Redmond Smyth

Publications

Article dans une revue (43)

Demultiplexing and barcode-specific adaptive sampling for nanopore direct RNA sequencing Wiep van der Toorn,Patrick Bohn,Wang Liu-Wei,Marco Olguin-Nava,Anne-Sophie Gribling-Burreret al. Nature Communications, 2025, 16 (1), pp.3742. ⟨10.1038/s41467-025-59102-9⟩ Article dans une revue hal-05221440v1
Cell type–specific purifying selection of synonymous mitochondrial DNA variation Caleb A Lareau,Patrick Maschmeyer,Yajie Yin,Jacob C Gutierrez,Ryan S Dhindsaet al. Proceedings of the National Academy of Sciences of the United States of America, 2025, 122 (30), ⟨10.1073/pnas.2505704122⟩ Article dans une revue hal-05362388v1
The translational landscape of HIV-1 infected cells reveals key gene regulatory principles Anuja Kibe,Stefan Buck,Anne-Sophie Gribling-Burrer,Orian Gilmer,Patrick Bohnet al. Nature Structural and Molecular Biology, 2025, 32 (5), pp.841-852. ⟨10.1038/s41594-024-01468-3⟩ Article dans une revue hal-05362403v1
Giant RNA genomes: Roles of host, translation elongation, genome architecture, and proteome in nidoviruses Benjamin W Neuman,Alexandria Smart,Orian Gilmer,Redmond Smyth,Josef Vaaset al. Proceedings of the National Academy of Sciences of the United States of America, 2025, 122 (7), ⟨10.1073/pnas.2413675122⟩ Article dans une revue hal-05362414v1
Selectively expressed RNA molecules as a versatile tool for functionalized cell targeting Frederik Rastfeld,Marco Hoffmann,Sylvie Krüger,Patrick Bohn,Anne-Sophie Gribling-Burreret al. Nature Communications, 2025, 16 (1), pp.420. ⟨10.1038/s41467-024-55547-6⟩ Article dans une revue hal-05362432v1
High-Fidelity and Cost-Effective Engineering of SARS-CoV-2 Marco Olguin-Nava,Thomas Hennig,Charlene Börtlein,Patrick Bohn,Uddhav B Ambiet al. Viruses, 2025, 17 (12), pp.1604. ⟨10.3390/v17121604⟩ Article dans une revue hal-05460249v1
Visualizing the transcription and replication of influenza A viral RNAs in cells by multiple direct RNA padlock probing and &lt;i&gt;in situ&lt;/i&gt; sequencing (mudRapp-seq) Shazeb Ahmad,Jianhui Li,Joél Schaust,Anne-Sophie Gribling-Burrer,Nina Geigeret al. Nucleic Acids Research, 2025, 53 (11), ⟨10.1093/nar/gkaf461⟩ Article dans une revue hal-05224563v1
Isoform-specific RNA structure determination using Nano-DMS-MaP Anne-Sophie Gribling-Burrer,Patrick Bohn,Redmond Smyth Nature Protocols, 2024, 19 (6), pp.1835-1865. ⟨10.1038/s41596-024-00959-3⟩ Article dans une revue hal-05362521v1
Sequencing accuracy and systematic errors of nanopore direct RNA sequencing Wang Liu-Wei,Wiep van der Toorn,Patrick Bohn,Martin Hölzer,Redmond Smythet al. BMC Genomics, 2024, 25 (1), pp.528. ⟨10.1186/s12864-024-10440-w⟩ Article dans une revue hal-05363230v1
NEAT1 promotes genome stability via m&lt;sup&gt;6&lt;/sup&gt;A methylation-dependent regulation of CHD4 Victoria Mamontova,Barbara Trifault,Anne-Sophie Gribling-Burrer,Patrick Bohn,Lea Botenet al. Genes and Development, 2024, 38, pp.915-930. ⟨10.1101/gad.351913.124⟩ Article dans une revue hal-05362438v1
