2023

Ho, A. et al. (2023) Adeno-associated virus 2 infection in children with non-A-E hepatitis. Nature, (doi: 10.1038/s41586-023-05948-2) (PMID:36996873) (Early Online Publication)

2022

Martinez, J. , Ross, P. A., Gu, X., Ant, T. H., Murdochy, S. M., Tong, L., da Silva Filipe, A. , Hoffmann, A. A. and Sinkins, S. P. (2022) Genomic and phenotypic comparisons reveal distinct variants of Wolbachia strain wAlbB. Applied and Environmental Microbiology, 88(22), e0141222. (doi: 10.1128/aem.01412-22) (PMID:36318064) (PMCID:PMC9680635)

Sugrue, E. et al. (2022) The apparent interferon resistance of transmitted HIV-1 is possibly a consequence of enhanced replicative fitness. PLoS Pathogens, 18(11), e1010973. (doi: 10.1371/journal.ppat.1010973) (PMID:36399512) (PMCID:PMC9718408)

Aranday-Cortes, E. et al. (2022) Real-world outcomes of direct-acting antiviral treatment and retreatment in United Kingdom–based patients infected with hepatitis C virus genotypes/subtypes endemic in Africa. Journal of Infectious Diseases, 226(6), pp. 995-1004. (doi: 10.1093/infdis/jiab110) (PMID:33668068) (PMCID:PMC9492310)

Martinez, J. , Ant, T. H., Murdochy, S. M., Tong, L., da Silva Filipe, A. and Sinkins, S. P. (2022) Genome sequencing and comparative analysis of Wolbachia strain wAlbA reveals Wolbachia-associated plasmids are common. PLoS Genetics, 18(9), e1010406. (doi: 10.1371/journal.pgen.1010406) (PMID:36121852) (PMCID:PMC9560607)

Shah, R. et al. (2022) Characterisation of a hepatitis C virus subtype 2a cluster in Scottish PWID with a suboptimal response to glecaprevir/pibrentasvir treatment. Viruses, 14(8), 1678. (doi: 10.3390/v14081678) (PMID:36016300) (PMCID:PMC9416734)

Willett, B. J. et al. (2022) SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway. Nature Microbiology, 7(8), pp. 1161-1179. (doi: 10.1038/s41564-022-01143-7) (PMID:35798890) (PMCID:PMC9352574)

Nickbakhsh, S. et al. (2022) Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning. Scientific Reports, 12, 11735. (doi: 10.1038/s41598-022-15661-1) (PMID:35853960) (PMCID:PMC9296497)

Stockdale, A. J. et al. (2022) A clinical and molecular epidemiological survey of hepatitis C in Blantyre, Malawi suggests an historic mechanism of transmission. Journal of Viral Hepatitis, 29(4), pp. 252-262. (doi: 10.1111/jvh.13646) (PMID:35075742) (PMCID:PMC9305194)

Aggarwal, D. et al. (2022) Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission. Nature Communications, 13, 1012. (doi: 10.1038/s41467-022-28371-z)

Aggarwal, D. et al. (2022) Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission. Nature Communications, 13, 751. (doi: 10.1038/s41467-021-27942-w) (PMID:35136068) (PMCID:PMC8826310)

Twohig, K. A. et al. (2022) Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study. Lancet Infectious Diseases, 22(1), pp. 35-42. (doi: 10.1016/S1473-3099(21)00475-8) (PMID:34461056) (PMCID:PMC8397301)

Xu, R. et al. (2022) The evolutionary dynamics and epidemiological history of hepatitis C virus genotype 6, including unique strains from the Li community of Hainan Island, China. Virus Evolution, 8(1), veac012. (doi: 10.1093/ve/veac012) (PMID:35600095) (PMCID:PMC9115904)

2021

Vöhringer, H. S. et al. (2021) Genomic reconstruction of the SARS-CoV-2 epidemic in England. Nature, 600(7889), pp. 506-511. (doi: 10.1038/s41586-021-04069-y) (PMID:34649268) (PMCID:PMC8674138)

