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R-loops as a major modulator of transcription-associated recombination and chromatin dynamics

Publikacje

A new interaction between BRCA2 and DDX5 promotes the repair of DNA breaks at transcribed chromatin

Autorzy: Belen Gómez-González, Gaetana Sessa, Aura Carreira, Andrés Aguilera
Opublikowane w: Molecular & Cellular Oncology, Numer 8/3, 2021, Strona(/y) 1910474, ISSN 2372-3556
Wydawca: Taylor & Francis
DOI: 10.1080/23723556.2021.1910474

BRCA2 promotes DNA‐RNA hybrid resolution by DDX5 helicase at DNA breaks to facilitate their repair‡

Autorzy: Gaetana Sessa, Belén Gómez‐González, Sonia Silva, Carmen Pérez‐Calero, Romane Beaurepere, Sonia Barroso, Sylvain Martineau, Charlotte Martin, Åsa Ehlén, Juan S Martínez, Bérangère Lombard, Damarys Loew, Stephan Vagner, Andrés Aguilera, Aura Carreira
Opublikowane w: The EMBO Journal, Numer 40/7, 2021, Strona(/y) e106018, ISSN 0261-4189
Wydawca: Nature Publishing Group
DOI: 10.15252/embj.2020106018

The SWI/SNF chromatin remodeling complex helps resolve R-loop-mediated transcription–replication conflicts

Autorzy: Aleix Bayona-Feliu, Sonia Barroso, Sergio Muñoz, Andrés Aguilera
Opublikowane w: Nature Genetics, Numer 53(7), 2021, Strona(/y) 1050-1063, ISSN 1061-4036
Wydawca: Nature Publishing Group
DOI: 10.1038/s41588-021-00867-2

The SWI/SNF complex, transcription-replication conflicts and cancer: a connection with high therapeutic potential

Autorzy: Aleix Bayona-Feliu, Andrés Aguilera
Opublikowane w: Molecular & Cellular Oncology, Numer 8/4, 2021, Strona(/y) 1976582, ISSN 2372-3556
Wydawca: Taylor & Francis Ltd
DOI: 10.1080/23723556.2021.1976582

Harmful R-loops are prevented via different cell cycle-specific mechanisms

Autorzy: Marta San Martin-Alonso, María E. Soler-Oliva, María García-Rubio, Tatiana García-Muse, Andrés Aguilera
Opublikowane w: Nature Communications, Numer 12/1, 2021, Strona(/y) 4451, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/s41467-021-24737-x

The role of chromatin at transcription-replication conflicts as a genome safeguard

Autorzy: Aleix Bayona-Feliu, Andrés Aguilera
Opublikowane w: Biochemical Society Transactions, 2021, ISSN 0300-5127
Wydawca: Portland Press, Ltd.
DOI: 10.1042/bst20210691

Histone H3E73Q and H4E53A mutations cause recombinogenic DNA damage

Autorzy: Pedro Ortega, Desiré García-Pichardo, Marta San Martin-Alonso, Ana G. Rondón, Belén Gómez-González, Andrés Aguilera
Opublikowane w: Microbial Cell, Numer 7/7, 2020, Strona(/y) 190-198, ISSN 2311-2638
Wydawca: Shared Science Publishers
DOI: 10.15698/mic2020.07.723

ADAR-mediated RNA editing of DNA:RNA hybrids is required for DNA double strand break repair

Autorzy: Sonia Jimeno, Rosario Prados-Carvajal, María Jesús Fernández-Ávila, Sonia Silva, Domenico Alessandro Silvestris, Martín Endara-Coll, Guillermo Rodríguez-Real, Judit Domingo-Prim, Fernando Mejías-Navarro, Amador Romero-Franco, Silvia Jimeno-González, Sonia Barroso, Valeriana Cesarini, Andrés Aguilera, Angela Gallo, Neus Visa, Pablo Huertas
Opublikowane w: Nature Communications, Numer 12/1, 2021, Strona(/y) 5512, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/s41467-021-25790-2

