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1. Integrative analysis of neuroblastoma by single-cell RNA sequencing identifies the NECTIN2-TIGIT axis as a target for immunotherapy

Author

Wienke, Judith, Visser, Lindy L., Kholosy, Waleed M., Keller, Kaylee M., Barisa, Marta, Poon, Evon, Munnings-Tomes, Sophie, Himsworth, Courtney, Calton, Elizabeth, Rodriguez, Ana, Bernardi, Ronald, van den Ham, Femke, van Hooff, Sander R., Matser, Yvette A.H., Tas, Michelle L., Langenberg, Karin P.S., Lijnzaad, Philip, Borst, Anne L., Zappa, Elisa, Bergsma, Francisca J., Strijker, Josephine G.M., Verhoeven, Bronte M., Mei, Shenglin, Kramdi, Amira, Restuadi, Restuadi, Sanchez-Bernabeu, Alvaro, Cornel, Annelisa M., Holstege, Frank C.P., Gray, Juliet C., Tytgat, Godelieve A.M., Scheijde-Vermeulen, Marijn A., Wijnen, Marc H.W.A., Dierselhuis, Miranda P., Straathof, Karin, Behjati, Sam, Wu, Wei, Heck, Albert J.R., Koster, Jan, Nierkens, Stefan, Janoueix-Lerosey, Isabelle, de Krijger, Ronald R., Baryawno, Ninib, Chesler, Louis, Anderson, John, Caron, Hubert N., Margaritis, Thanasis, van Noesel, Max M., and Molenaar, Jan J.

Published
2024
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2. Reversible transitions between noradrenergic and mesenchymal tumor identities define cell plasticity in neuroblastoma

Author

Thirant, Cécile, Peltier, Agathe, Durand, Simon, Kramdi, Amira, Louis-Brennetot, Caroline, Pierre-Eugène, Cécile, Gautier, Margot, Costa, Ana, Grelier, Amandine, Zaïdi, Sakina, Gruel, Nadège, Jimenez, Irène, Lapouble, Eve, Pierron, Gaëlle, Sitbon, Déborah, Brisse, Hervé J., Gauthier, Arnaud, Fréneaux, Paul, Grossetête, Sandrine, Baudrin, Laura G., Raynal, Virginie, Baulande, Sylvain, Bellini, Angela, Bhalshankar, Jaydutt, Carcaboso, Angel M., Geoerger, Birgit, Rohrer, Hermann, Surdez, Didier, Boeva, Valentina, Schleiermacher, Gudrun, Delattre, Olivier, and Janoueix-Lerosey, Isabelle

Published
2023
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3. Histone H1 protects telomeric repeats from H3K27me3 invasion in Arabidopsis

Author

Teano, Gianluca, Concia, Lorenzo, Wolff, Léa, Carron, Léopold, Biocanin, Ivona, Adamusová, Kateřina, Fojtová, Miloslava, Bourge, Michael, Kramdi, Amira, Colot, Vincent, Grossniklaus, Ueli, Bowler, Chris, Baroux, Célia, Carbone, Alessandra, Probst, Aline V., Schrumpfová, Petra Procházková, Fajkus, Jiří, Amiard, Simon, Grob, Stefan, Bourbousse, Clara, and Barneche, Fredy

Published
2023
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4. Integrative analysis of neuroblastoma by single-cell RNA sequencing identifies the NECTIN2-TIGIT axis as a target for immunotherapy

