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)
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