Physical proximity of chromatin to nuclear pores prevents harmful R loop accumulation contributing to maintain genome stability

Autorzy: Francisco García-Benítez, Hélène Gaillard, Andrés Aguilera
Opublikowane w: Proceedings of the National Academy of Sciences, Numer 114/41, 2017, Strona(/y) 10942-10947, ISSN 0027-8424
Wydawca: National Academy of Sciences
DOI: 10.1073/pnas.1707845114

Human THO–Sin3A interaction reveals new mechanisms to prevent R‐loops that cause genome instability

Autorzy: Irene Salas‐Armenteros, Carmen Pérez‐Calero, Aleix Bayona‐Feliu, Emanuela Tumini, Rosa Luna, Andrés Aguilera
Opublikowane w: The EMBO Journal, Numer 36/23, 2017, Strona(/y) 3532-3547, ISSN 0261-4189
Wydawca: Nature Publishing Group
DOI: 10.15252/embj.201797208

The Role of Replication-Associated Repair Factors on R-Loops

Autorzy: Vaibhav Bhatia, Emilia Herrera-Moyano, Andres Aguilera, Belen Gomez-Gonzalez
Opublikowane w: Genes, Numer 8/7, 2017, Strona(/y) 171, ISSN 2073-4425
Wydawca: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/genes8070171

Multiple signaling kinases target Mrc1 to prevent genomic instability triggered by transcription-replication conflicts

Autorzy: Alba Duch, Berta Canal, Sonia I. Barroso, María García-Rubio, Gerhard Seisenbacher, Andrés Aguilera, Eulàlia de Nadal, Francesc Posas
Opublikowane w: Nature Communications, Numer 9/1, 2018, Strona(/y) 379, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/s41467-017-02756-x

Gene gating at nuclear pores prevents the formation of R loops

Autorzy: Hélène Gaillard, Francisco García-Benítez, Andrés Aguilera
Opublikowane w: Molecular & Cellular Oncology, Numer 5/1, 2017, Strona(/y) e1405140, ISSN 2372-3556
Wydawca: Taylor & Francis
DOI: 10.1080/23723556.2017.1405140

Epigenetic features of human telomeres

Autorzy: María D Cubiles, Sonia Barroso, María I Vaquero-Sedas, Alicia Enguix, Andrés Aguilera, Miguel A Vega-Palas
Opublikowane w: Nucleic Acids Research, Numer 46/5, 2018, Strona(/y) 2347-2355, ISSN 0305-1048
Wydawca: Oxford University Press
DOI: 10.1093/nar/gky006

The Smc5/6 complex regulates the yeast Mph1 helicase at RNA-DNA hybrid-mediated DNA damage

Autorzy: Juan Lafuente-Barquero, Sarah Luke-Glaser, Marco Graf, Sonia Silva, Belén Gómez-González, Arianna Lockhart, Michael Lisby, Andrés Aguilera, Brian Luke
Opublikowane w: PLOS Genetics, Numer 13/12, 2017, Strona(/y) e1007136, ISSN 1553-7404
Wydawca: San Francisco, CA : Public Library of Science, c2005-
DOI: 10.1371/journal.pgen.1007136

The need to regulate replication fork speed

Autorzy: Belén Gómez-González, Andrés Aguilera
Opublikowane w: Science, Numer 358/6364, 2017, Strona(/y) 722-723, ISSN 0036-8075
Wydawca: American Association for the Advancement of Science
DOI: 10.1126/science.aaq0678

Yra1-bound RNA–DNA hybrids cause orientation-independent transcription–replication collisions and telomere instability

Autorzy: María García-Rubio, Paula Aguilera, Juan Lafuente-Barquero, José F. Ruiz, Marie-Noelle Simon, Vincent Geli, Ana G. Rondón, Andrés Aguilera
Opublikowane w: Genes & Development, Numer 32/13-14, 2018, Strona(/y) 965-977, ISSN 0890-9369
Wydawca: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gad.311274.117