Amat, J. A.R. et al. (2021) Long-term adaptation following influenza A virus host shifts results in increased within-host viral fitness due to higher replication rates, broader dissemination within the respiratory epithelium and reduced tissue damage. PLoS Pathogens, 17(12), e1010174. (doi: 10.1371/journal.ppat.1010174) (PMID:34919598) (PMCID:PMC8735595)

Li, K. K. et al. (2021) Genetic epidemiology of SARS-CoV-2 transmission in renal dialysis units - a high risk community-hospital interface. Journal of Infection, 83(1), pp. 96-103. (doi: 10.1016/j.jinf.2021.04.020) (PMID:33895226) (PMCID:PMC8061788)

Graham, M. S. et al. (2021) Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B.1.1.7: an ecological study. Lancet Public Health, 6(5), e335-e345. (doi: 10.1016/S2468-2667(21)00055-4)

Volz, E. et al. (2021) Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England. Nature, 593(7858), pp. 266-269. (doi: 10.1038/s41586-021-03470-x) (PMID:33767447)

Thomson, E. C. et al. (2021) Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity. Cell, 184(5), 1171-1187.e20. (doi: 10.1016/j.cell.2021.01.037) (PMID:33621484) (PMCID:PMC7843029)

Rihn, S. J. et al. (2021) A plasmid DNA-launched SARS-CoV-2 reverse genetics system and coronavirus toolkit for COVID-19 research. PLoS Biology, 19(2), e3001091. (doi: 10.1371/journal.pbio.3001091) (PMID:33630831) (PMCID:PMC7906417)

Da Silva Filipe, A. et al. (2021) Genomic epidemiology reveals multiple introductions of SARS-CoV-2 from mainland Europe into Scotland. Nature Microbiology, 6(1), pp. 112-122. (doi: 10.1038/s41564-020-00838-z) (PMID:33349681)

Parker, M. D. et al. (2021) Subgenomic RNA identification in SARS-CoV-2 genomic sequencing data. Genome Research, 31, pp. 645-658. (doi: 10.1101/gr.268110.120) (PMID:33722935) (PMCID:PMC8015849)

2019

Childs, K. et al. (2019) Suboptimal SVR rates in African patients with atypical Genotype 1 subtypes: implications for global elimination of Hepatitis C. Journal of Hepatology, 71(6), pp. 1099-1105. (doi: 10.1016/j.jhep.2019.07.025) (PMID:31400349)

Modha, S. , Hughes, J. , Bianco, G., Ferguson, H. M. , Helm, B., Tong, L., Wilkie, G. S., Kohl, A. and Schnettler, E. (2019) Metaviromics reveals unknown viral diversity in the biting midge Culicoides impunctatus. Viruses, 11(9), 865. (doi: 10.3390/v11090865) (PMID:31533247) (PMCID:PMC6784199)

Singer, J. B. et al. (2019) Interpreting viral deep sequencing data with GLUE. Viruses, 11(4), 323. (doi: 10.3390/v11040323) (PMID:30987147) (PMCID:PMC6520954)

2018

Dunlop, J. I. et al. (2018) Development of reverse genetics systems and investigation of host response antagonism and reassortment potential for Cache Valley and Kairi viruses, two emerging orthobunyaviruses of the Americas. PLoS Neglected Tropical Diseases, 12(10), e0006884. (doi: 10.1371/journal.pntd.0006884) (PMID:30372452) (PMCID:PMC6245839)

Selinger, M., Wilkie, G. S., Tong, L., Gu, Q. , Schnettler, E., Grubhoffer, L. and Kohl, A. (2018) Corrigendum: Analysis of tick-borne encephalitis virus-induced host responses in human cells of neuronal origin and interferon-mediated protection. Journal of General Virology, 99(8), pp. 1147-1149. (doi: 10.1099/jgv.0.001109) (PMID:30067173)

2017

Selinger, M., Wilkie, G. S., Tong, L., Gu, Q. , Schnettler, E., Grubhoffer, L. and Kohl, A. (2017) Analysis of tick-borne encephalitis virus-induced host responses in human cells of neuronal origin and interferon-mediated protection. Journal of General Virology, 98(8), pp. 2043-2060. (doi: 10.1099/jgv.0.000853) (PMID:28786780)

