Publications
Selected publications
- Torix Rickettsia are widespread in arthropods and reflect a neglected symbiosis. (Journal article - 2021)
- Torix group Rickettsia are widespread in Culicoides biting midges (Diptera: Ceratopogonidae), reach high frequency and carry unique genomic features (Journal article - 2017)
- Comparative genomics of a novel <i>Erwinia</i> species associated with the Highland midge (<i>Culicoides impunctatus</i>). (Journal article - 2024)
- UK mosquitoes are competent to transmit Usutu virus at native temperatures (Journal article - 2024)
2025
Spatial distribution of Culex mosquitoes across England and Wales, July 2023
2024
UK mosquitoes are competent to transmit Usutu virus at native temperatures
Pilgrim, J., Metelmann, S., Widlake, E., Seechurn, N., Vaux, A., Mansfield, K. L., . . . Blagrove, M. S. C. (2024). UK mosquitoes are competent to transmit Usutu virus at native temperatures. One Health, 19, 100916. doi:10.1016/j.onehlt.2024.100916
Features that matter: Evolutionary signatures can predict viral transmission routes.
Wardeh, M., Pilgrim, J., Hui, M., Kotsiri, A., Baylis, M., & Blagrove, M. S. C. (2024). Features that matter: Evolutionary signatures can predict viral transmission routes.. PLoS pathogens, 20(10), e1012629. doi:10.1371/journal.ppat.1012629
Implementing portable, real-time 16S rRNA sequencing in the healthcare sector enhances antimicrobial stewardship
SARS-CoV-2 population dynamics in immunocompetent individuals in a closed transmission chain shows genomic diversity over the course of infection.
Goldswain, H., Penrice-Randal, R., Donovan-Banfield, I., Duffy, C. W., Dong, X., Randle, N., . . . Emmett, S. R. (2024). SARS-CoV-2 population dynamics in immunocompetent individuals in a closed transmission chain shows genomic diversity over the course of infection.. Genome medicine, 16(1), 89. doi:10.1186/s13073-024-01360-1
Emerging Variants of Canine Enteric Coronavirus Associated with Outbreaks of Gastroenteric Disease.
Cunningham-Oakes, E., Pilgrim, J., Darby, A. C., Appleton, C., Jewell, C., Rowlingson, B., . . . Radford, A. D. (2024). Emerging Variants of Canine Enteric Coronavirus Associated with Outbreaks of Gastroenteric Disease.. Emerging infectious diseases, 30(6), 1240-1244. doi:10.3201/eid3006.231184
Meta-analyses of<i>Culex</i>blood-meals indicates strong regional effect on feeding patterns
Comparative genomics of a novel <i>Erwinia</i> species associated with the Highland midge (<i>Culicoides impunctatus</i>).
Pilgrim, J. (2024). Comparative genomics of a novel <i>Erwinia</i> species associated with the Highland midge (<i>Culicoides impunctatus</i>).. Microbial genomics, 10(4). doi:10.1099/mgen.0.001242
2023
Features that matter: evolutionary signatures that predict viral transmission routes
2022
The opportunities of research parasitism: A case study using the Barcode of Life Data System (BOLD).
Pilgrim, J. (2022). The opportunities of research parasitism: A case study using the Barcode of Life Data System (BOLD).. GigaScience, 11, giac123. doi:10.1093/gigascience/giac123
Characterisation of SARS-CoV-2 genomic variation in response to molnupiravir treatment in the AGILE Phase IIa clinical trial
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/s41467-022-34839-9
Genomic diversity across the Rickettsia and 'Candidatus Megaira' genera and proposal of genus status for the Torix group
Davison, H. R., Pilgrim, J., Wybouw, N., Parker, J., Pirro, S., Hunter-Barnett, S., . . . Siozios, S. (2022). Genomic diversity across the Rickettsia and 'Candidatus Megaira' genera and proposal of genus status for the Torix group. NATURE COMMUNICATIONS, 13(1). doi:10.1038/s41467-022-30385-6
2021
Identifying potential candidate <i>Culicoides</i> spp. for the study of interactions with <i>Candidatus</i> Cardinium hertigii
Pilgrim, J., Siozios, S., Baylis, M., Venter, G., Garros, C., & Hurst, G. D. D. (2021). Identifying potential candidate <i>Culicoides</i> spp. for the study of interactions with <i>Candidatus</i> Cardinium hertigii. MEDICAL AND VETERINARY ENTOMOLOGY, 35(3), 501-506. doi:10.1111/mve.12517
Torix Rickettsia are widespread in arthropods and reflect a neglected symbiosis.