Author

Afd Biomol.Mass Spect. and Proteomics, Sub Biomol.Mass Spectrometry & Proteom., Afd Pharmaceutics, Biomolecular Mass Spectrometry and Proteomics, Pharmaceutics, Wienke, Judith, Visser, Lindy L, Kholosy, Waleed M, Keller, Kaylee M, Barisa, Marta, Poon, Evon, Munnings-Tomes, Sophie, Himsworth, Courtney, Calton, Elizabeth, Rodriguez, Ana, Bernardi, Ronald, van den Ham, Femke, van Hooff, Sander R, Matser, Yvette A H, Tas, Michelle L, Langenberg, Karin P S, Lijnzaad, Philip, Borst, Anne L, Zappa, Elisa, Bergsma, Francisca J, Strijker, Josephine G M, Verhoeven, Bronte M, Mei, Shenglin, Kramdi, Amira, Restuadi, Restuadi, Sanchez-Bernabeu, Alvaro, Cornel, Annelisa M, Holstege, Frank C P, Gray, Juliet C, Tytgat, Godelieve A M, Scheijde-Vermeulen, Marijn A, Wijnen, Marc H W A, Dierselhuis, Miranda P, Straathof, Karin, Behjati, Sam, Wu, Wei, Heck, Albert J R, Koster, Jan, Nierkens, Stefan, Janoueix-Lerosey, Isabelle, de Krijger, Ronald R, Baryawno, Ninib, Chesler, Louis, Anderson, John, Caron, Hubert N, Margaritis, Thanasis, van Noesel, Max M, Molenaar, Jan J, Afd Biomol.Mass Spect. and Proteomics, Sub Biomol.Mass Spectrometry & Proteom., Afd Pharmaceutics, Biomolecular Mass Spectrometry and Proteomics, Pharmaceutics, Wienke, Judith, Visser, Lindy L, Kholosy, Waleed M, Keller, Kaylee M, Barisa, Marta, Poon, Evon, Munnings-Tomes, Sophie, Himsworth, Courtney, Calton, Elizabeth, Rodriguez, Ana, Bernardi, Ronald, van den Ham, Femke, van Hooff, Sander R, Matser, Yvette A H, Tas, Michelle L, Langenberg, Karin P S, Lijnzaad, Philip, Borst, Anne L, Zappa, Elisa, Bergsma, Francisca J, Strijker, Josephine G M, Verhoeven, Bronte M, Mei, Shenglin, Kramdi, Amira, Restuadi, Restuadi, Sanchez-Bernabeu, Alvaro, Cornel, Annelisa M, Holstege, Frank C P, Gray, Juliet C, Tytgat, Godelieve A M, Scheijde-Vermeulen, Marijn A, Wijnen, Marc H W A, Dierselhuis, Miranda P, Straathof, Karin, Behjati, Sam, Wu, Wei, Heck, Albert J R, Koster, Jan, Nierkens, Stefan, Janoueix-Lerosey, Isabelle, de Krijger, Ronald R, Baryawno, Ninib, Chesler, Louis, Anderson, John, Caron, Hubert N, Margaritis, Thanasis, van Noesel, Max M, and Molenaar, Jan J

Published
2024

5. Integrative analysis of neuroblastoma by single-cell RNA sequencing identifies the NECTIN2-TIGIT axis as a target for immunotherapy

Author

CTI Nierkens, Cancer, Infection & Immunity, CTI Research, Pathologie Pathologen staf, Onderzoek Beeld, Wienke, Judith, Visser, Lindy L, Kholosy, Waleed M, Keller, Kaylee M, Barisa, Marta, Poon, Evon, Munnings-Tomes, Sophie, Himsworth, Courtney, Calton, Elizabeth, Rodriguez, Ana, Bernardi, Ronald, van den Ham, Femke, van Hooff, Sander R, Matser, Yvette A H, Tas, Michelle L, Langenberg, Karin P S, Lijnzaad, Philip, Borst, Anne L, Zappa, Elisa, Bergsma, Francisca J, Strijker, Josephine G M, Verhoeven, Bronte M, Mei, Shenglin, Kramdi, Amira, Restuadi, Restuadi, Sanchez-Bernabeu, Alvaro, Cornel, Annelisa M, Holstege, Frank C P, Gray, Juliet C, Tytgat, Godelieve A M, Scheijde-Vermeulen, Marijn A, Wijnen, Marc H W A, Dierselhuis, Miranda P, Straathof, Karin, Behjati, Sam, Wu, Wei, Heck, Albert J R, Koster, Jan, Nierkens, Stefan, Janoueix-Lerosey, Isabelle, de Krijger, Ronald R, Baryawno, Ninib, Chesler, Louis, Anderson, John, Caron, Hubert N, Margaritis, Thanasis, van Noesel, Max M, Molenaar, Jan J, CTI Nierkens, Cancer, Infection & Immunity, CTI Research, Pathologie Pathologen staf, Onderzoek Beeld, Wienke, Judith, Visser, Lindy L, Kholosy, Waleed M, Keller, Kaylee M, Barisa, Marta, Poon, Evon, Munnings-Tomes, Sophie, Himsworth, Courtney, Calton, Elizabeth, Rodriguez, Ana, Bernardi, Ronald, van den Ham, Femke, van Hooff, Sander R, Matser, Yvette A H, Tas, Michelle L, Langenberg, Karin P S, Lijnzaad, Philip, Borst, Anne L, Zappa, Elisa, Bergsma, Francisca J, Strijker, Josephine G M, Verhoeven, Bronte M, Mei, Shenglin, Kramdi, Amira, Restuadi, Restuadi, Sanchez-Bernabeu, Alvaro, Cornel, Annelisa M, Holstege, Frank C P, Gray, Juliet C, Tytgat, Godelieve A M, Scheijde-Vermeulen, Marijn A, Wijnen, Marc H W A, Dierselhuis, Miranda P, Straathof, Karin, Behjati, Sam, Wu, Wei, Heck, Albert J R, Koster, Jan, Nierkens, Stefan, Janoueix-Lerosey, Isabelle, de Krijger, Ronald R, Baryawno, Ninib, Chesler, Louis, Anderson, John, Caron, Hubert N, Margaritis, Thanasis, van Noesel, Max M, and Molenaar, Jan J

