Castle, K. | bioRxiv Science

bioRxiv2026

Detection of diverse coronaviruses, paramyxoviruses, and rhabdoviruses from cave-dwelling bats in Eastern Uganda

Bats harbor a diversity of viruses, some of which have the potential to impact human and livestock health. Caves in Eastern Uganda are commonly inhabited by bats in the genera Rhinolophus, Hipposideros, Myonycteris, and others. Human encroachment into these caves for shelter, hunting, mineral harvesting, and tourism poses a risk of exposure to infectious agents these bats may carry, yet little is known about the viruses present in these bats. From 2021 - 2023, 635 unique bats were captured in caves by mist net, with 69 bats resampled over the study for a total of 706 sampling instances. A total of 1,394 oral and rectal swabs were collected non-destructively and screened using molecular techniques for coronaviruses, paramyxoviruses, rhabdoviruses, flaviviruses, and filoviruses. Of these samples, 399 (56.5%) were collected during the rainy season and 307 (43.5%) during the dry season. Coronavirus RNA was detected in 59/706 (8.36%) of samples from Rhinolophus spp. (n = 35), Hipposideros caffer (n = 12), Myonycteris angolensis (n = 6), and Miniopterus spp. (n = 6). Six bats (0.85%) were positive for paramyxoviruses. Finally, (3 H. caffer, 1 M. angolensis, 1 Rhinolophus spp. and 1 Nycteris thebaica) 3 Rhinolophus bats were positive for rhabdoviruses (0.42%, all Rhinolophus spp.). No samples were positive for filovirus or flavivirus RNA. This project has generated novel data on the association of bat species and different viral strains present in these bats, advancing our knowledge of viral ecology and spillover risk at the human/bat interface.

genomics↗

bioRxiv2025

Prevalence of the parasitic copepod, Sarcotaces sp., infection in British Columbia rockfishes (Sebastes sp.) and implications for rockfish life-history

Marine fishes often suffer detrimental effects of parasitism, which can affect multiple life-history traits, such as maturity, growth, fecundity, and mortality. Rockfishes (genus Sebastes), in the northeast Pacific Ocean, are commonly parasitized by copepods in the genus Sarcotaces. These copepods form large cysts within the body cavity, or in the musculature of individuals. There is a lack of baseline data on the prevalence of Sarcotaces sp. infection and the effect of infection on rockfish health and life-history. Here, we present data on Sarcotaces sp. infection in 23 rockfish species (including two thornyhead species, genus Sebastolobus) that includes over 37,000 individual records collected on Fisheries and Oceans Canadas (Pacific Region) groundfish research surveys. Sarcotaces sp. were found in all geographic areas covered by the surveys (the coastal waters of British Columbia), and at all depths fish were encountered. Infection rates in the various species ranged from 0% to 10%, and were highest for Pacific Ocean Perch (POP), Silvergray, Rougheye/Blackspotted Complex (REBS), Yellowmouth, and Yelloweye rockfishes. We found that Sarcotaces sp. infection shifted the length-at-maturity ogive, with infected individuals maturing at larger sizes--particularly for males, who exhibited a 22.3 mm increase (95% CrI [credible interval]: 5.5, 39.8) in length-at-maturity across species. For most species, this effect was greater in males than in females, and the effect was most pronounced in POP, Silvergray, and REBS rockfish. Moreover, we found that immature males were 2.5 times more likely to be infected than mature males (95% CrI: 1.3, 4.7) and immature females were 1.7 times more likely to be infected than mature females (95% CrI: 0.9, 3.0). While speculative, this is consistent with Sarcotaces sp. infection acting as a co-morbidity, possibly affecting fish health and the probability of perishing before reaching maturity. Body condition was largely unrelated to infection status; however, a slight increase ({approx} 5%) in condition was associated with infection in REBS, Yelloweye, and Yellowmouth rockfishes. To our knowledge, this is the first large-scale report on Sarcotaces sp. infection within rockfishes and on rockfish life-history traits. Future work is needed to elucidate how infection influences other life-history traits and, importantly, whether these changes affect key stock assessment parameters and, ultimately, catch advice provided to fisheries managers.

ecology↗