Systematic discovery of functional elements in RNA virus genomes: an Encyclopedia of RNA Virus Elements

Publikacje

Discovery of three RNA viruses using ant transcriptomic datasets

Autorzy: Eleni Kleanthous, Ingrida Olendraite, Nina I. Lukhovitskaya, Andrew E. Firth
Opublikowane w: Archives of Virology, Numer 164/2, 2019, Strona(/y) 643-647, ISSN 0304-8608
Wydawca: Springer Verlag
DOI: 10.1007/s00705-018-4093-2

A case for a negative-strand coding sequence in a group of positive-sense RNA viruses.

Autorzy: Dinan, Adam M; Lukhovitskaya, Nina; Olendraite, Ingrida; Firth, Andrew
Opublikowane w: Virus Evolution, Numer 1, 2020, Strona(/y) veaa007, ISSN 2057-1577
Wydawca: Oxford Academic
DOI: 10.1093/ve/veaa007

Detection of novel and recognized RNA viruses in mosquitoes from the Yucatan Peninsula of Mexico using metagenomics and characterization of their in vitro host ranges

Autorzy: Jermilia Charles, Chandra S. Tangudu, Stefanie L. Hurt, Charlotte Tumescheit, Andrew E. Firth, Julian E. Garcia-Rejon, Carlos Machain-Williams, Bradley J. Blitvich
Opublikowane w: Journal of General Virology, Numer 99/12, 2018, Strona(/y) 1729-1738, ISSN 0022-1317
Wydawca: Society for General Microbiology
DOI: 10.1099/jgv.0.001165

Programmed −2/−1 Ribosomal Frameshifting in Simarteriviruses: an Evolutionarily Conserved Mechanism

Autorzy: Yanhua Li, Andrew E. Firth, Ian Brierley, Yingyun Cai, Sawsan Napthine, Tao Wang, Xingyu Yan, Jens H. Kuhn, Ying Fang
Opublikowane w: Journal of Virology, Numer 93/16, 2019, Strona(/y) e00370-19, ISSN 0022-538X
Wydawca: American Society for Microbiology
DOI: 10.1128/JVI.00370-19

Hybrid Gene Origination Creates Human-Virus Chimeric Proteins during Infection

Autorzy: Jessica Sook Yuin Ho, Matthew Angel, Yixuan Ma, Elizabeth Sloan, Guojun Wang, Carles Martinez-Romero, Marta Alenquer, Vladimir Roudko, Liliane Chung, Simin Zheng, Max Chang, Yesai Fstkchyan, Sara Clohisey, Adam M. Dinan, James Gibbs, Robert Gifford, Rong Shen, Quan Gu, Nerea Irigoyen, Laura Campisi, Cheng Huang, Nan Zhao, Joshua D. Jones, Ingeborg van Knippenberg, Zeyu Zhu, Natasha Moshkina, Léa
Opublikowane w: Cell, Numer 181/7, 2020, Strona(/y) 1502-1517.e23, ISSN 0092-8674
Wydawca: Cell Press
DOI: 10.1016/j.cell.2020.05.035

Propensity of a picornavirus polymerase to slip on potyvirus-derived transcriptional slippage sites

Autorzy: Hazel Stewart, Allan Olspert, Benjamin G. Butt, Andrew E. Firth
Opublikowane w: Journal of General Virology, Numer 100/2, 2019, Strona(/y) 199-205, ISSN 0022-1317
Wydawca: Society for General Microbiology
DOI: 10.1099/jgv.0.001189

Targeting the Conserved Stem Loop 2 Motif in the SARS-CoV-2 Genome

Autorzy: Lulla V, Wandel MP, Bandyra KJ, Ulferts R, Wu M, Dendooven T, Yang X, Doyle N, Oerum S, Beale R, O'Rourke SM, Randow F, Maier HJ, Scott W, Ding Y, Firth AE, Bloznelyte K, Luisi BF
Opublikowane w: Journal of Virology, Numer 95, 2021, Strona(/y) e0066321, ISSN 0022-538X
Wydawca: American Society for Microbiology
DOI: 10.1128/jvi.00663-21

A hidden gene in astroviruses encodes a viroporin

Autorzy: Valeria Lulla, Andrew E. Firth
Opublikowane w: Nature Communications, Numer 11/1, 2020, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/s41467-020-17906-x

Enterovirus Competition Assay to Assess Replication Fitness

Autorzy: Valeria Lulla, Andrew Firth
Opublikowane w: BIO-PROTOCOL, Numer 9/10, 2019, ISSN 2331-8325
Wydawca: bio-protocol
DOI: 10.21769/bioprotoc.3233

Complete genome sequences of two insect-specific flaviviruses

Autorzy: Jermilia Charles, Chandra S. Tangudu, Andrew E. Firth, Bradley J. Blitvich
Opublikowane w: Archives of Virology, Numer 162/12, 2017, Strona(/y) 3913-3917, ISSN 0304-8608
Wydawca: Springer Verlag
DOI: 10.1007/s00705-017-3552-5

ASXL gain-of-function truncation mutants: defective and dysregulated forms of a natural ribosomal frameshifting product?