Published
2024

6. Reversible transitions between noradrenergic and mesenchymal tumor identities define cell plasticity in neuroblastoma

Author

Thirant, Cécile; https://orcid.org/0000-0003-3873-5240, Peltier, Agathe; https://orcid.org/0000-0003-0017-277X, Durand, Simon; https://orcid.org/0000-0003-1748-7655, Kramdi, Amira, Louis-Brennetot, Caroline; https://orcid.org/0000-0002-4952-3828, Pierre-Eugène, Cécile, Gautier, Margot; https://orcid.org/0000-0003-4028-3466, Costa, Ana; https://orcid.org/0000-0002-0893-3388, Grelier, Amandine, Zaïdi, Sakina; https://orcid.org/0000-0001-9128-0287, Gruel, Nadège, Jimenez, Irène; https://orcid.org/0000-0002-3544-4045, Lapouble, Eve; https://orcid.org/0000-0003-3374-3671, Pierron, Gaëlle; https://orcid.org/0000-0002-2536-7680, Sitbon, Déborah, Brisse, Hervé J; https://orcid.org/0000-0003-2794-5875, Gauthier, Arnaud, Fréneaux, Paul, Grossetête, Sandrine, Baudrin, Laura G, Raynal, Virginie, Baulande, Sylvain, Bellini, Angela, Bhalshankar, Jaydutt, Carcaboso, Angel M; https://orcid.org/0000-0002-8485-426X, Geoerger, Birgit; https://orcid.org/0000-0003-4361-3643, Rohrer, Hermann; https://orcid.org/0000-0001-7023-1355, Surdez, Didier; https://orcid.org/0000-0002-7118-7859, Boeva, Valentina; https://orcid.org/0000-0002-4382-7185, Schleiermacher, Gudrun; https://orcid.org/0000-0002-0133-5879, et al, Thirant, Cécile; https://orcid.org/0000-0003-3873-5240, Peltier, Agathe; https://orcid.org/0000-0003-0017-277X, Durand, Simon; https://orcid.org/0000-0003-1748-7655, Kramdi, Amira, Louis-Brennetot, Caroline; https://orcid.org/0000-0002-4952-3828, Pierre-Eugène, Cécile, Gautier, Margot; https://orcid.org/0000-0003-4028-3466, Costa, Ana; https://orcid.org/0000-0002-0893-3388, Grelier, Amandine, Zaïdi, Sakina; https://orcid.org/0000-0001-9128-0287, Gruel, Nadège, Jimenez, Irène; https://orcid.org/0000-0002-3544-4045, Lapouble, Eve; https://orcid.org/0000-0003-3374-3671, Pierron, Gaëlle; https://orcid.org/0000-0002-2536-7680, Sitbon, Déborah, Brisse, Hervé J; https://orcid.org/0000-0003-2794-5875, Gauthier, Arnaud, Fréneaux, Paul, Grossetête, Sandrine, Baudrin, Laura G, Raynal, Virginie, Baulande, Sylvain, Bellini, Angela, Bhalshankar, Jaydutt, Carcaboso, Angel M; https://orcid.org/0000-0002-8485-426X, Geoerger, Birgit; https://orcid.org/0000-0003-4361-3643, Rohrer, Hermann; https://orcid.org/0000-0001-7023-1355, Surdez, Didier; https://orcid.org/0000-0002-7118-7859, Boeva, Valentina; https://orcid.org/0000-0002-4382-7185, Schleiermacher, Gudrun; https://orcid.org/0000-0002-0133-5879, and et al

