2023
Alrezaihi, A., Penrice-Randal, R., Dong, X., Prince, T., Randle, N., Semple, M. G., . . . Hiscox, J. A. (2023). Enrichment of SARS-CoV-2 sequence from nasopharyngeal swabs whilst identifying the nasal microbiome. Journal of Clinical Virology, 105620. doi:10.1016/j.jcv.2023.105620DOI: 10.1016/j.jcv.2023.105620
Dong, X., & Hiscox, J. A. (2023). Analysis of SARS-CoV-2 Population Genetics from Samples Associated with Huanan Market and Early Cases Identifies Substitutions Associated with Future Variants of Concern.. Viruses, 15(8), 1728. doi:10.3390/v15081728DOI: 10.3390/v15081728
Recombinant SARS-CoV-2 lacking initiating and internal methionine codons within ORF10 is attenuated<i>in vivo</i> (Preprint)
DOI: 10.1101/2023.08.04.551973
Alrezaihi, A., Penrice-Randal, R., Dong, X., Prince, T., Randle, N., Semple, M., . . . Hiscox, J. (2023). Enrichment of Sars-Cov-2 and Seasonal Coronavirus Sequence from Nasopharyngeal Swabs Whilst Maintaining the Background Context of the Microbiome. doi:10.2139/ssrn.4484216DOI: 10.2139/ssrn.4484216
Dong, X., Tree, J., Banadyga, L., He, S., Zhu, W., Tipton, T., . . . Hiscox, J. A. A. (2023). Linked Mutations in the Ebola Virus Polymerase Are Associated with Organ Specific Phenotypes. MICROBIOLOGY SPECTRUM, 11(2). doi:10.1128/spectrum.04154-22DOI: 10.1128/spectrum.04154-22
Goldswain, H., Dong, X., Penrice-Randal, R., Alruwaili, M., Shawli, G. T., Prince, T., . . . Hiscox, J. A. (2023). The P323L substitution in the SARS-CoV-2 polymerase (NSP12) confers a selective advantage during infection.. Genome biology, 24(1), 47. doi:10.1186/s13059-023-02881-5DOI: 10.1186/s13059-023-02881-5
2022
Donovan-Banfield, I., Penrice-Randal, R., Goldswain, H., Rzeszutek, A. M., Pilgrim, J., Bullock, K., . . . Fletcher, T. (2022). Characterisation of SARS-CoV-2 genomic variation in response to molnupiravir treatment in the AGILE Phase IIa clinical trial. NATURE COMMUNICATIONS, 13(1). doi:10.1038/s41467-022-34839-9DOI: 10.1038/s41467-022-34839-9
Penrice-Randal, R., Hartley, C., Beliavskaia, A., Dong, X., Brandner-Garrod, L., Whitten, M., & Bell-Sakyi, L. (2022). New Cell Lines Derived from Laboratory Colony Triatoma infestans and Rhodnius prolixus, Vectors of Trypanosoma cruzi, Do Not Harbour Triatoma Virus. INSECTS, 13(10). doi:10.3390/insects13100906DOI: 10.3390/insects13100906
Penrice-Randal, R., Dong, X., Shapanis, A. G., Gardner, A., Harding, N., Legebeke, J., . . . Baralle, D. (2022). Blood gene expression predicts intensive care unit admission in hospitalised patients with COVID-19.. Frontiers in immunology, 13, 988685. doi:10.3389/fimmu.2022.988685DOI: 10.3389/fimmu.2022.988685
Analysis of SARS-CoV-2 in Nasopharyngeal Samples from Patients with COVID-19 Illustrates Population Variation and Diverse Phenotypes, Placing the Growth Properties of Variants of Concern in Context with Other Lineages (Journal article)