The conserved noncoding RNA ModT coordinates growth and virulence in Clostridioides difficile Tina Lenče,Johannes Sulzer,Kilian Andress,Anne-Sophie Gribling-Burrer,Vanessa Lamm-Schmidtet al. PLoS Biology, 2024, 22 (12), pp.e3002948. ⟨10.1371/journal.pbio.3002948⟩ Article dans une revue hal-05362436v1
Recruitment of multi-segment genomic RNAs by Bluetongue virus requires a preformed RNA network Po-Yu Sung,Jody E Phelan,Dongsheng Luo,Raghavendran Kulasegaran-Shylini,Patrick Bohnet al. Nucleic Acids Research, 2024, 52 (14), pp.8500-8514. ⟨10.1093/nar/gkae404⟩ Article dans une revue hal-05362448v1
Nano-DMS-MaP allows isoform-specific RNA structure determination Patrick Bohn,Anne-Sophie Gribling-Burrer,Uddhav Ambi,Redmond Smyth Nature Methods, 2023, 20 (6), pp.849-859. ⟨10.1038/s41592-023-01862-7⟩ Article dans une revue hal-05362507v1
Cis -mediated interactions of the SARS-CoV-2 frameshift RNA alter its conformations and affect function Lukas Pekarek,Matthias Zimmer,Anne-Sophie Gribling-Burrer,Stefan Buck,Redmond Smythet al. Nucleic Acids Research, 2023, 51 (2), pp.728-743. ⟨10.1093/nar/gkac1184⟩ Article dans une revue hal-05362501v1
Advanced fluorescence microscopy in respiratory virus cell biology Enyu Xie,Shazeb Ahmad,Redmond P Smyth,Christian Sieben Advances in Virus Research, 2023, Advances in Virus Research, 116, pp.123-172. ⟨10.1016/bs.aivir.2023.05.002⟩ Article dans une revue hal-05362701v1
Sequential disruption of SPLASH-identified vRNA–vRNA interactions challenges their role in influenza A virus genome packaging Celia Jakob,Gabriel L Lovate,Daniel Desirò,Lara Gießler,Redmond P Smythet al. Nucleic Acids Research, In press, ⟨10.1093/nar/gkad442⟩ Article dans une revue hal-04110802v1
SND1 binds SARS-CoV-2 negative-sense RNA and promotes viral RNA synthesis through NSP9 Nora Schmidt,Sabina Ganskih,Yuanjie Wei,Alexander Gabel,Sebastian Zielinskiet al. Cell, 2023, 186 (22), pp.4834-4850.e23. ⟨10.1016/j.cell.2023.09.002⟩ Article dans une revue hal-05362516v1
Short- and long-range interactions in the HIV-1 5′ UTR regulate genome dimerization and packaging Liqing Ye,Anne-Sophie Gribling-Burrer,Patrick Bohn,Anuja Kibe,Charlene Börtleinet al. Nature Structural and Molecular Biology, 2022, 29 (4), pp.306-319. ⟨10.1038/s41594-022-00746-2⟩ Article dans une revue hal-05362491v1
The short isoform of the host antiviral protein ZAP acts as an inhibitor of SARS-CoV-2 programmed ribosomal frameshifting Matthias Zimmer,Anuja Kibe,Ulfert Rand,Lukas Pekarek,Liqing Yeet al. Nature Communications, 2021, 12 (1), pp.7193. ⟨10.1038/s41467-021-27431-0⟩ Article dans une revue hal-05362486v1
RNA Structures and Their Role in Selective Genome Packaging Liqing Ye,Uddhav Ambi,Marco Olguin-Nava,Anne-Sophie Gribling-Burrer,Shazeb Ahmadet al. Viruses, 2021, 13 (9), pp.1788. ⟨10.3390/v13091788⟩ Article dans une revue hal-05363203v1
RNA Structure—A Neglected Puppet Master for the Evolution of Virus and Host Immunity Redmond P Smyth,Matteo Negroni,Andrew Lever,Johnson Mak,Julia Kenyon Frontiers in Immunology, 2018, 9, pp.2097. ⟨10.3389/fimmu.2018.02097⟩ Article dans une revue (article de synthèse) hal-02118729v1
