Apathogenic proxies for transmission dynamics of a fatal virus.

Identifying drivers of transmission-especially of emerging pathogens-is a formidable challenge for proactive disease management efforts. While close social interactions can be associated with microbial sharing between individuals, and thereby imply dynamics important for transmission, such associations can be obscured by the influences of factors such as shared diets or environments. Directly-transmitted viral agents, specifically those that are rapidly evolving such as many RNA viruses, can allow for high-resolution inference of transmission, and therefore hold promise for elucidating not only which individuals transmit to each other, but also drivers of those transmission events. Here, we tested a novel approach in the Florida panther, which is affected by several directly-transmitted feline retroviruses. We first inferred the transmission network for an apathogenic, directly-transmitted retrovirus, feline immunodeficiency virus (FIV), and then used exponential random graph models to determine drivers structuring this network. We then evaluated the utility of these drivers in predicting transmission of the analogously transmitted, pathogenic agent, feline leukemia virus (FeLV), and compared FIV-based predictions of outbreak dynamics against empirical FeLV outbreak data. FIV transmission was primarily driven by panther age class and distances between panther home range centroids. FIV-based modeling predicted FeLV dynamics similarly to common modeling approaches, but with evidence that FIV-based predictions captured the spatial structuring of the observed FeLV outbreak. While FIV-based predictions of FeLV transmission performed only marginally better than standard approaches, our results highlight the value of proactively identifying drivers of transmission-even based on analogously-transmitted, apathogenic agents-in order to predict transmission of emerging infectious agents. The identification of underlying drivers of transmission, such as through our workflow here, therefore holds promise for improving predictions of pathogen transmission in novel host populations, and could provide new strategies for proactive pathogen management in human and animal systems.

Noise and landscape features influence habitat use of mammalian herbivores in a natural gas field.

Anthropogenic noise is a complex disturbance known to elicit a variety of responses in wild animals. Most studies examining the effects of noise on wildlife focus on vocal species, although theory suggests that the acoustic environment influences non-vocal species as well. Common mammalian prey species, like mule deer and hares and rabbits (members of the family Leporidae), rely on acoustic cues for information regarding predation, but the impacts of noise on their behaviour has received little attention. We paired acoustic recorders with camera traps to explore how average daily levels of anthropogenic noise from natural gas activity impacted occupancy and detection of mammalian herbivores in an energy field in the production phase of development. We consider the effects of noise in the context of several physical landscape variables associated with natural gas infrastructure that are known to influence habitat use patterns in mule deer. Our results suggest that mule deer detection probability was influenced by the interaction between physical landscape features and anthropogenic noise, with noise strongly reducing habitat use. In contrast, leporid habitat use was not related to noise but was influenced by landscape features. Notably, mule deer showed a stronger predicted negative response to roads with high noise exposure. This study highlights the complex interactions of anthropogenic disturbance and wildlife distribution and presents important evidence that the effects of anthropogenic noise should be considered in research focused on non-vocal specialist species and management plans for mule deer and other large ungulates.

El ruido de origen antropogénico es una perturbación compleja que provoca una variedad de respuestas en la fauna silvestre. La mayoría de los estudios que examina los efectos del ruido en fauna silvestre se enfoca en especies que se comunican con vocalizaciones, sin embargo, la teoría sugiere que el ambiente acústico es también un recurso clave para especies no-vocales. Especies de mamíferos comunes como el venado bura, liebres y conejos (miembros de la familia Leporidae), dependen de señales acústicas para detectar depredadores, pero los impactos del ruido en el comportamiento de estas especies han recibido poca atención de los investigadores. Usando grabadoras y cámaras trampa en conjunto, exploramos como los niveles diarios de ruido antropogénico generados por la extracción de gas natural impactaron la ocupación y detección de mamíferos herbívoros en un campo de extracción de energía en la fase de producción de desarrollo. Consideramos los efectos del ruido en el contexto de varias variables físicas del paisaje asociadas con la infraestructura del gas natural, que sabemos, influencian los patrones de uso de hábitat del venado bura. Nuestros resultados sugieren que la probabilidad de detección del venado bura fue influenciada por la interacción de las características físicas del paisaje y el ruido antropogénico, este último reduciendo de manera importante el uso de hábitat. En contraste, el uso de hábitat de lepóridos no se relacionó con ruido, pero fue influenciado por variables del paisaje. Notablemente, el venado bura mostro una predicción de respuesta fuerte a los caminos con niveles altos de ruido. Este estudio señala las complejas interacciones entre perturbaciones antropogénicas y la distribución de fauna silvestre. También presentamos evidencia importante que señala que los efectos del ruido antropogénico deben ser considerados en investigaciones enfocadas en especies especialistas no-vocales y planes de manejo para el venado bura y otros ungulados grandes.

