio Espinola, Jean-Bernard Fiche, Marcelo Nollmann
Pubblicato in: BioRxiv, 2022, ISSN 2692-8205
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/2022.01.16.476319

Multiplexed chromatin imaging reveals predominantly pairwise long-range coordination between Drosophila Polycomb genes

Autori: Julian Gurgo, Jean-Charles Walter, Jean-Bernard Fiche, Christophe Houbron, Marie Schaeffer, Giacomo Cavalli, Frédéric Bantignies, Marcelo Nollmann
Pubblicato in: BioRxiv, 2022, ISSN 2692-8205
Editore: Cold Spring Harbor Laboratories
DOI: 10.1101/2022.05.16.492046

Cis-regulatory chromatin loops arise before TADs and gene activation, and are independent of cell fate during development

Autori: Sergio Martín Espínola; Markus Götz; Jean-Bernard Fiche; Maelle Bellec; Christophe Houbron; Andrés M. Cardozo Gizzi; Mounia Lagha; Marcelo Nollmann
Pubblicato in: Biorxiv, Numero 1, 2020, ISSN 2692-8205
Editore: Cold Spring Harbor Laboratories
DOI: 10.1101/2020.07.07.191015

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