Abstract

Noradrenergic and mesenchymal identities have been characterized in neuroblastoma cell lines according to their epigenetic landscapes and core regulatory circuitries. However, their relationship and relative contribution in patient tumors remain poorly defined. We now document spontaneous and reversible plasticity between the two identities, associated with epigenetic reprogramming, in several neuroblastoma models. Interestingly, xenografts with cells from each identity eventually harbor a noradrenergic phenotype suggesting that the microenvironment provides a powerful pressure towards this phenotype. Accordingly, such a noradrenergic cell identity is systematically observed in single-cell RNA-seq of 18 tumor biopsies and 15 PDX models. Yet, a subpopulation of these noradrenergic tumor cells presents with mesenchymal features that are shared with plasticity models, indicating that the plasticity described in these models has relevance in neuroblastoma patients. This work therefore emphasizes that intrinsic plasticity properties of neuroblastoma cells are dependent upon external cues of the environment to drive cell identity.

Published
2023

7. DNA DAMAGE BINDING PROTEIN2 Shapes the DNA Methylation Landscape

Author

Schalk, Catherine, Drevensek, Stéphanie, Kramdi, Amira, Kassam, Mohamed, Ahmed, Ikhlak, Cognat, Valérie, Graindorge, Stéfanie, Bergdoll, Marc, Baumberger, Nicolas, Heintz, Dimitri, Bowler, Chris, Genschik, Pascal, Barneche, Fredy, Colot, Vincent, and Molinier, Jean

Published
2016

8. Single-cell transcriptomics reveals shared immunosuppressive landscapes of mouse and human neuroblastoma

Author

Costa, Ana, primary, Thirant, Cécile, additional, Kramdi, Amira, additional, Pierre-Eugène, Cécile, additional, Louis-Brennetot, Caroline, additional, Blanchard, Orphée, additional, Surdez, Didier, additional, Gruel, Nadege, additional, Lapouble, Eve, additional, Pierron, Gaëlle, additional, Sitbon, Deborah, additional, Brisse, Hervé, additional, Gauthier, Arnaud, additional, Fréneaux, Paul, additional, Bohec, Mylène, additional, Raynal, Virginie, additional, Baulande, Sylvain, additional, Leclere, Renaud, additional, Champenois, Gabriel, additional, Nicolas, Andre, additional, Meseure, Didier, additional, Bellini, Angela, additional, Marabelle, Aurelien, additional, Geoerger, Birgit, additional, Mechta-Grigoriou, Fatima, additional, Schleiermacher, Gudrun, additional, Menger, Laurie, additional, Delattre, Olivier, additional, and Janoueix-Lerosey, Isabelle, additional

Published
2022
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9. BET and CDK inhibition reveal differences in the proliferation control of sympathetic ganglion neuroblasts and adrenal chromaffin cells

Author

Sriha, Jessica, Louis-Brennetot, Caroline, Pierre-Eugène, Cécile, Baulande, Sylvain, Raynal, Virginie, Kramdi, Amira, Adameyko, Igor, Ernsberger, Uwe, Deller, Thomas, Delattre, Olivier, Janoueix-Lerosey, Isabelle, Rohrer, Hermann, Sriha, Jessica, Louis-Brennetot, Caroline, Pierre-Eugène, Cécile, Baulande, Sylvain, Raynal, Virginie, Kramdi, Amira, Adameyko, Igor, Ernsberger, Uwe, Deller, Thomas, Delattre, Olivier, Janoueix-Lerosey, Isabelle, and Rohrer, Hermann