Prince, T., Dong, X., Penrice-Randal, R., Randle, N., Hartley, C., Goldswain, H., . . . Hiscox, J. A. (2022). Analysis of SARS-CoV-2 in Nasopharyngeal Samples from Patients with COVID-19 Illustrates Population Variation and Diverse Phenotypes, Placing the Growth Properties of Variants of Concern in Context with Other Lineages. MSPHERE, 7(3). doi:10.1128/msphere.00913-21DOI: 10.1128/msphere.00913-21
Dong, X., Penrice-Randal, R., Goldswain, H., Prince, T., Randle, N., Donovan-Banfield, I., . . . Hiscox, J. A. (2022). Analysis of SARS-CoV-2 known and novel subgenomic mRNAs in cell culture, animal model, and clinical samples using LeTRS, a bioinformatic tool to identify unique sequence identifiers. GIGASCIENCE, 11. doi:10.1093/gigascience/giac045DOI: 10.1093/gigascience/giac045
Legebeke, J., Lord, J., Penrice-Randal, R., Vallejo, A. F., Poole, S., Brendish, N. J., . . . Baralle, D. (2022). Evaluating the Immune Response in Treatment-Naive Hospitalised Patients With Influenza and COVID-19. FRONTIERS IN IMMUNOLOGY, 13. doi:10.3389/fimmu.2022.853265DOI: 10.3389/fimmu.2022.853265
Zhou, J., Peacock, T. P., Brown, J. C., Goldhill, D. H., Elrefaey, A. M. E., Penrice-Randal, R., . . . Barclay, W. S. (2022). Mutations that adapt SARS-CoV-2 to mink or ferret do not increase fitness in the human airway. Cell Reports, 110344. doi:10.1016/j.celrep.2022.110344DOI: 10.1016/j.celrep.2022.110344
Zhou, J., Peacock, T., Brown, J., Goldhill, D., Elrefaey, A., Penrice-Randal, R., . . . Barclay, W. (2021). Mutations that adapt SARS-CoV-2 to mustelid hosts do not increase fitness in the human airway.. doi:10.21203/rs.3.rs-829214/v1DOI: 10.21203/rs.3.rs-829214/v1
2021
Watson, R. J., Tree, J., Fotheringham, S. A., Hall, Y., Dong, X., Steeds, K., . . . Funnell, S. G. P. (2021). Dose-Dependent Response to Infection with Ebola Virus in the Ferret Model and Evidence of Viral Evolution in the Eye. JOURNAL OF VIROLOGY, 95(24). doi:10.1128/JVI.00833-21DOI: 10.1128/JVI.00833-21
Aljabr, W., Alruwaili, M., Penrice-Randal, R., Alrezaihi, A., Harrison, A. J., Ryan, Y., . . . Hiscox, J. A. (2021). Amplicon and Metagenomic Analysis of Middle East Respiratory Syndrome (MERS) Coronavirus and the Microbiome in Patients with Severe MERS.. mSphere, e0021921. doi:10.1128/msphere.00219-21DOI: 10.1128/msphere.00219-21
Legebeke, J., Lord, J., Penrice-Randal, R., Vallejo, A., Poole, S., Brendish, N., . . . Baralle, D. (2021). Distinct immune responses in patients infected with influenza or SARS-CoV-2, and in COVID-19 survivors, characterised by transcriptomic and cellular abundance differences in blood. doi:10.1101/2021.05.12.21257086DOI: 10.1101/2021.05.12.21257086
Dong, X., Penrice-Randal, R., Goldswain, H., Prince, T., Randle, N., Salguero, J., . . . COVID-19 Genomics UK (COG-UK) Consortium. (2021). Identification and quantification of SARS-CoV-2 leader subgenomic mRNA gene junctions in nasopharyngeal samples shows phasic transcription in animal models of COVID-19 and dysregulation at later time points that can also be identified in humans. doi:10.1101/2021.03.03.433753DOI: 10.1101/2021.03.03.433753