Human mitochondrial degradosome prevents harmful mitochondrial R loops and mitochondrial genome instability

Autorzy: Sonia Silva, Lola P. Camino, Andrés Aguilera
Opublikowane w: Proceedings of the National Academy of Sciences, Numer 115/43, 2018, Strona(/y) 11024-11029, ISSN 0027-8424
Wydawca: National Academy of Sciences
DOI: 10.1073/pnas.1807258115

The Antitumor Drugs Trabectedin and Lurbinectedin Induce Transcription-Dependent Replication Stress and Genome Instability

Autorzy: Emanuela Tumini, Emilia Herrera-Moyano, Marta San Martín-Alonso, Sonia Barroso, Carlos M. Galmarini, Andrés Aguilera
Opublikowane w: Molecular Cancer Research, Numer 17/3, 2019, Strona(/y) 773-782, ISSN 1541-7786
Wydawca: American Association for Cancer Research
DOI: 10.1158/1541-7786.mcr-18-0575

A Meiotic Checkpoint Alters Repair Partner Bias to Permit Inter-sister Repair of Persistent DSBs

Autorzy: Tatiana Garcia-Muse, U. Galindo-Diaz, M. Garcia-Rubio, J.S. Martin, J. Polanowska, N. O’Reilly, A. Aguilera, Simon J. Boulton
Opublikowane w: Cell Reports, Numer 26/3, 2019, Strona(/y) 775-787.e5, ISSN 2211-1247
Wydawca: Cell Press
DOI: 10.1016/j.celrep.2018.12.074

Guidelines for DNA recombination and repair studies: Cellular assays of DNA repair pathways

Autorzy: Hannah L. Klein, Giedrė Bačinskaja, Jun Che, Anais Cheblal, Rajula Elango, Anastasiya Epshtein, Devon M. Fitzgerald, Belén Gómez-González, Sharik R. Khan, Sandeep Kumar, Bryan A. Leland, Léa Marie, Qian Mei, Judith Miné-Hattab, Alicja Piotrowska, Erica J. Polleys, Christopher D. Putnam, Elina A. Radchenko, Anissia Ait Saada, Cynthia J. Sakofsky, Eun Yong Shim, Mathew Stracy, Jun Xia, Zhenxi
Opublikowane w: Microbial Cell, Numer 6/1, 2019, Strona(/y) 1-64, ISSN 2311-2638
Wydawca: Shared Science Publishers OG
DOI: 10.15698/mic2019.01.664

The Nup84 complex coordinates the DNA damage response to warrant genome integrity

Autorzy: Hélène Gaillard, José M Santos-Pereira, Andrés Aguilera
Opublikowane w: Nucleic Acids Research, Numer 47/8, 2019, Strona(/y) 4054-4067, ISSN 0305-1048
Wydawca: Oxford University Press
DOI: 10.1093/nar/gkz066

The DNA damage response acts as a safeguard against harmful DNA–RNA hybrids of different origins

Autorzy: Sonia Barroso, Emilia Herrera‐Moyano, Sergio Muñoz, María García‐Rubio, Belén Gómez‐González, Andrés Aguilera
Opublikowane w: EMBO reports, Numer 20/9, 2019, Strona(/y) e47250, ISSN 1469-221X
Wydawca: Nature Publishing Group
DOI: 10.15252/embr.201847250

What causes an RNA-DNA hybrid to compromise genome integrity?

Autorzy: Ana G. Rondón, Andrés Aguilera
Opublikowane w: DNA Repair, Numer 81, 2019, Strona(/y) 102660, ISSN 1568-7864
Wydawca: Elsevier BV
DOI: 10.1016/j.dnarep.2019.102660

Transcription-mediated replication hindrance: a major driver of genome instability

Autorzy: Belén Gómez-González, Andrés Aguilera
Opublikowane w: Genes & Development, Numer 33/15-16, 2019, Strona(/y) 1008-1026, ISSN 0890-9369
Wydawca: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gad.324517.119

Depletion of the MFAP1/SPP381 Splicing Factor Causes R-Loop-Independent Genome Instability