Abstract

Neuroblastoma arising from the adrenal differ from ganglionic neuroblastoma both genetically and clinically, with adrenal tumors being associated with a more severe prognosis. The different tumor properties may be linked to specific tumor founder cells in adrenal and sympathetic ganglia. To address this question, we first set up cultures of mouse sympathetic neuroblasts and adrenal chromaffin cells. These cultures were then treated with various proliferation inhibitors to identify lineage-specific responses. We show that neuroblast and chromaffin cell proliferation was affected by WNT, ALK, IGF1, and PRC2/EZH2 signaling inhibitors to a similar extent. However, differential effects were observed in response to bromodomain and extraterminal (BET) protein inhibitors (JQ1, GSK1324726A) and to the CDK-7 inhibitor THZ1, with BET inhibitors preferentially affecting chromaffin cells, and THZ1 preferentially affecting neuroblasts. The differential dependence of chromaffin cells and neuroblasts on BET and CDK signaling may indicate different mechanisms during tumor initiation in sympathetic ganglia and adrenal.

Published
2022

10. Single-cell transcriptomics reveals shared immunosuppressive landscapes of mouse and human neuroblastoma

Author

Costa, Ana; https://orcid.org/0000-0002-0893-3388, Thirant, Cécile; https://orcid.org/0000-0003-3873-5240, Kramdi, Amira, Pierre-Eugène, Cécile, Louis-Brennetot, Caroline, Blanchard, Orphée, Surdez, Didier, Gruel, Nadege, Lapouble, Eve, Pierron, Gaëlle, Sitbon, Deborah, Brisse, Hervé, Gauthier, Arnaud, Fréneaux, Paul, Bohec, Mylène, Raynal, Virginie, Baulande, Sylvain, Leclere, Renaud, Champenois, Gabriel, Nicolas, Andre, Meseure, Didier, Bellini, Angela, Marabelle, Aurelien; https://orcid.org/0000-0002-5816-3019, Geoerger, Birgit, Mechta-Grigoriou, Fatima, Schleiermacher, Gudrun, Menger, Laurie, Delattre, Olivier, Janoueix-Lerosey, Isabelle; https://orcid.org/0000-0003-0434-3003, Costa, Ana; https://orcid.org/0000-0002-0893-3388, Thirant, Cécile; https://orcid.org/0000-0003-3873-5240, Kramdi, Amira, Pierre-Eugène, Cécile, Louis-Brennetot, Caroline, Blanchard, Orphée, Surdez, Didier, Gruel, Nadege, Lapouble, Eve, Pierron, Gaëlle, Sitbon, Deborah, Brisse, Hervé, Gauthier, Arnaud, Fréneaux, Paul, Bohec, Mylène, Raynal, Virginie, Baulande, Sylvain, Leclere, Renaud, Champenois, Gabriel, Nicolas, Andre, Meseure, Didier, Bellini, Angela, Marabelle, Aurelien; https://orcid.org/0000-0002-5816-3019, Geoerger, Birgit, Mechta-Grigoriou, Fatima, Schleiermacher, Gudrun, Menger, Laurie, Delattre, Olivier, and Janoueix-Lerosey, Isabelle; https://orcid.org/0000-0003-0434-3003

Abstract

BACKGROUND High-risk neuroblastoma is a pediatric cancer with still a dismal prognosis, despite multimodal and intensive therapies. Tumor microenvironment represents a key component of the tumor ecosystem the complexity of which has to be accurately understood to define selective targeting opportunities, including immune-based therapies. METHODS We combined various approaches including single-cell transcriptomics to dissect the tumor microenvironment of both a transgenic mouse neuroblastoma model and a cohort of 10 biopsies from neuroblastoma patients, either at diagnosis or at relapse. Features of related cells were validated by multicolor flow cytometry and functional assays. RESULTS We show that the immune microenvironment of MYCN-driven mouse neuroblastoma is characterized by a low content of T cells, several phenotypes of macrophages and a population of cells expressing signatures of myeloid-derived suppressor cells (MDSCs) that are molecularly distinct from the various macrophage subsets. We document two cancer-associated fibroblasts (CAFs) subsets, one of which corresponding to CAF-S1, known to have immunosuppressive functions. Our data unravel a complex content in myeloid cells in patient tumors and further document a striking correspondence of the microenvironment populations between both mouse and human tumors. We show that mouse intratumor T cells exhibit increased expression of inhibitory receptors at the protein level. Consistently, T cells from patients are characterized by features of exhaustion, expressing inhibitory receptors and showing low expression of effector cytokines. We further functionally demonstrate that MDSCs isolated from mouse neuroblastoma have immunosuppressive properties, impairing the proliferation of T lymphocytes. CONCLUSIONS Our study demonstrates that neuroblastoma tumors have an immunocompromised microenvironment characterized by dysfunctional T cells and accumulation of immunosuppressive cells. Our work provides a new and pre