Autorzy: Adam M. Dinan, John F. Atkins, Andrew E. Firth
Opublikowane w: Biology Direct, Numer 12/1, 2017, ISSN 1745-6150
Wydawca: BioMed Central
DOI: 10.1186/s13062-017-0195-0

A Review of Flaviviruses that Have No Known Arthropod Vector

Autorzy: Bradley Blitvich, Andrew Firth
Opublikowane w: Viruses, Numer 9/6, 2017, Strona(/y) 154, ISSN 1999-4915
Wydawca: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v9060154

Avoidance of reporter assay distortions from fused dual reporters

Autorzy: Gary Loughran, Michael T. Howard, Andrew E. Firth, John F. Atkins
Opublikowane w: RNA, Numer 23/8, 2017, Strona(/y) 1285-1289, ISSN 1355-8382
Wydawca: Cold Spring Harbor Laboratory Press
DOI: 10.1261/rna.061051.117

Ribosome profiling of the retrovirus murine leukemia virus

Autorzy: Nerea Irigoyen, Adam M. Dinan, Ian Brierley, Andrew E. Firth
Opublikowane w: Retrovirology, Numer 15/1, 2018, ISSN 1742-4690
Wydawca: BioMed Central
DOI: 10.1186/s12977-018-0394-5

Protein-directed ribosomal frameshifting temporally regulates gene expression

Autorzy: Sawsan Napthine, Roger Ling, Leanne K. Finch, Joshua D. Jones, Susanne Bell, Ian Brierley, Andrew E. Firth
Opublikowane w: Nature Communications, Numer 8, 2017, Strona(/y) 15582, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/ncomms15582

An analysis by metabolic labelling of the encephalomyocarditis virus ribosomal frameshifting efficiency and stimulators

Autorzy: Roger Ling, Andrew E. Firth
Opublikowane w: Journal of General Virology, Numer 98/8, 2017, Strona(/y) 2100-2105, ISSN 0022-1317
Wydawca: Society for General Microbiology
DOI: 10.1099/jgv.0.000888

Polycipiviridae: a proposed new family of polycistronic picorna-like RNA viruses

Autorzy: Ingrida Olendraite, Nina I. Lukhovitskaya, Sanford D. Porter, Steven M. Valles, Andrew E. Firth
Opublikowane w: Journal of General Virology, Numer 98/9, 2017, Strona(/y) 2368-2378, ISSN 0022-1317
Wydawca: Society for General Microbiology
DOI: 10.1099/jgv.0.000902

Transcriptional and Translational Landscape of Equine Torovirus

Autorzy: Hazel Stewart, Katherine Brown, Adam M. Dinan, Nerea Irigoyen, Eric J. Snijder, Andrew E. Firth
Opublikowane w: Journal of Virology, Numer 92/17, 2018, ISSN 0022-538X
Wydawca: American Society for Microbiology
DOI: 10.1128/JVI.00589-18

Isolation and characterization of Nylanderia fulva virus 1, a positive-sense, single-stranded RNA virus infecting the tawny crazy ant, Nylanderia fulva

Autorzy: Steven M. Valles, David H. Oi, James J. Becnel, James K. Wetterer, John S. LaPolla, Andrew E. Firth
Opublikowane w: Virology, Numer 496, 2016, Strona(/y) 244-254, ISSN 0042-6822
Wydawca: Academic Press
DOI: 10.1016/j.virol.2016.06.014

Ribosomal frameshifting and transcriptional slippage: From genetic steganography and cryptography to adventitious use

Autorzy: John F. Atkins, Gary Loughran, Pramod R. Bhatt, Andrew E. Firth, Pavel V. Baranov
Opublikowane w: Nucleic Acids Research, 2016, Strona(/y) gkw530, ISSN 0305-1048
Wydawca: Oxford University Press
DOI: 10.1093/nar/gkw530

High-Resolution Analysis of Coronavirus Gene Expression by RNA Sequencing and Ribosome Profiling

Autorzy: Nerea Irigoyen, Andrew E. Firth, Joshua D. Jones, Betty Y.-W. Chung, Stuart G. Siddell, Ian Brierley
Opublikowane w: PLOS Pathogens, Numer 12/2, 2016, Strona(/y) e1005473, ISSN 1553-7374
Wydawca: Public Library of Science
DOI: 10.1371/journal.ppat.1005473

Mutational analysis of the Potyviridae transcriptional slippage site utilized for expression of the P3N-PIPO and P1N-PISPO proteins