Autorzy: Irene Salas-Armenteros, Sonia I. Barroso, Ana G. Rondón, Mónica Pérez, Eloisa Andújar, Rosa Luna, Andrés Aguilera
Opublikowane w: Cell Reports, Numer 28/6, 2019, Strona(/y) 1551-1563.e7, ISSN 2211-1247
Wydawca: Cell Press
DOI: 10.1016/j.celrep.2019.07.010

Elongation Factor TFIIS Prevents Transcription Stress and R-Loop Accumulation to Maintain Genome Stability

Autorzy: Diana Zatreanu, Zhong Han, Richard Mitter, Emanuela Tumini, Hannah Williams, Lea Gregersen, A. Barbara Dirac-Svejstrup, Stefania Roma, Aengus Stewart, Andres Aguilera, Jesper Q. Svejstrup
Opublikowane w: Molecular Cell, Numer 76/1, 2019, Strona(/y) 57-69.e9, ISSN 1097-2765
Wydawca: Cell Press
DOI: 10.1016/j.molcel.2019.07.037

R Loops: From Physiological to Pathological Roles

Autorzy: Tatiana García-Muse, Andrés Aguilera
Opublikowane w: Cell, Numer 179/3, 2019, Strona(/y) 604-618, ISSN 0092-8674
Wydawca: Cell Press
DOI: 10.1016/j.cell.2019.08.055

Rpd3L and Hda1 histone deacetylases facilitate repair of broken forks by promoting sister chromatid cohesion

Autorzy: Pedro Ortega, Belén Gómez-González, Andrés Aguilera
Opublikowane w: Nature Communications, Numer 10/1, 2019, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/s41467-019-13210-5

Histone deacetylases facilitate the accurate repair of broken forks

Autorzy: Belén Gómez-González, Pedro Ortega, Andrés Aguilera
Opublikowane w: Molecular & Cellular Oncology, Numer 7/2, 2020, Strona(/y) 1705731, ISSN 2372-3556
Wydawca: Taylor and Francis Ltd
DOI: 10.1080/23723556.2019.1705731

Spontaneous DNA-RNA hybrids: differential impacts throughout the cell cycle

Autorzy: Belén Gómez-González, Sonia Barroso, Emilia Herrera-Moyano, Andrés Aguilera
Opublikowane w: Cell Cycle, Numer 19/5, 2020, Strona(/y) 525-531, ISSN 1538-4101
Wydawca: Landes Bioscience
DOI: 10.1080/15384101.2020.1728015

UAP56/DDX39B is a major cotranscriptional RNA–DNA helicase that unwinds harmful R loops genome-wide

Autorzy: Carmen Pérez-Calero, Aleix Bayona-Feliu, Xiaoyu Xue, Sonia I. Barroso, Sergio Muñoz, Víctor M. González-Basallote, Patrick Sung, Andrés Aguilera
Opublikowane w: Genes & Development, 2020, ISSN 0890-9369
Wydawca: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gad.336024.119

The THO Complex as a Paradigm for the Prevention of Cotranscriptional R-Loops

Autorzy: Rosa Luna, Ana G. Rondón, Carmen Pérez-Calero, Irene Salas-Armenteros, Andrés Aguilera
Opublikowane w: Cold Spring Harbor Symposia on Quantitative Biology, 2020, Strona(/y) 039594, ISSN 0091-7451
Wydawca: Cold Spring Harbor Laboratory Press
DOI: 10.1101/sqb.2019.84.039594

Histone Mutants Separate R Loop Formation from Genome Instability Induction

Autorzy: Desiré García-Pichardo, Juan C. Cañas, María L. García-Rubio, Belén Gómez-González, Ana G. Rondón, Andrés Aguilera
Opublikowane w: Molecular Cell, Numer 66/5, 2017, Strona(/y) 597-609.e5, ISSN 1097-2765
Wydawca: Cell Press
DOI: 10.1016/j.molcel.2017.05.014

