Author

J. Raghwani

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Evolutionary Biology· 6 Ecology· 2 Microbiology· 2

Signature Assays, Organisms & Methods

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Approach:statistical model· 8 Research Focus:host-pathogen & immune response· 5 Organism:virus· 4 Assay:whole-genome sequencing· 3 Research Focus:chromatin & epigenetic regulation· 2 Approach:experimental assay· 2 Organism:human· 2 Assay:metagenomics· 2

Frequent Co-Authors

O. G. Pybus· 4 shared S. C. Hill· 3 shared K. Lythgoe· 2 shared S. Francois· 2 shared T. A. Bowden· 2 shared A. B. Ward· 1 shared A. C. Banyard· 1 shared A. Lundkvist· 1 shared

Activity by Year

2017-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 10 mutual co-author links

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4 shared papersEvolutionary Biology

O. G. Pybus

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Author profile →

10 papers

Recent·Most cited

Utilising citizen science data to rapidly assess potential wild bridging hosts and reservoirs of infection: avian influenza outbreaks in Great Britain

S. H. Vickers, J. Raghwani, A. C. Banyard, I. H. Brown, G. Fournie, S. C. Hill

The paper uses citizen science data to identify wild bird species associated with HPAIV outbreaks in poultry, showing the value of such data for rapid disease surveillance.

bioRxiv · Mar 28, 2024 · PreprintEcology

Association of poultry vaccination with the interspecies transmission and molecular evolution of H5 subtype avian influenza virus

B. Li, J. Raghwani, S. C. Hill, S. Francois, N. Lefrancq, Y. Liang, Z. Wang, L. Dong, P. Lemey, O. G. Pybus, H. Tian

This study examines how poultry vaccination affects H5 avian influenza virus transmission and evolution, finding increased nonsynonymous divergence in vaccinated poultry lineages.

bioRxiv · Dec 20, 2023Evolutionary Biology

Discovery of a novel coronavirus in Swedish bank voles (Myodes glareolus)

A. Wasberg, J. Raghwani, J. Li, J. H.- O. Pettersson, J. Lindahl, A. Lundkvist, J. Ling

The paper identifies a novel coronavirus in Swedish bank voles, showing repeated detection and phylogenetic placement in a divergent Embecovirus lineage.

bioRxiv · Feb 24, 2022Microbiology

Seasonal dynamics of the wild rodent faecal virome

J. Raghwani, C. L. Faust, S. Francois, D. Nguyen, K. Marsh, A. Raulo, S. C. Hill, K. V. Parag, P. Simmonds, S. C. L. Knowles, O. G. Pybus

This study examines seasonal changes in the virome of wild rodents, finding that many viruses are seasonally transient and linked to host and environmental factors.

bioRxiv · Feb 9, 2022Ecology

Limited evolution despite years of measurable viremia in a cART-treated seronegative HIV-1 positive individual

H. R. Fryer, J. Raghwani, M. J. Gill, G. van Marle, T. Golubchi, J. Grove, K. Lythgoe

The paper analyzes viral evolution in an HIV-1 infected individual on cART who lacked detectable antibodies, finding limited viral evolution despite prolonged viremia.

bioRxiv · Feb 20, 2020 · PreprintEvolutionary Biology

Vulnerabilities in coronavirus glycan shields despite extensive glycosylation

Y. Watanabe, Z. T. Berndsen, J. Raghwani, G. E. Seabright, J. D. Allen, J. S. McLellan, I. A. Wilson, T. A. Bowden, A. B. Ward, M. Crispin

This study identifies vulnerabilities in coronavirus glycan shields by showing that MERS S protein has under-processed oligomannose-type glycan clusters, unlike SARS and HKU1 CoVs, and that these glycans do not form an effective shield against antibodies.

bioRxiv · Feb 20, 2020Microbiology

A de novo approach to inferring within-host fitness effects during untreated HIV-1 infection

C. Illingworth, J. Raghwani, D. Serwadda, N. K. Sewankambo, M. Robb, M. Eller, A. Redd, T. Quinn, K. Lythgoe

This study uses a novel multi-locus method to infer selection effects on HIV-1 variants in untreated patients, finding a broad distribution of beneficial fitness effects with many variants under weak selection.

bioRxiv · Nov 6, 2019Evolutionary Biology

High resolution evolutionary analysis of within-host hepatitis C virus infection

J. Raghwani, C.-H. Wu, C. K. Ho, M. de Jong, R. Molenkamp, J. Schinkel, O. G. Pybus, K. A. Lythgoe

This study analyzes within-host HCV evolution in HIV-coinfected individuals, finding population structure, regional variation in mutation rates, and a low recombination rate.

bioRxiv · Aug 28, 2018Evolutionary Biology

Selection on non-antigenic gene segments of seasonal influenza A virus and its impact on adaptive evolution

J. Raghwani, R. Thompson, K. Koelle

This study develops a population genetic model to show that selection on non-antigenic gene segments influences the adaptive evolution and lineage turnover of seasonal influenza A/H3N2 virus.

bioRxiv · Jul 21, 2017Evolutionary Biology

Molecular evolution, diversity and adaptation of H7N9 influenza A viruses in China

J. Lu, J. Raghwani, J. Wu, R. Pryce, T. A. Bowden, J. Theze, S. Huang, Y. Song, L. Zou, L. Liang, R. Bai, Y. Jin, P. Zhou, M. Kang, L. Yi, , C. Ke

The paper analyzes the evolution and adaptation of H7N9 influenza viruses in China, identifying lineage-specific mutations and high-pathogenicity strains.

bioRxiv · Jun 25, 2017Evolutionary Biology