Literature DB >> 29043635

Detection of DNA-RNA Hybrids In Vivo.

María García-Rubio1, Sonia I Barroso1, Andrés Aguilera2.   

Abstract

DNA-RNA hybrids form naturally during essential cellular functions such as transcription and replication. However, they may be an important source of genome instability, a hallmark of cancer and genetic diseases. Detection of DNA-RNA hybrids in cells is becoming crucial to understand an increasing number of molecular biology processes in genome dynamics and function and to identify new factors and mechanisms responsible for disease in biomedical research. Here, we describe two different procedures for the reliable detection of DNA-RNA hybrids in the yeast Saccharomyces cerevisiae and in human cells: DNA-RNA Immunoprecipitation (DRIP) and Immunofluorescence.

Entities:  

Keywords:  DNA-RNA hybrids; Genome instability; R loop; S9.6 antibody

Mesh:

Substances:

Year:  2018        PMID: 29043635     DOI: 10.1007/978-1-4939-7306-4_24

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  14 in total

1.  The DNA damage response acts as a safeguard against harmful DNA-RNA hybrids of different origins.

Authors:  Sonia Barroso; Emilia Herrera-Moyano; Sergio Muñoz; María García-Rubio; Belén Gómez-González; Andrés Aguilera
Journal:  EMBO Rep       Date:  2019-07-24       Impact factor: 8.807

2.  Mutual Balance of Histone Deacetylases 1 and 2 and the Acetyl Reader ATAD2 Regulates the Level of Acetylation of Histone H4 on Nascent Chromatin of Human Cells.

Authors:  Pavlo Lazarchuk; John Hernandez-Villanueva; Maria N Pavlova; Alexander Federation; Michael MacCoss; Julia M Sidorova
Journal:  Mol Cell Biol       Date:  2020-04-13       Impact factor: 4.272

Review 3.  Non-canonical DNA/RNA structures during Transcription-Coupled Double-Strand Break Repair: Roadblocks or Bona fide repair intermediates?

Authors:  Nadine Puget; Kyle M Miller; Gaëlle Legube
Journal:  DNA Repair (Amst)       Date:  2019-07-08

4.  Detection of R-Loops by In Vivo and In Vitro Cytosine Deamination in Saccharomyces cerevisiae.

Authors:  Juan C Cañas; Andrés Aguilera; Belén Gómez-González
Journal:  Methods Mol Biol       Date:  2022

5.  WASp modulates RPA function on single-stranded DNA in response to replication stress and DNA damage.

Authors:  Seong-Su Han; Kuo-Kuang Wen; María L García-Rubio; Marc S Wold; Andrés Aguilera; Wojciech Niedzwiedz; Yatin M Vyas
Journal:  Nat Commun       Date:  2022-06-29       Impact factor: 17.694

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

Authors:  María García-Rubio; Paula Aguilera; Juan Lafuente-Barquero; José F Ruiz; Marie-Noelle Simon; Vincent Geli; Ana G Rondón; Andrés Aguilera
Journal:  Genes Dev       Date:  2018-06-28       Impact factor: 11.361

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

Authors:  Carmen Pérez-Calero; Aleix Bayona-Feliu; Xiaoyu Xue; Sonia I Barroso; Sergio Muñoz; Víctor M González-Basallote; Patrick Sung; Andrés Aguilera
Journal:  Genes Dev       Date:  2020-05-21       Impact factor: 11.361

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

Authors:  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 Foiani
Journal:  Nat Commun       Date:  2021-06-24       Impact factor: 14.919

9.  ELOF1 is a transcription-coupled DNA repair factor that directs RNA polymerase II ubiquitylation.

Authors:  Yana van der Weegen; Klaas de Lint; Diana van den Heuvel; Yuka Nakazawa; Tycho E T Mevissen; Janne J M van Schie; Marta San Martin Alonso; Daphne E C Boer; Román González-Prieto; Ishwarya V Narayanan; Noud H M Klaassen; Annelotte P Wondergem; Khashayar Roohollahi; Josephine C Dorsman; Yuichiro Hara; Alfred C O Vertegaal; Job de Lange; Johannes C Walter; Sylvie M Noordermeer; Mats Ljungman; Tomoo Ogi; Rob M F Wolthuis; Martijn S Luijsterburg
Journal:  Nat Cell Biol       Date:  2021-06-09       Impact factor: 28.213

10.  Genome-wide mapping reveals conserved and diverged R-loop activities in the unusual genetic landscape of the African trypanosome genome.

Authors:  Emma Briggs; Graham Hamilton; Kathryn Crouch; Craig Lapsley; Richard McCulloch
Journal:  Nucleic Acids Res       Date:  2018-12-14       Impact factor: 16.971

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