Roles of human POLD1 and POLD3 in genome stability

Autorzy: Emanuela Tumini, Sonia Barroso, Carmen Pérez -Calero, Andrés Aguilera
Opublikowane w: Scientific Reports, Numer 6/1, 2016, ISSN 2045-2322
Wydawca: Nature Publishing Group
DOI: 10.1038/srep38873

FANCD2 Facilitates Replication through Common Fragile Sites

Autorzy: Advaitha Madireddy, Settapong T. Kosiyatrakul, Rebecca A. Boisvert, Emilia Herrera-Moyano, María L. García-Rubio, Jeannine Gerhardt, Elizabeth A. Vuono, Nichole Owen, Zi Yan, Susan Olson, Andrés Aguilera, Niall G. Howlett, Carl L. Schildkraut
Opublikowane w: Molecular Cell, Numer 64/2, 2016, Strona(/y) 388-404, ISSN 1097-2765
Wydawca: Cell Press
DOI: 10.1016/j.molcel.2016.09.017

A new role for Rrm3 in repair of replication-born DNA breakage by sister chromatid recombination

Autorzy: Sandra Muñoz-Galván, María García-Rubio, Pedro Ortega, Jose F. Ruiz, Sonia Jimeno, Benjamin Pardo, Belén Gómez-González, Andrés Aguilera
Opublikowane w: PLOS Genetics, Numer 13/5, 2017, Strona(/y) e1006781, ISSN 1553-7390
Wydawca: Public Library of Science
DOI: 10.1371/journal.pgen.1006781

Transcription as a Threat to Genome Integrity

Autorzy: Hélène Gaillard, Andrés Aguilera
Opublikowane w: Annual Review of Biochemistry, Numer 85/1, 2016, Strona(/y) 291-317, ISSN 0066-4154
Wydawca: Annual Reviews, Inc.
DOI: 10.1146/annurev-biochem-060815-014908

Transcription–replication conflicts: how they occur and how they are resolved

Autorzy: Tatiana García-Muse, Andrés Aguilera
Opublikowane w: Nature Reviews Molecular Cell Biology, Numer 17/9, 2016, Strona(/y) 553-563, ISSN 1471-0072
Wydawca: Nature Publishing Group
DOI: 10.1038/nrm.2016.88

DNA–RNA hybrids: the risks of DNA breakage during transcription

Autorzy: Andrés Aguilera, Belén Gómez-González
Opublikowane w: Nature Structural & Molecular Biology, Numer 24/5, 2017, Strona(/y) 439-443, ISSN 1545-9993
Wydawca: Nature Publishing Group
DOI: 10.1038/nsmb.3395

A transcription-based mechanism for oncogenic β-catenin-induced lethality in BRCA1/2-deficient cells

Autorzy: Rebecca A. Dagg, Gijs Zonderland, Emilia Puig Lombardi, Giacomo G. Rossetti, Florian J. Groelly, Sonia Barroso, Eliana M. C. Tacconi, Benjamin Wright, Helen Lockstone, Andrés Aguilera, Thanos D. Halazonetis, Madalena Tarsounas
Opublikowane w: Nature Communications, Numer 12/1, 2021, Strona(/y) 4919, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/s41467-021-25215-0

C. elegans THSC/TREX-2 deficiency causes replication stress and genome instability

Autorzy: Angelina Zheleva, Lola P Camino, Nuria Fernández-Fernández, María García-Rubio, Peter Askjaer, Tatiana García-Muse, Andrés Aguilera
Opublikowane w: Journal of Cell Science, 2021, ISSN 0021-9533
Wydawca: The Company of Biologists Ltd.
DOI: 10.1242/jcs.258435