Published
2022

11. BET and CDK Inhibition Reveal Differences in the Proliferation Control of Sympathetic Ganglion Neuroblasts and Adrenal Chromaffin Cells

Author

Sriha, Jessica, primary, Louis-Brennetot, Caroline, additional, Pierre-Eugène, Cécile, additional, Baulande, Sylvain, additional, Raynal, Virginie, additional, Kramdi, Amira, additional, Adameyko, Igor, additional, Ernsberger, Uwe, additional, Deller, Thomas, additional, Delattre, Olivier, additional, Janoueix-Lerosey, Isabelle, additional, and Rohrer, Hermann, additional

Published
2022
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12. Histone H1 protects telomeric repeats from H3K27me3 invasion in Arabidopsis

Author

Teano, Gianluca, Concia, Lorenzo, Carron, Léopold, Wolff, Léa, Adamusová, Kateřina, Fojtová, Miloslava, Bourge, Michael, Kramdi, Amira, Colot, Vincent, Grossniklaus, Ueli; https://orcid.org/0000-0002-0522-8974, Bowler, Chris, Baroux, Célia; https://orcid.org/0000-0001-6307-2229, Carbone, Alessandra, Probst, Aline V, Procházková Schrumpfová, Petra, Fajkus, Jiří, Amiard, Simon, Grob, Stefan; https://orcid.org/0000-0001-6199-7383, Bourbousse, Clara; https://orcid.org/0000-0001-6464-6124, Barneche, Fredy; https://orcid.org/0000-0002-7014-7097, Teano, Gianluca, Concia, Lorenzo, Carron, Léopold, Wolff, Léa, Adamusová, Kateřina, Fojtová, Miloslava, Bourge, Michael, Kramdi, Amira, Colot, Vincent, Grossniklaus, Ueli; https://orcid.org/0000-0002-0522-8974, Bowler, Chris, Baroux, Célia; https://orcid.org/0000-0001-6307-2229, Carbone, Alessandra, Probst, Aline V, Procházková Schrumpfová, Petra, Fajkus, Jiří, Amiard, Simon, Grob, Stefan; https://orcid.org/0000-0001-6199-7383, Bourbousse, Clara; https://orcid.org/0000-0001-6464-6124, and Barneche, Fredy; https://orcid.org/0000-0002-7014-7097

Abstract

Linker histones play a pivotal role in shaping chromatin architecture, notably through their globular H1 (GH1) domain that contacts the nucleosome and linker DNA. Yet, the interplay of H1 with chromatin factors along the epigenome landscape is poorly understood. Here, we report that Arabidopsis H1 favors chromatin compaction and H3K27me3 marking on a majority of Polycomb-targeted protein-coding genes while preventing H3K27me3 accumulation on telomeres and pericentromeric interstitial telomeric repeats (ITRs). These contrasting effects of H1 on H3K27me3 enrichment are associated with long-distance effects on the 3D organization of telomeres and ITRs. Mechanistically, H1 prevents ITRs from being invaded by Telomere Repeat Binding 1 (TRB1), a GH1-containing telomere component with an extra-telomeric function in targeting Polycomb to genes bearing telomeric motifs. We propose that reciprocal DNA binding of H1 and TRB1 to clustered telobox motifs prevents H3K27me3 accumulation on large chromosomal blocks, conferring a sequence-specific role to H1 in epigenome homeostasis.