Pilgrim, J., Thongprem, P., Davison, H. R., Siozios, S., Baylis, M., Zakharov, E. V., . . . Hurst, G. D. D. (2021). Torix Rickettsia are widespread in arthropods and reflect a neglected symbiosis.. GigaScience, 10(3). doi:10.1093/gigascience/giab021
<i>Cardinium</i> symbiosis as a potential confounder of mtDNA based phylogeographic inference in <i>Culicoides imicola</i> (Diptera: Ceratopogonidae), a vector of veterinary viruses
Pilgrim, J., Siozios, S., Baylis, M., Venter, G., Garros, C., & Hurst, G. D. D. (2021). <i>Cardinium</i> symbiosis as a potential confounder of mtDNA based phylogeographic inference in <i>Culicoides imicola</i> (Diptera: Ceratopogonidae), a vector of veterinary viruses. PARASITES & VECTORS, 14(1). doi:10.1186/s13071-020-04568-3
Critical realism as a continuing resource for biological research: the illustrative case study of biting midges and their symbiotic bacteria
Pilgrim, J., & Pilgrim, D. (2021). Critical realism as a continuing resource for biological research: the illustrative case study of biting midges and their symbiotic bacteria. Journal of Critical Realism, 1-17. doi:10.1080/14767430.2021.1877490
2020
The Tissue Tropisms and Transstadial Transmission of a Rickettsia Endosymbiont in the Highland Midge, Culicoides impunctatus (Diptera: Ceratopogonidae).
Pilgrim, J., Siozios, S., Baylis, M., & Hurst, G. D. D. (2020). The Tissue Tropisms and Transstadial Transmission of a Rickettsia Endosymbiont in the Highland Midge, Culicoides impunctatus (Diptera: Ceratopogonidae).. Applied and Environmental Microbiology. doi:10.1128/aem.01492-20
2019
The draft genome of strain cCpun from biting midges establishes Cardinium as a paraphyletic group, and reveals a novel gene family expansion in a symbiont
Siozios, S., Pilgrim, J., Darby, A. C., Baylis, M., & Hurst, G. D. D. (2019). The draft genome of strain cCpun from biting midges establishes Cardinium as a paraphyletic group, and reveals a novel gene family expansion in a symbiont. PeerJ. doi:10.7287/peerj.preprints.27242v1
The draft genome of strain <i>c</i>Cpun from biting midges confirms insect <i>Cardinium</i> are not a monophyletic group and reveals a novel gene family expansion in a symbiont
Siozios, S., Pilgrim, J., Darby, A. C., Baylis, M., & Hurst, G. D. D. (2019). The draft genome of strain <i>c</i>Cpun from biting midges confirms insect <i>Cardinium</i> are not a monophyletic group and reveals a novel gene family expansion in a symbiont. PEERJ, 7. doi:10.7717/peerj.6448
2017
Torix group Rickettsia are widespread in Culicoides biting midges (Diptera: Ceratopogonidae), reach high frequency and carry unique genomic features
Pilgrim, J., Ander, M., Garros, C., Baylis, M., Hurst, G. D. D., & Siozios, S. (2017). Torix group Rickettsia are widespread in Culicoides biting midges (Diptera: Ceratopogonidae), reach high frequency and carry unique genomic features. Environmental Microbiology, 19(10), 4238-4255. doi:10.1111/1462-2920.13887
2013
Creature comforts: personal communities, pets and the work of managing a long-term condition.
Brooks, H. L., Rogers, A., Kapadia, D., Pilgrim, J., Reeves, D., & Vassilev, I. (2013). Creature comforts: personal communities, pets and the work of managing a long-term condition.. Chronic illness, 9(2), 87-102. doi:10.1177/1742395312452620