Salguero, F. J., White, A. D., Slack, G. S., Fotheringham, S. A., Bewley, K. R., Gooch, K. E., . . . Carroll, M. W. (2021). Comparison of rhesus and cynomolgus macaques as an infection model for COVID-19. NATURE COMMUNICATIONS, 12(1). doi:10.1038/s41467-021-21389-9DOI: 10.1038/s41467-021-21389-9
Dorward, D. A., Russell, C. D., Um, I. H., Elshani, M., Armstrong, S. D., Penrice-Randal, R., . . . Lucas, C. D. (2021). Tissue-Specific Immunopathology in Fatal COVID-19. AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE, 203(2), 192-201. doi:10.1164/rccm.202008-3265OCDOI: 10.1164/rccm.202008-3265OC
Bosworth, A., Rickett, N. Y., Dong, X., Ng, L. F. P., Garcia-Dorival, I., Matthews, D. A., . . . Hiscox, J. A. (2021). Analysis of an Ebola virus disease survivor whose host and viral markers were predictive of death indicates the effectiveness of medical countermeasures and supportive care. GENOME MEDICINE, 13(1). doi:10.1186/s13073-020-00811-9DOI: 10.1186/s13073-020-00811-9
2020
Aljabr, W., Alruwaili, M., Penrice-Randal, R., Alrezaihi, A., Harrison, A. J., Ryan, Y., . . . Hiscox, J. (2020). Amplicon and metagenomic analysis of MERS-CoV and the microbiome in patients with severe Middle East respiratory syndrome (MERS). doi:10.1101/2020.11.28.400671DOI: 10.1101/2020.11.28.400671
Clark, J., Penrice-Randal, R., Sharma, P., Kipar, A., Dong, X., Pennington, S., . . . Stewart, J. (2020). Sequential infection with influenza A virus followed by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) leads to more severe disease and encephalitis in a mouse model of COVID-19. doi:10.1101/2020.10.13.334532DOI: 10.1101/2020.10.13.334532
Moore, S. C., Penrice-Randal, R., Alruwaili, M., Randle, N., Armstrong, S., Hartley, C., . . . Hiscox, J. A. (2020). Amplicon-Based Detection and Sequencing of SARS-CoV-2 in Nasopharyngeal Swabs from Patients With COVID-19 and Identification of Deletions in the Viral Genome That Encode Proteins Involved in Interferon Antagonism. VIRUSES-BASEL, 12(10). doi:10.3390/v12101164DOI: 10.3390/v12101164
Dong, X., Munoz-Basagoiti, J., Rickett, N. Y., Pollakis, G., Paxton, W. A., Guenther, S., . . . Hiscox, J. A. (2020). Variation around the dominant viral genome sequence contributes to viral load and outcome in patients with Ebola virus disease. GENOME BIOLOGY, 21(1). doi:10.1186/s13059-020-02148-3DOI: 10.1186/s13059-020-02148-3
Moore, S., Penrice-Randal, R., Alruwaili, M., Dong, X., Pullan, S., Carter, D., . . . Hiscox, J. (2020). Amplicon based MinION sequencing of SARS-CoV-2 and metagenomic characterisation of nasopharyngeal swabs from patients with COVID-19. doi:10.1101/2020.03.05.20032011DOI: 10.1101/2020.03.05.20032011
2019
Bosworth, A., Dowall, S. D., Armstrong, S., Liu, X., Dong, X., Bruce, C. B., . . . Hiscox, J. A. (2019). Investigating the Cellular Transcriptomic Response Induced by the Makona Variant of Ebola Virus in Differentiated THP-1 Cells. VIRUSES-BASEL, 11(11). doi:10.3390/v11111023DOI: 10.3390/v11111023
Aquatic Hemiptera in Southwest Cameroon: Biodiversity of Potential Reservoirs of <em>Mycobacterium ulcerans</em> and Multiple <em>Wolbachia</em> Sequence Types Revealed by Metagenomics (Preprint)
DOI: 10.20944/preprints201908.0031.v1