2016

Brown, J. R., Conn, K. L., Wasson, P., Charman, M., Tong, L., Grant, K., McFarlane, S. and Boutell, C. (2016) The SUMO Ligase Protein Inhibitor of Activated STAT 1 (PIAS1) is a constituent PML-NB protein that contributes to the intrinsic antiviral immune response to herpes simplex virus 1 (HSV-1). Journal of Virology, 90, 13. (doi: 10.1128/JVI.00426-16) (PMID:27099310) (PMCID:PMC4907222)

Conn, K. L., Wasson, P., McFarlane, S., Tong, L., Brown, J. R., Grant, K. G., Domingues, P. and Boutell, C. (2016) A novel role for Protein Inhibitor of Activated STAT 4 (PIAS4) in the restriction of herpes simplex virus 1 (HSV-1) by the cellular intrinsic antiviral immune response. Journal of Virology, 90(9), pp. 4807-4826. (doi: 10.1128/JVI.03055-15) (PMID:26937035)

2012

Grant, K., Grant, L., Tong, L. and Boutell, C. (2012) Depletion of intracellular zinc inhibits the ubiquitin ligase activity of viral regulatory protein ICP0 and restricts herpes simplex virus 1 replication in cell culture. Journal of Virology, 86(7), pp. 4029-4033. (doi: 10.1128/jvi.06962-11) (PMID:22278229) (PMCID:PMC3302540)

Vanni, E., Gatherer, D., Tong, L., Everett, R.D. and Boutell, C. (2012) Functional characterization of residues required for the herpes simplex virus 1 E3 ubiquitin ligase ICP0 to interact with the cellular E2 ubiquitin-conjugating enzyme UBE2D1 (UbcH5a). Journal of Virology, 86(11), pp. 6323-6333. (doi: 10.1128/jvi.07210-11) (PMID:22438555) (PMCID:PMC3372195)

2010

Tong, L. and Stow, N.D. (2010) Analysis of herpes simplex virus type 1 DNA packaging signal mutations in the context of the viral genome. Journal of Virology, 84(1), pp. 321-329. (doi: 10.1128/JVI.01489-09) (PMID:19864384) (PMCID:PMC2798400)

Articles

Ho, A. et al. (2023) Adeno-associated virus 2 infection in children with non-A-E hepatitis. Nature, (doi: 10.1038/s41586-023-05948-2) (PMID:36996873) (Early Online Publication)

Martinez, J. , Ross, P. A., Gu, X., Ant, T. H., Murdochy, S. M., Tong, L., da Silva Filipe, A. , Hoffmann, A. A. and Sinkins, S. P. (2022) Genomic and phenotypic comparisons reveal distinct variants of Wolbachia strain wAlbB. Applied and Environmental Microbiology, 88(22), e0141222. (doi: 10.1128/aem.01412-22) (PMID:36318064) (PMCID:PMC9680635)

Sugrue, E. et al. (2022) The apparent interferon resistance of transmitted HIV-1 is possibly a consequence of enhanced replicative fitness. PLoS Pathogens, 18(11), e1010973. (doi: 10.1371/journal.ppat.1010973) (PMID:36399512) (PMCID:PMC9718408)

Aranday-Cortes, E. et al. (2022) Real-world outcomes of direct-acting antiviral treatment and retreatment in United Kingdom–based patients infected with hepatitis C virus genotypes/subtypes endemic in Africa. Journal of Infectious Diseases, 226(6), pp. 995-1004. (doi: 10.1093/infdis/jiab110) (PMID:33668068) (PMCID:PMC9492310)

Martinez, J. , Ant, T. H., Murdochy, S. M., Tong, L., da Silva Filipe, A. and Sinkins, S. P. (2022) Genome sequencing and comparative analysis of Wolbachia strain wAlbA reveals Wolbachia-associated plasmids are common. PLoS Genetics, 18(9), e1010406. (doi: 10.1371/journal.pgen.1010406) (PMID:36121852) (PMCID:PMC9560607)

Shah, R. et al. (2022) Characterisation of a hepatitis C virus subtype 2a cluster in Scottish PWID with a suboptimal response to glecaprevir/pibrentasvir treatment. Viruses, 14(8), 1678. (doi: 10.3390/v14081678) (PMID:36016300) (PMCID:PMC9416734)