Published
2020

13. Interplay between intrinsic reprogramming potential and microenvironment controls neuroblastoma cell plasticity and identity

Author

Thirant, Cécile, primary, Peltier, Agathe, additional, Durand, Simon, additional, Kramdi, Amira, additional, Louis-Brennetot, Caroline, additional, Pierre-Eugène, Cécile, additional, Costa, Ana, additional, Grelier, Amandine, additional, Zaïdi, Sakina, additional, Gruel, Nadège, additional, Jimenez, Irène, additional, Lapouble, Eve, additional, Pierron, Gaëlle, additional, Brisse, Hervé J., additional, Gauthier, Arnaud, additional, Fréneaux, Paul, additional, Grossetête-Lalami, Sandrine, additional, Baudrin, Laura G., additional, Raynal, Virginie, additional, Baulande, Sylvain, additional, Bellini, Angela, additional, Bhalshankar, Jaydutt, additional, Carcaboso, Angel M., additional, Geoerger, Birgit, additional, Rohrer, Hermann, additional, Surdez, Didier, additional, Boeva, Valentina, additional, Schleiermacher, Gudrun, additional, Delattre, Olivier, additional, and Janoueix-Lerosey, Isabelle, additional

Published
2021
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14. Histone H1 protects telomeric repeats from H3K27me3 invasion inArabidopsis

Author

Teano, Gianluca, primary, Concia, Lorenzo, additional, Wolff, Léa, additional, Carron, Léopold, additional, Biocanin, Ivona, additional, Adamusová, Kateřina, additional, Fojtová, Miloslava, additional, Bourge, Michael, additional, Kramdi, Amira, additional, Colot, Vincent, additional, Grossniklaus, Ueli, additional, Bowler, Chris, additional, Baroux, Célia, additional, Carbone, Alessandra, additional, Probst, Aline V., additional, Procházková Schrumpfová, Petra, additional, Fajkus, Jiří, additional, Amiard, Simon, additional, Grob, Stefan, additional, Bourbousse, Clara, additional, and Barneche, Fredy, additional

Published
2020
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15. m5C Methylation Guides Systemic Transport of Messenger RNA over Graft Junctions in Plants

Author

Yang, Lei, primary, Perrera, Valentina, additional, Saplaoura, Eleftheria, additional, Apelt, Federico, additional, Bahin, Mathieu, additional, Kramdi, Amira, additional, Olas, Justyna, additional, Mueller-Roeber, Bernd, additional, Sokolowska, Ewelina, additional, Zhang, Wenna, additional, Li, Runsheng, additional, Pitzalis, Nicolas, additional, Heinlein, Manfred, additional, Zhang, Shoudong, additional, Genovesio, Auguste, additional, Colot, Vincent, additional, and Kragler, Friedrich, additional

Published
2019
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16. DNA methylation dynamics during early plant life

Author

Bouyer, Daniel, Kramdi, Amira, Kassam, Mohamed, Heese, Maren, Schnittger, Arp, Roudier, François, Colot, Vincent, Thiriet, Lydie, Institut de biologie de l'ENS Paris (UMR 8197/1024) (IBENS), Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Département de Biologie - ENS Paris, École normale supérieure - Paris (ENS Paris), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-École normale supérieure - Paris (ENS Paris), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Institut de biologie moléculaire des plantes (IBMP), Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS), Université de Strasbourg (UNISTRA), University of Hamburg, Reproduction et développement des plantes (RDP), Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Recherche Agronomique (INRA)-École normale supérieure - Lyon (ENS Lyon), CNRS, ANR [ANR-10-LABX-54], [ANR-11-IDEX-0001-02], [ANR-12-ADAP-0020-01], [ANR-14-CE19-0008], European Research Council Starting Independent Researcher Grant [210867-2], European Project: 257082,EC:FP7:HEALTH,FP7-HEALTH-2010-two-stage,EPIGENESYS(2010), CNRS Délégation Régionale Paris B (CNRS DR2), Centre National de la Recherche Scientifique (CNRS), Institut de biologie de l'ENS Paris (IBENS), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Département de Biologie - ENS Paris, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-École normale supérieure - Paris (ENS Paris), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM), univOAK, Archive ouverte, Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA), Biozentrum Klein Flottbeck University of Hamburg, Département de Biologie - ENS Paris, École normale supérieure - Paris (ENS-PSL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-École normale supérieure - Paris (ENS-PSL), and Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)