The human nucleoporin Tpr protects cells from RNA-mediated replication stress

Autorzy: Martin Kosar, Michele Giannattasio, Daniele Piccini, Apolinar Maya-Mendoza, Francisco García-Benítez, Jirina Bartkova, Sonia I. Barroso, Hélène Gaillard, Emanuele Martini, Umberto Restuccia, Miguel Angel Ramirez-Otero, Massimiliano Garre, Eleonora Verga, Miguel Andújar-Sánchez, Scott Maynard, Zdenek Hodny, Vincenzo Costanzo, Amit Kumar, Angela Bachi, Andrés Aguilera, Jiri Bartek, Marco Foia
Opublikowane w: Nature Communications, Numer 12/1, 2021, Strona(/y) 3937, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/s41467-021-24224-3

R-Loop–Mediated ssDNA Breaks Accumulate Following Short-Term Exposure to the HDAC Inhibitor Romidepsin

Autorzy: Maryam Safari, Thomas Litman, Robert W. Robey, Andrés Aguilera, Arup R. Chakraborty, William C. Reinhold, Agnes Basseville, Lubov Petrukhin, Luigi Scotto, Owen A. O'Connor, Yves Pommier, Antonio T. Fojo, Susan E. Bates
Opublikowane w: Molecular Cancer Research, Numer 19/8, 2021, Strona(/y) 1361-1374, ISSN 1541-7786
Wydawca: American Association for Cancer Research
DOI: 10.1158/1541-7786.mcr-20-0833

DNA-RNA hybrids at DSBs interfere with repair by homologous recombination

Autorzy: Pedro Ortega, Jose Antonio Mérida-Cerro, Ana G Rondón, Belén Gómez-González, Andrés Aguilera
Opublikowane w: eLife, Numer 10, 2021, ISSN 2050-084X
Wydawca: eLife Sciences Publications
DOI: 10.7554/elife.69881

Heterogeneity of DNA damage incidence and repair in different chromatin contexts

Autorzy: Pedro Ortega, Belén Gómez-González, Andrés Aguilera
Opublikowane w: DNA Repair, Numer 107, 2021, Strona(/y) 103210, ISSN 1568-7864
Wydawca: Elsevier BV
DOI: 10.1016/j.dnarep.2021.103210

TDP-43 mutations link Amyotrophic Lateral Sclerosis with R-loop homeostasis and R loop-mediated DNA damage

Autorzy: Marta Giannini, Aleix Bayona-Feliu, Daisy Sproviero, Sonia I. Barroso, Cristina Cereda, Andrés Aguilera
Opublikowane w: PLOS Genetics, Numer 16/12, 2020, Strona(/y) e1009260, ISSN 1553-7404
Wydawca: Public Library of Science
DOI: 10.1371/journal.pgen.1009260

Detection of DNA-RNA Hybrids In Vivo

Autorzy: María García-Rubio, Sonia I. Barroso, Andrés Aguilera
Opublikowane w: Methods in Molecular Biology, 2018, Strona(/y) 347-361, ISBN 978-1-4939-7305-7
Wydawca: Springer New York
DOI: 10.1007/978-1-4939-7306-4_24

The Sister-Chromatid Exchange Assay in Human Cells

Autorzy: Emanuela Tumini, Andrés Aguilera
Opublikowane w: Homologous Recombination - Methods and Protocols, Numer 2153, 2021, Strona(/y) 383-393, ISBN 978-1-0716-0643-8
Wydawca: Springer US
DOI: 10.1007/978-1-0716-0644-5_26

Analysis of repair of replication-born double-strand breaks by sister chromatid recombination in yeast

Autorzy: Belén Gómez-González, Pedro Ortega, Andrés Aguilera
Opublikowane w: The DNA Replication-Repair Interface, Numer 661, 2021, Strona(/y) 121-138, ISBN 9780323907330
Wydawca: Elsevier
DOI: 10.1016/bs.mie.2021.08.010

Detection of DNA Double-Strand Breaks by γ-H2AX Immunodetection

Autorzy: Sonia I. Barroso, Andrés Aguilera
Opublikowane w: Homologous Recombination - Methods and Protocols, Numer 2153, 2021, Strona(/y) 1-8, ISBN 978-1-0716-0643-8
Wydawca: Springer US
DOI: 10.1007/978-1-0716-0644-5_1

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