Willett, B. J. et al. (2022) SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway. Nature Microbiology, 7(8), pp. 1161-1179. (doi: 10.1038/s41564-022-01143-7) (PMID:35798890) (PMCID:PMC9352574)

Nickbakhsh, S. et al. (2022) Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning. Scientific Reports, 12, 11735. (doi: 10.1038/s41598-022-15661-1) (PMID:35853960) (PMCID:PMC9296497)

Stockdale, A. J. et al. (2022) A clinical and molecular epidemiological survey of hepatitis C in Blantyre, Malawi suggests an historic mechanism of transmission. Journal of Viral Hepatitis, 29(4), pp. 252-262. (doi: 10.1111/jvh.13646) (PMID:35075742) (PMCID:PMC9305194)

Aggarwal, D. et al. (2022) Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission. Nature Communications, 13, 1012. (doi: 10.1038/s41467-022-28371-z)

Aggarwal, D. et al. (2022) Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission. Nature Communications, 13, 751. (doi: 10.1038/s41467-021-27942-w) (PMID:35136068) (PMCID:PMC8826310)

Twohig, K. A. et al. (2022) Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study. Lancet Infectious Diseases, 22(1), pp. 35-42. (doi: 10.1016/S1473-3099(21)00475-8) (PMID:34461056) (PMCID:PMC8397301)

Xu, R. et al. (2022) The evolutionary dynamics and epidemiological history of hepatitis C virus genotype 6, including unique strains from the Li community of Hainan Island, China. Virus Evolution, 8(1), veac012. (doi: 10.1093/ve/veac012) (PMID:35600095) (PMCID:PMC9115904)

Vöhringer, H. S. et al. (2021) Genomic reconstruction of the SARS-CoV-2 epidemic in England. Nature, 600(7889), pp. 506-511. (doi: 10.1038/s41586-021-04069-y) (PMID:34649268) (PMCID:PMC8674138)

Amat, J. A.R. et al. (2021) Long-term adaptation following influenza A virus host shifts results in increased within-host viral fitness due to higher replication rates, broader dissemination within the respiratory epithelium and reduced tissue damage. PLoS Pathogens, 17(12), e1010174. (doi: 10.1371/journal.ppat.1010174) (PMID:34919598) (PMCID:PMC8735595)

Li, K. K. et al. (2021) Genetic epidemiology of SARS-CoV-2 transmission in renal dialysis units - a high risk community-hospital interface. Journal of Infection, 83(1), pp. 96-103. (doi: 10.1016/j.jinf.2021.04.020) (PMID:33895226) (PMCID:PMC8061788)

Graham, M. S. et al. (2021) Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B.1.1.7: an ecological study. Lancet Public Health, 6(5), e335-e345. (doi: 10.1016/S2468-2667(21)00055-4)

Volz, E. et al. (2021) Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England. Nature, 593(7858), pp. 266-269. (doi: 10.1038/s41586-021-03470-x) (PMID:33767447)

Thomson, E. C. et al. (2021) Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity. Cell, 184(5), 1171-1187.e20. (doi: 10.1016/j.cell.2021.01.037) (PMID:33621484) (PMCID:PMC7843029)

Rihn, S. J. et al. (2021) A plasmid DNA-launched SARS-CoV-2 reverse genetics system and coronavirus toolkit for COVID-19 research. PLoS Biology, 19(2), e3001091. (doi: 10.1371/journal.pbio.3001091) (PMID:33630831) (PMCID:PMC7906417)

Da Silva Filipe, A. et al. (2021) Genomic epidemiology reveals multiple introductions of SARS-CoV-2 from mainland Europe into Scotland. Nature Microbiology, 6(1), pp. 112-122. (doi: 10.1038/s41564-020-00838-z) (PMID:33349681)

Parker, M. D. et al. (2021) Subgenomic RNA identification in SARS-CoV-2 genomic sequencing data. Genome Research, 31, pp. 645-658. (doi: 10.1101/gr.268110.120) (PMID:33722935) (PMCID:PMC8015849)