Autorzy: Allan Olspert, John P. Carr, Andrew E. Firth
Opublikowane w: Nucleic Acids Research, Numer 44/16, 2016, Strona(/y) 7618-7629, ISSN 0305-1048
Wydawca: Oxford University Press
DOI: 10.1093/nar/gkw441

Characterization of the stimulators of protein-directed ribosomal frameshifting in Theiler's murine encephalomyelitis virus

Autorzy: Sawsan Napthine, Susanne Bell, Chris H Hill, Ian Brierley, Andrew E Firth
Opublikowane w: Nucleic Acids Research, Numer 47/15, 2019, Strona(/y) 8207-8223, ISSN 0305-1048
Wydawca: Oxford University Press
DOI: 10.1093/nar/gkz503

Discovery of a novel Tymoviridae-like virus in mosquitoes from Mexico

Autorzy: Jermilia Charles, Chandra S. Tangudu, Stefanie L. Hurt, Charlotte Tumescheit, Andrew E. Firth, Julian E. Garcia-Rejon, Carlos Machain-Williams, Bradley J. Blitvich
Opublikowane w: Archives of Virology, Numer 164/2, 2019, Strona(/y) 649-652, ISSN 0304-8608
Wydawca: Springer Verlag
DOI: 10.1007/s00705-018-4098-x

Manipulation of the unfolded protein response: A pharmacological strategy against coronavirus infection

Autorzy: Echavarría-Consuegra L, Cook GM, Busnadiego I, Lefèvre C, Keep S, Brown K, Doyle N, Dowgier G, Franaszek K, Moore NA, Siddell SG, Bickerton E, Hale BG, Firth AE, Brierley I, Irigoyen N
Opublikowane w: PLoS Pathogens, Numer 17, 2021, Strona(/y) e1009644, ISSN 1553-7374
Wydawca: Public Library of Science
DOI: 10.1371/journal.ppat.1009644

A putative new SARS-CoV protein, 3c, encoded in an ORF overlapping ORF3a

Autorzy: Andrew E. Firth
Opublikowane w: Journal of General Virology, 2020, ISSN 0022-1317
Wydawca: Society for General Microbiology
DOI: 10.1099/jgv.0.001469

An upstream protein-coding region in enteroviruses modulates virus infection in gut epithelial cells

Autorzy: Valeria Lulla, Adam M. Dinan, Myra Hosmillo, Yasmin Chaudhry, Lee Sherry, Nerea Irigoyen, Komal M. Nayak, Nicola J. Stonehouse, Matthias Zilbauer, Ian Goodfellow, Andrew E. Firth
Opublikowane w: Nature Microbiology, Numer 4/2, 2019, Strona(/y) 280-292, ISSN 2058-5276
Wydawca: Nature Research
DOI: 10.1038/s41564-018-0297-1

C6orf203 is an RNA-binding protein involved in mitochondrial protein synthesis

Autorzy: Shreekara Gopalakrishna, Sarah F Pearce, Adam M Dinan, Florian A Schober, Miriam Cipullo, Henrik Spåhr, Anas Khawaja, Camilla Maffezzini, Christoph Freyer, Anna Wredenberg, Ilian Atanassov, Andrew E Firth, Joanna Rorbach
Opublikowane w: Nucleic Acids Research, Numer 47/17, 2019, Strona(/y) 9386-9399, ISSN 0305-1048
Wydawca: Oxford University Press
DOI: 10.1093/nar/gkz684

Comparative Analysis of Gene Expression in Virulent and Attenuated Strains of Infectious Bronchitis Virus at Subcodon Resolution

Autorzy: Adam M. Dinan, Sarah Keep, Erica Bickerton, Paul Britton, Andrew E. Firth, Ian Brierley
Opublikowane w: Journal of Virology, Numer 93/18, 2019, ISSN 0022-538X
Wydawca: American Society for Microbiology
DOI: 10.1128/JVI.00714-19

Investigating molecular mechanisms of 2A-stimulated ribosomal pausing and frameshifting in Theilovirus

Autorzy: Hill CH, Cook GM, Napthine S, Kibe A, Brown K, Caliskan N, Firth AE, Graham SC, Brierley I
Opublikowane w: Nucleic Acids Research, Numer 49, 2021, Strona(/y) 11938-11958, ISSN 0305-1048
Wydawca: Oxford University Press
DOI: 10.1093/nar/gkab969

Structural and molecular basis for Cardiovirus 2A protein as a viral gene expression switch

Autorzy: Hill CH, Pekarek L, Napthine S, Kibe A, Firth AE, Graham SC, Caliskan N, Brierley I
Opublikowane w: Nature Communications, Numer 12, 2021, Strona(/y) 7166, ISSN 2041-1723
Wydawca: Nature Publishing Group
DOI: 10.1038/s41467-021-27400-7

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