Subjects
DNA methylation, lcsh:QH426-470, Research, DNA methylation, RdDM, transposable elements, embryogenesis, embryo-seedling transition, [SDV.BBM.BM]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, embryo-seedling transition, [SDV.BBM.BM] Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, [SDV.BDLR.RS]Life Sciences [q-bio]/Reproductive Biology/Sexual reproduction, [SDV.GEN.GPL]Life Sciences [q-bio]/Genetics/Plants genetics, lcsh:Genetics, lcsh:Biology (General), Seedlings, Seeds, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, [SDV.BV] Life Sciences [q-bio]/Vegetal Biology, embryogenesis, transposable elements, RdDM, lcsh:QH301-705.5, [SDV.BDD]Life Sciences [q-bio]/Development Biology, Ecosystem, ComputingMilieux_MISCELLANEOUS
Abstract

Funding : European Union Seventh Framework Program Network of Excellence EpiGeneSys [HEALTH-F4-2010-257082]; International audience; Background Cytosine methylation is crucial for gene regulation and silencing of transposable elements in mammals and plants. While this epigenetic mark is extensively reprogrammed in the germline and early embryos of mammals, the extent to which DNA methylation is reset between generations in plants remains largely unknown. Results Using Arabidopsis as a model, we uncovered distinct DNA methylation dynamics over transposable element sequences during the early stages of plant development. Specifically, transposable elements and their relics show invariably high methylation at CG sites but increasing methylation at CHG and CHH sites. This non-CG methylation culminates in mature embryos, where it reaches saturation for a large fraction of methylated CHH sites, compared to the typical 10–20% methylation level observed in seedlings or adult plants. Moreover, the increase in CHH methylation during embryogenesis matches the hypomethylated state in the early endosperm. Finally, we show that interfering with the embryo-to-seedling transition results in the persistence of high CHH methylation levels after germination, specifically over sequences that are targeted by the RNA-directed DNA methylation (RdDM) machinery. Conclusion Our findings indicate the absence of extensive resetting of DNA methylation patterns during early plant life and point instead to an important role of RdDM in reinforcing DNA methylation of transposable element sequences in every cell of the mature embryo. Furthermore, we provide evidence that this elevated RdDM activity is a specific property of embryogenesis.

Published
2017
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18. m 5 C Methylation Guides Systemic Transport of Messenger RNA over Graft Junctions in Plants.

Author

Yang L, Perrera V, Saplaoura E, Apelt F, Bahin M, Kramdi A, Olas J, Mueller-Roeber B, Sokolowska E, Zhang W, Li R, Pitzalis N, Heinlein M, Zhang S, Genovesio A, Colot V, and Kragler F

Subjects
Arabidopsis genetics, Arabidopsis Proteins metabolism, Biological Transport, HSP70 Heat-Shock Proteins metabolism, Methylation, Microtubule-Associated Proteins metabolism, 5-Methylcytosine metabolism, Arabidopsis metabolism, Arabidopsis Proteins genetics, HSP70 Heat-Shock Proteins genetics, Microtubule-Associated Proteins genetics, RNA, Messenger metabolism, RNA, Plant metabolism
Abstract

In plants, transcripts move to distant body parts to potentially act as systemic signals regulating development and growth. Thousands of messenger RNAs (mRNAs) are transported across graft junctions via the phloem to distinct plant parts. Little is known regarding features, structural motifs, and potential base modifications of transported transcripts and how these may affect their mobility. We identified Arabidopsis thaliana mRNAs harboring the modified base 5-methylcytosine (m 5 C) and found that these are significantly enriched in mRNAs previously described as mobile, moving over graft junctions to distinct plant parts. We confirm this finding with graft-mobile methylated mRNAs TRANSLATIONALLY CONTROLLED TUMOR PROTEIN 1 (TCTP1) and HEAT SHOCK COGNATE PROTEIN 70.1 (HSC70.1), whose mRNA transport is diminished in mutants deficient in m 5 C mRNA methylation. Together, our results point toward an essential role of cytosine methylation in systemic mRNA mobility in plants and that TCTP1 mRNA mobility is required for its signaling function., (Copyright © 2019 The Author(s). Published by Elsevier Ltd.. All rights reserved.)

Published
2019
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