Spotlight
Preprints.
1. Sampling and domestication, but not wildlife trade, drive zoonotic viral richness in mammals: response to Shivaprakash et al. CJ Carlson et al. Available from Github from July 16, 2021.
2. NCBITaxonomy.jl - rapid biological names finding and reconciliation. T Poisot, R Gibb, SJ Ryan, CJ Carlson. First posted October 22, 2021.
3. Predicting the tripartite network of mosquito-borne disease. T Dallas, SJ Ryan, B Bellekom, A Fagre, R Christofferson, CJ Carlson. First posted November 18, 2021.
4. Viral diversity and zoonotic risk in endangered species. K Nikc et al. First posted June 29, 2021.
5. Ecological and evolutionary characteristics of anthropogenic roosting ability in bats of the world. BA Betke et al. First posted October 18, 2023.
6. Ticks without borders: Microbial communities of immature Neotropical tick species parasitizing migratory landbirds along northern Gulf of Mexico. Karim et al. First posted October 24, 2023.
7. Viral genomic features predict orthopoxvirus reservoir hosts. KK Tseng et al. First posted October 28, 2023.
8. A general framework for modeling pathogen transmission in co-roosting host communities. MC Simonis, DJ Becker. First posted November 22, 2023.
9. The role of anthropogenic roosting ecology in shaping viral outcomes in bats. BA Betke et al. First posted December 13, 2023.
10. Human movement and transmission dynamics early in Ebola outbreaks. A Gonzalez et al. First posted December 19, 2023.
11. Ten simple rules to build a Model Life Cycle. T Poisot et al. First posted February 9, 2023.
Publications.
1. From PREDICT to prevention, one pandemic later. CJ Carlson. (2020) The Lancet Microbe.
2. Predicting the global mammalian viral sharing network using phylogeography. GF Albery, EA Eskew, N Ross, KJ Olival. (2020) Nature Communications.
3. Overselling wildlife trade bans will not bolster conservation or pandemic preparedness. EA Eskew, CJ Carlson. (2020) The Lancet Planetary Health.
4. Beyond infection: integrating competence into reservoir host prediction. DJ Becker, SN Seifert, CJ Carlson. (2020) Trends in Ecology & Evolution.
5. Fast-lived hosts and zoonotic risk. GF Albery, DJ Becker. (2020) Trends in Parasitology.
6. Towards a coordinated strategy for intercepting human disease emergence in Africa. KM Forbes et al. (2021) The Lancet Microbe.
7. Taxonomic resolution affects host-parasite association model performance. TA Dallas, DJ Becker. (2021) Parasitology.
8. Preparing international cooperation on pandemic prevention for the Anthropocene. CJ Carlson, GF Albery, AL Phelan. (2021) BMJ Global Health.
9. Species-area and network-area relationships in host–helminth interactions. TA Dallas, P Jordano. (2021) Proceedings of the Royal Society B.
10. Trends and opportunities in tick-borne disease geography. CA Lippi, SJ Ryan, AL White, HD Gaff, CJ Carlson. (2021) Journal of Medical Entomology.
11. Data proliferation, reconciliation, and synthesis in viral ecology. R Gibb et al. (2021) BioScience.
12. The future of zoonotic risk prediction. CJ Carlson et al. (2021) Philosophical Transactions of the Royal Society B.
13. A primer on predicting species interaction networks (across space and time). T Strydom et al. (2021) Philosophical Transactions of the Royal Society B.
14. Synzootics. AR Sweeny, GF Albery, DJ Becker, EA Eskew, CJ Carlson. (2021) Journal of Animal Ecology.
15. The science of the host-virus network. GF Albery et al. (2021) Nature Microbiology.
16. Mammal virus diversity estimates are unstable due to accelerating discovery effort. R Gibb et al. (2022) Biology Letters.
17. Optimizing predictive models to prioritize viral discovery in zoonotic reservoirs. DJ Becker, GF Albery et al. (2022) The Lancet Microbe.
18. The Global Virome in One Network (VIRION): an atlas of vertebrate-virus associations. CJ Carlson et al. (2022) mBio.
19. Assessing the risk of human-to-wildlife pathogen transmission for conservation and public health. AC Fagre et al. (2022) Ecology Letters.
20. Virus isolation data improve host predictions for New World rodent orthohantaviruses. N Mull, CJ Carlson, KM Forbes, DJ Becker. (2022) Journal of Animal Ecology.
21. Climate change increases cross-species viral transmission risk. CJ Carlson, GF Albery et al. (2022) Nature.
22. Urban-adapted mammal species have more known pathogens. GF Albery et al. (2022) Nature Ecology and Evolution.
23. Present and future distribution of bat hosts of sarbecoviruses: implications for conservation and public health. R Muylaert et al. (2022) Proceedings B.