Structural and Functional Motifs in Influenza Virus RNAs Damien Ferhadian,Maud Contrant,Anne Printz-Schweigert,Redmond P Smyth,Jean-Christophe Paillartet al. Frontiers in Microbiology, 2018, 9, pp.559. ⟨10.3389/fmicb.2018.00559⟩ Article dans une revue (article de synthèse) hal-02118745v1
In cell mutational interference mapping experiment (in cell MIME) identifies the 5′ polyadenylation signal as a dual regulator of HIV-1 genomic RNA production and packaging Redmond P Smyth,Maureen R Smith,Anne-Caroline Jousset,Laurence Despons,Géraldine Laumondet al. Nucleic Acids Research, 2018, 46 (9), pp.e57-e57. ⟨10.1093/nar/gky152⟩ Article dans une revue hal-02141231v1
The life-cycle of the HIV-1 Gag-RNA complex Élodie Mailler,Serena Bernacchi,Roland Marquet,Jean-Christophe Paillart,Valerie Vivet Boudouet al. Viruses, 2016, 8 (9), ⟨10.3390/v8090248⟩ Article dans une revue hal-05255386v1
A step forward understanding HIV-1 diversity Redmond P Smyth,Matteo Negroni Retrovirology, 2016, 13 (1), ⟨10.1186/s12977-016-0259-8⟩ Article dans une revue hal-02294753v1
HIV-1 Mutation and Recombination Rates Are Different in Macrophages and T-cells Deborah Cromer,Timothy Schlub,Redmond P Smyth,Andrew Grimm,Abha Chopraet al. Viruses, 2016, 8 (4), pp.118. ⟨10.3390/v8040118⟩ Article dans une revue hal-02294111v1
HIV-1 Pr55 Gag binds genomic and spliced RNAs with different affinity and stoichiometry Serena Bernacchi,Ekram Abd El-Wahab,Noé Dubois,Marcel Hijnen,Redmond P Smythet al. RNA Biology, 2016, 14 (1), pp.90-103. ⟨10.1080/15476286.2016.1256533⟩ Article dans une revue hal-02171331v1
MIMEAnTo: profiling functional RNA in mutational interference mapping experiments Maureen R Smith,Redmond P Smyth,Roland Marquet,Max von Kleist Bioinformatics, 2016, 32 (21), pp.3369-3370. ⟨10.1093/bioinformatics/btw479⟩ Article dans une revue hal-02294750v1
Mutational interference mapping experiment (MIME) for studying RNA structure and function. Redmond P Smyth,Laurence Despons,Gong Huili,Serena Bernacchi,Marcel Hijnenet al. Nature Methods, 2015, 12 (9), pp.866-872. ⟨10.1038/nmeth.3490⟩ Article dans une revue hal-05259396v1
Properties of HIV-1 associated cholesterol in addition to raft formation are important for virus infection David Hawkes,Kate Jones,Redmond P Smyth,Cândida Pereira,Robert Bittmanet al. Virus Research, 2015, 210, pp.18-21. ⟨10.1016/j.virusres.2015.06.023⟩ Article dans une revue istex hal-05362211v1
Evaluation of anti-HIV-1 mutagenic nucleoside analogues. Valérie Vivet-Boudou,Catherine Isel,Yazan El Safadi,Redmond P Smyth,Géraldine Laumondet al. Journal of Biological Chemistry, 2015, 290 (1), pp.371-383. ⟨10.1074/jbc.M114.616383⟩ Article dans une revue hal-05258403v1
15-20% of HIV substitution mutations are associated with recombination. Timothy Schlub,Andrew Grimm,Redmond P Smyth,Deborah Cromer,Abha Chopraet al. Journal of Virology, 2014, 88 (7), pp.3837-3849. ⟨10.1128/JVI.03136-13⟩ Article dans une revue hal-05259225v1
Specific recognition of the HIV-1 genomic RNA by the Gag precursor. Ekram Abd El-Wahab,Redmond P Smyth,Élodie Mailler,Serena Bernacchi,Valerie Vivet Boudouet al. Nature Communications, 2014, 5 (1), pp.4304. ⟨10.1038/ncomms5304⟩ Article dans une revue hal-05260015v1