Childs, K. et al. (2019) Suboptimal SVR rates in African patients with atypical Genotype 1 subtypes: implications for global elimination of Hepatitis C. Journal of Hepatology, 71(6), pp. 1099-1105. (doi: 10.1016/j.jhep.2019.07.025) (PMID:31400349)

Modha, S. , Hughes, J. , Bianco, G., Ferguson, H. M. , Helm, B., Tong, L., Wilkie, G. S., Kohl, A. and Schnettler, E. (2019) Metaviromics reveals unknown viral diversity in the biting midge Culicoides impunctatus. Viruses, 11(9), 865. (doi: 10.3390/v11090865) (PMID:31533247) (PMCID:PMC6784199)

Singer, J. B. et al. (2019) Interpreting viral deep sequencing data with GLUE. Viruses, 11(4), 323. (doi: 10.3390/v11040323) (PMID:30987147) (PMCID:PMC6520954)

Dunlop, J. I. et al. (2018) Development of reverse genetics systems and investigation of host response antagonism and reassortment potential for Cache Valley and Kairi viruses, two emerging orthobunyaviruses of the Americas. PLoS Neglected Tropical Diseases, 12(10), e0006884. (doi: 10.1371/journal.pntd.0006884) (PMID:30372452) (PMCID:PMC6245839)

Selinger, M., Wilkie, G. S., Tong, L., Gu, Q. , Schnettler, E., Grubhoffer, L. and Kohl, A. (2018) Corrigendum: Analysis of tick-borne encephalitis virus-induced host responses in human cells of neuronal origin and interferon-mediated protection. Journal of General Virology, 99(8), pp. 1147-1149. (doi: 10.1099/jgv.0.001109) (PMID:30067173)

Selinger, M., Wilkie, G. S., Tong, L., Gu, Q. , Schnettler, E., Grubhoffer, L. and Kohl, A. (2017) Analysis of tick-borne encephalitis virus-induced host responses in human cells of neuronal origin and interferon-mediated protection. Journal of General Virology, 98(8), pp. 2043-2060. (doi: 10.1099/jgv.0.000853) (PMID:28786780)

Brown, J. R., Conn, K. L., Wasson, P., Charman, M., Tong, L., Grant, K., McFarlane, S. and Boutell, C. (2016) The SUMO Ligase Protein Inhibitor of Activated STAT 1 (PIAS1) is a constituent PML-NB protein that contributes to the intrinsic antiviral immune response to herpes simplex virus 1 (HSV-1). Journal of Virology, 90, 13. (doi: 10.1128/JVI.00426-16) (PMID:27099310) (PMCID:PMC4907222)

Conn, K. L., Wasson, P., McFarlane, S., Tong, L., Brown, J. R., Grant, K. G., Domingues, P. and Boutell, C. (2016) A novel role for Protein Inhibitor of Activated STAT 4 (PIAS4) in the restriction of herpes simplex virus 1 (HSV-1) by the cellular intrinsic antiviral immune response. Journal of Virology, 90(9), pp. 4807-4826. (doi: 10.1128/JVI.03055-15) (PMID:26937035)

Grant, K., Grant, L., Tong, L. and Boutell, C. (2012) Depletion of intracellular zinc inhibits the ubiquitin ligase activity of viral regulatory protein ICP0 and restricts herpes simplex virus 1 replication in cell culture. Journal of Virology, 86(7), pp. 4029-4033. (doi: 10.1128/jvi.06962-11) (PMID:22278229) (PMCID:PMC3302540)

Vanni, E., Gatherer, D., Tong, L., Everett, R.D. and Boutell, C. (2012) Functional characterization of residues required for the herpes simplex virus 1 E3 ubiquitin ligase ICP0 to interact with the cellular E2 ubiquitin-conjugating enzyme UBE2D1 (UbcH5a). Journal of Virology, 86(11), pp. 6323-6333. (doi: 10.1128/jvi.07210-11) (PMID:22438555) (PMCID:PMC3372195)

Tong, L. and Stow, N.D. (2010) Analysis of herpes simplex virus type 1 DNA packaging signal mutations in the context of the viral genome. Journal of Virology, 84(1), pp. 321-329. (doi: 10.1128/JVI.01489-09) (PMID:19864384) (PMCID:PMC2798400)