Diagnostic Uncertainty and the Epidemiology of Feline Foamy Virus in Pumas (Puma concolor).

Feline foamy virus (FFV) is a contact-dependent retrovirus forming chronic, largely apathogenic, infections in domestic and wild felid populations worldwide. Given there is no current 'gold standard' diagnostic test for FFV, efforts to elucidate the ecology and epidemiology of the virus may be complicated by unknown sensitivity and specificity of diagnostic tests. Using Bayesian Latent Class Analysis, we estimated the sensitivity and specificity of the only two FFV diagnostic tests available-ELISA and qPCR-as well as the prevalence of FFV in a large cohort of pumas from Colorado. We evaluated the diagnostic agreement of ELISA and qPCR, and whether differences in their diagnostic accuracy impacted risk factor analyses for FFV infection. Our results suggest ELISA and qPCR did not have strong diagnostic agreement, despite FFV causing a persistent infection. While both tests had similar sensitivity, ELISA had higher specificity. ELISA, but not qPCR, identified age to be a significant risk factor, whereas neither qPCR nor ELISA identified sex to be a risk factor. This suggests FFV transmission in pumas may primarily be via non-antagonistic, social interactions between adult conspecifics. Our study highlights that combined use of qPCR and ELISA for FFV may enhance estimates of the true prevalence of FFV and epidemiological inferences.

Novel gammaherpesviruses in North American domestic cats, bobcats, and pumas: identification, prevalence, and risk factors.

UNLABELLED: Gammaherpesviruses (GHVs) are a diverse and rapidly expanding group of viruses associated with a variety of disease conditions in humans and animals. To identify felid GHVs, we screened domestic cat (Felis catus), bobcat (Lynx rufus), and puma (Puma concolor) blood cell DNA samples from California, Colorado, and Florida using a degenerate pan-GHV PCR. Additional pan-GHV and long-distance PCRs were used to sequence a contiguous 3.4-kb region of each putative virus species, including partial glycoprotein B and DNA polymerase genes. We identified three novel GHVs, each present predominantly in one felid species: Felis catus GHV 1 (FcaGHV1) in domestic cats, Lynx rufus GHV 1 (LruGHV1) in bobcats, and Puma concolor GHV 1 (PcoGHV1) in pumas. To estimate infection prevalence, we developed real-time quantitative PCR assays for each virus and screened additional DNA samples from all three species (n = 282). FcaGHV1 was detected in 16% of domestic cats across all study sites. LruGHV1 was detected in 47% of bobcats and 13% of pumas across all study sites, suggesting relatively common interspecific transmission. PcoGHV1 was detected in 6% of pumas, all from a specific region of Southern California. The risk of infection for each host varied with geographic location. Age was a positive risk factor for bobcat LruGHV1 infection, and age and being male were risk factors for domestic cat FcaGHV1 infection. Further characterization of these viruses may have significant health implications for domestic cats and may aid studies of free-ranging felid ecology. IMPORTANCE: Gammaherpesviruses (GHVs) establish lifelong infection in many animal species and can cause cancer and other diseases in humans and animals. In this study, we identified the DNA sequences of three GHVs present in the blood of domestic cats (Felis catus), bobcats (Lynx rufus), and pumas (Puma concolor; also known as mountain lions, cougars, and panthers). We found that these viruses were closely related to, but distinct from, other known GHVs of animals and represent the first GHVs identified to be native to these feline species. We developed techniques to rapidly and specifically detect the DNA of these viruses in feline blood and found that the domestic cat and bobcat viruses were widespread across the United States. In contrast, puma virus was found only in a specific region of Southern California. Surprisingly, the bobcat virus was also detected in some pumas, suggesting relatively common virus transmission between these species. Adult domestic cats and bobcats were at greater risk for infection than juveniles. Male domestic cats were at greater risk for infection than females. This study identifies three new viruses that are widespread in three feline species, indicates risk factors for infection that may relate to the route of infection, and demonstrates cross-species transmission between bobcats and pumas. These newly identified viruses may have important effects on feline health and ecology.