24 Glycosylation and the global virome. CL Pegg, BL Schulz, BA Neely, GF Albery, CJ Carlson. (2022) Molecular Ecology.
25. A minimum data standard for vector competence experiments. (2022) Scientific Data.
26. insectDisease: programmatic access to the Ecological Database of the World’s Insect Pathogens. TA Dallas, CJ Carlson, PR Stephens, SJ Ryan, DW Onstad. (2022) Ecography.
27. Characterizing the vector data ecosystem. C Lippi, S Rund, SJ Ryan. (2023) Journal of Medical Entomology.
28. Host phylogeny and ecological associations best explain Wolbachia host shifts in scale insects. E Sanaei et al. (2023) Molecular Ecology.
29. Coupling field and laboratory studies of immunity and infection in zoonotic hosts. D Becker, A Banerjee. (2023) The Lancet Microbe.
30. Guidelines for the validation of machine learning predictions of species interactions. T Poisot. (2023) Methods in Ecology & Evolution.
31. Are animal disease reservoirs at risk of human antiviral exposure? EJ Rosi et al. (2023) Environmental Science & Technology Letters.
32 Exploring the mosquito-arbovirus network: a survey of vector competence experiments. B Chen et al. (2023) American Journal of Tropical Medicine and Hygiene.
33. Scanning barcodes: A way to explore viral populations. EA Fitzmeyer, EN Gallichotte, GD Ebel. (2023) PLOS Pathogens.
34. Network embedding unveils the hidden interactions in the mammalian virome. T Poisot, M-A Ouellet et al. (2023) Patterns.
35. Coronavirus sampling and surveillance in bats from 1996-2019: a systematic review and meta-analysis. LE Cohen, AC Fagre, B Chen, CJ Carlson, DJ Becker. (2023) Nature Microbiology.
36. Ecological drivers of sustained enzootic yellow fever virus transmission in Brazil, 2017-2021. Silva et al. (2023) PLOS Neglected Tropical Diseases.
37. Functional traits explain waterbirds' host status, subtype richness, and community-level infection risk for avian influenza. S Yin et al. (2023) Ecology Letters.
38. Trends in mosquito species distribution modelling: insights for vector surveillance and disease control. C Lippi et al. (2023) Parasites & Vectors.
39. Host functional traits as the nexus for multilevel infection patterns. (2023) Z Huang et al. Trends in Ecology & Evolution.
40. Long-read sequencing reveals rapid evolution of immunity- and cancer-related genes in bats. A Scheben et al. (2023) Genome Biology and Evolution.
41. Expanded diversity of novel hemoplasmas in rare and undersampled Neotropical bats. D Volokhov et al. (2023) One Health.
42. A systematic review of the data, methods and environmental covariates used to map Aedes-borne arbovirus transmission risk. A-Y Lim et al. (2023) BMC Infectious Diseases.
43. Serum proteomics reveals a tolerant immune phenotype across multiple pathogen taxa in wild vampire bats. A Vicente-Santos et al. (2023) Frontiers in Immunology.
44. A meta-analysis exploring associations between habitat degradation and Neotropical bat virus prevalence and seroprevalence. AM Heckley, LR Lock, DJ Becker. (2023) Ecography.
45. The coevolutionary mosaic of bat betacoronavirus emergence risk. NR Forero Muñoz et al. (2024) Virus Evolution.
Posters.
BA Betke et al. Anthropogenic roosting and virus richness in bats. Ecological Society of America Annual Meeting (August 18, 2022 - Montreal, Canada)
L Holian, CJ Carlson, TA Dallas. Richness and compositional dissimilarity of helminth and viral communities across mammal hosts. Ecology & Evolution of Infectious Diseases (June 8, 2022 - Atlanta, GA, USA)
KK Tseng et al. Predicting reservoirs of orthopoxviruses: trait-based modeling for targeted viral surveillance. Ecology & Evolution of Infectious Diseases (June 8, 2022 - Atlanta, GA, USA)
EN Gallichotte, G Ebel. Building COMET - Vector Competence Experimental Testing: a database for meta-analyses of vector competence. Rocky Mountain Virology Club (September 30, 2023 - CSU Mountain Campus, CO, USA)
A Roistacher, CA Cummings, KE Dyer, DJ Becker. Novel insights into migration, the global bat virome, and zoonotic risk. North American Society for Bat Research Annual Conference (October 12, 2023 - Winnipeg, Canada)
AR Sweeny et al. Synzootics: The impacts of co-infection on emerging disease dynamics. Jacques Monod Conference (October 19, 2023 - CNRS, Roscoff, France)
KA Williams et al. Impact of temperature on replication, dissemination, and transmission of yellow fever 17D vaccine in Aedes aegypti. American Society of Tropical Medicine and Hygiene (October 20, 2023 - Chicago, United States)
Software.
bestinbloom. An R package exclusively for chaotic Yan and Henck outfit palettes.
insectDisease. An R package to access the Ecological Database of the World’s Insect Pathogens.
NCBITaxonomy.jl. A Julia package to interact with the NCBI taxonomy backbone.