Intracellular Dynamics of HIV Infection Janka Petravic,Paula Ellenberg,Ming-Liang Chan,Geza Paukovics,Redmond P Smythet al. Journal of Virology, 2014, 88 (2), pp.1113-1124. ⟨10.1128/JVI.02038-13⟩ Article dans une revue hal-05362139v1
Identifying recombination hotspots in the HIV-1 genome Redmond Smyth,T Schlub,A Grimm,C Waugh,P Ellenberget al. Journal of Virology, 2014, 88 (5), pp.2891-2902. ⟨10.1128/JVI.03014-13⟩ Article dans une revue hal-05259627v1
A functional sequence-specific interaction between influenza A virus genomic RNA segments Cyrille Gavazzi,Matthieu Yver,Catherine Isel,Redmond P Smyth,Manuel Rosa-Calatravaet al. Proceedings of the National Academy of Sciences of the United States of America, 2013, 110 (41), pp.16604-16609. ⟨10.1073/pnas.1314419110⟩ Article dans une revue hal-05258420v1
Improved quantification of HIV-1-infected CD4+ T cells using an optimised method of intracellular HIV-1 gag p24 antigen detection Hongbing Yang,Elisabeth Yorke,Gemma Hancock,Genevieve Clutton,Nellia Sandeet al. Journal of immunological methods, 2013, 391 (1-2), pp.174-178. ⟨10.1016/j.jim.2013.03.001⟩ Article dans une revue istex hal-05258663v1
The origin of genetic diversity in HIV-1 Redmond Smyth,Miles Davenport,Johnson Mak Virus Research, 2012, 169 (2), pp.415-429. ⟨10.1016/j.virusres.2012.06.015⟩ Article dans une revue istex hal-04306411v1
Early Events of HIV-1 Infection: Can Signaling be the Next Therapeutic Target? Kate Jones,Redmond Smyth,Cândida Pereira,Paul Cameron,Sharon Lewinet al. Journal of Neuroimmune Pharmacology, 2011, 6 (2), pp.269-283. ⟨10.1007/s11481-011-9268-5⟩ Article dans une revue istex hal-05362980v1
8-Modified-2'-Deoxyadenosine Analogues Induce Delayed Polymerization Arrest during HIV-1 Reverse Transcription Valérie Vivet-Boudou,Catherine Isel,Marwan Sleiman,Redmond Smyth,Nouha Ben Gaiedet al. PLoS ONE, 2011, 6 (11), ⟨10.1371/journal.pone.0027456⟩ Article dans une revue hal-05254494v1
Accurately Measuring Recombination between Closely Related HIV-1 Genomes Timothy Schlub,Redmond Smyth,Andrew Grimm,Johnson Mak,Miles Davenport PLoS Computational Biology, 2010, 6 (4), pp.e1000766. ⟨10.1371/journal.pcbi.1000766⟩ Article dans une revue hal-05362681v1
Reducing chimera formation during PCR amplification to ensure accurate genotyping Redmond P Smyth,T.E. Schlub,A. Grimm,V. Venturi,A. Chopraet al. Gene, 2010, 469 (1-2), pp.45-51. ⟨10.1016/j.gene.2010.08.009⟩ Article dans une revue istex hal-05362452v1
The A-rich RNA sequences of HIV-1 pol are important for the synthesis of viral cDNA. Cameron P Keating,Melissa K Hill,David J Hawkes,Redmond P Smyth,Catherine Iselet al. Nucleic Acids Research, 2009, 37 (3), pp.945-56. ⟨10.1093/nar/gkn1015⟩ Article dans une revue hal-00372893v1

Pré-publication, Document de travail (1)

Complete post-transcriptional modification profiles in individual Staphylococcus aureus tRNA species José Refugio Jaramillo Ponce,Philippe Wolff,Virginie Marchand,Yuri Motorin,Maximilian Kohlet al. 2025 Pré-publication, Document de travail hal-05347323v1