Sun, J., Dong, X., Cao, Q., Xu, T., Zhu, M., Sun, J., . . . Li, Z. (2019). A systematic comparison of eight new plastome sequences from <i>Ipomoea</i> L.. PeerJ, 7, e6563. doi:10.7717/peerj.6563DOI: 10.7717/peerj.6563
Esemu, S. N., Dong, X., Kfusi, A. J., Hartley, C. S., Ndip, R. N., Ndip, L. M., . . . Makepeace, B. L. (2019). Aquatic Hemiptera in Southwest Cameroon: Biodiversity of Potential Reservoirs of <i>Mycobacterium ulcerans</i> and Multiple <i>Wolbachia</i> Sequence Types Revealed by Metagenomics. DIVERSITY-BASEL, 11(12). doi:10.3390/d11120225DOI: 10.3390/d11120225
2018
Dong, X., Chaisiri, K., Xia, D., Armstrong, S. D., Fang, Y., Donnelly, M. J., . . . Makepeace, B. L. (2018). Genomes of trombidid mites reveal novel predicted allergens and laterally-transferred genes associated with secondary metabolism. GigaScience, 7(12), 33 pages. doi:10.1093/gigascience/giy127DOI: 10.1093/gigascience/giy127
Dong, X., Chaisiri, K., Xia, D., Armstrong, S., Fang, Y., Donnelly, M., . . . Makepeace, B. (2018). Genomes of trombidid mites reveal novel predicted allergens and laterally-transferred genes associated with secondary metabolism. doi:10.1101/259044DOI: 10.1101/259044
2017
Wu, Y., Dong, X., & Kadowaki, T. (2017). Characterization of the Copy Number and Variants of Deformed Wing Virus (DWV) in the Pairs of Honey Bee Pupa and Infesting <i>Varroa destructor</i> or <i>Tropilaelaps mercedesae</i>. FRONTIERS IN MICROBIOLOGY, 8. doi:10.3389/fmicb.2017.01558DOI: 10.3389/fmicb.2017.01558
Dong, X., Armstrong, S., Xia, D., Makepeace, B., Darby, A. C., & Kadowaki, T. (2017). Draft genome of the honey bee ectoparasitic mite, Tropilaelaps mercedesae, is shaped by the parasitic life history. GigaScience, 6(3). doi:10.1093/gigascience/gix008DOI: 10.1093/gigascience/gix008
GENOMES OF TROMBIDIOID MITES UNCOVER ADAPTATIONS TO PARASITISM IN THE SCRUB TYPHUS VECTOR, <i>LEPTOTROMBIDIUM DELIENSE</i> (Conference Paper)
Dong, X., Chaisiri, K., Donnelly, M. J., McGarry, J. W., Kadowaki, T., Darby, A. C., & Makepeace, B. L. (2017). GENOMES OF TROMBIDIOID MITES UNCOVER ADAPTATIONS TO PARASITISM IN THE SCRUB TYPHUS VECTOR, <i>LEPTOTROMBIDIUM DELIENSE</i>. In AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE Vol. 97 (pp. 5). Retrieved from https://www.webofscience.com/
2016
Peng, G., Kashio, M., Li, T., Dong, X., Tominaga, M., & Kadowaki, T. (2016). TRPA1 Channels in <i>Drosophila</i> and Honey Bee Ectoparasitic Mites Share Heat Sensitivity and Temperature-Related Physiological Functions. FRONTIERS IN PHYSIOLOGY, 7. doi:10.3389/fphys.2016.00447DOI: 10.3389/fphys.2016.00447
Dong, X., Kashio, M., Peng, G., Wang, X., Tominaga, M., & Kadowaki, T. (2016). Isoform-specific modulation of the chemical sensitivity of conserved TRPA1 channel in the major honeybee ectoparasitic mite, <i>Tropilaelaps mercedesae</i>. OPEN BIOLOGY, 6(6). doi:10.1098/rsob.160042DOI: 10.1098/rsob.160042
Undated
Dong, X. (n.d.). Molecular ecological characterization of a honey bee ectoparasitic mite,Tropilaelaps mercedesae.. (PhD Thesis, University of Liverpool).
