Biology subjects
Publications and source records attributed to Isla, J..
We found SARS-CoV-2 RNA in 6 of 71 ferrets (8.4%) and isolated the virus from one rectal swab. Natural SARS-CoV-2 infection does occur in kept ferrets, at least under circumstances of high viral circulation in the human population. However, small ferret collections are probably unable to maintain prolonged virus circulation.
O_LIThe partition of the ecological niche can enhance the coexistence of predators due to differences in how they exploit three main resources: food, space, and time, the latter being an axis that often remains unexplored. C_LIO_LIWe studied niche segregation in a Mediterranean mesocarnivore community composed by Vulpes vulpes, Genetta genetta, Meles meles and Herpestes ichneumon, addressing simultaneously different niche axes: the temporal, trophic and spatial axes. C_LIO_LIWe assessed temporal segregation between mesopredators and prey and between potential competitors, using camera trap data between 2018-2020 in a Mediterranean landscape in Southern Spain. We deployed camera traps in 35 stations in three sites with varying vegetation cover within Donana National Park. We further examined the spatial overlap in activity centers and trophic preferences between potential competitors using diet information from studies performed in the study area. C_LIO_LIWe found an overall temporal segregation between trophic generalist species, with species showing higher temporal overlap differing in their trophic preferences and/or showing limited spatial overlap. Furthermore, we observed an overall high overlap between the activity patterns of predators and their major prey in the area (the common genet vs small mammals and the red fox vs European rabbit). C_LIO_LIOur study suggests that coexistence of the different species that compose the mesocarnivore assemblage in Mediterranean landscapes can be facilitated by subtle differences along the three main niche axes, with temporal segregation being a most pronounced mechanism. Our findings reinforce the idea that the coexistence mechanisms underlying community structure are multidimensional. C_LI
Ants are important pest control agents in many agroecosystems worldwide. However, little is known about how management, ecological contrast generated by different agricultural practices, and landscape complexity affect their communities and the potential pest control that they can provide. Here, we surveyed ant communities in 40 paired olive groves with different ground-herb cover management across 20 localities spanning a wide range of landscape complexity at the regional scale. We also conducted experiments with dummy plasticine models in 18 of these groves to explore the ant potential to control the two main pests of the olive tree (olive moth and olive fly). In addition, we calculated an index, the Ant-community Predation Function (APF), which informs about the predation pressure exerted by ant communities over these pests. Results show that: a) extensive management at intermediate landscape complexity maximizes the abundance and pest control by ants; b) the ecological contrast affects ant abundance and ant richness but does not impact the predation function; c) APF is a good measure of pest control potential at the community level; and, d) Tapinoma nigerrimum is an important ant species for pest control in our system, which seems little affected by local or landscape heterogeneity. This study advances our knowledge about local management and landscape effects on ants and their potential contribution to pest control in olive groves. Extensive herb cover management and landscape heterogeneity increased ant predation pressure in olive groves.
Human Phenotype Ontology (HPO) terms are increasingly used in diagnostic settings to aid in the characterization of patient phenotypes. The HPO annotation database is updated frequently and can provide detailed phenotype knowledge on various human diseases, and many HPO terms are now mapped to candidate causal genes with binary relationships. To further improve the genetic diagnosis of rare diseases, we incorporated these HPO annotations, gene-disease databases, and gene-gene databases in a probabilistic model to build a novel HPO-driven gene prioritization tool, Phen2Gene. Phen2Gene accesses a database built upon this information called the HPO2Gene Knowledgebase (H2GKB), which provides weighted and ranked gene lists for every HPO term. Phen2Gene is then able to access the H2GKB for patient-specific lists of HPO terms or PhenoPackets descriptions supported by GA4GH (http://phenopackets.org/), calculate a prioritized gene list based on a probabilistic model, and output gene-disease relationships with great accuracy. Phen2Gene outperforms existing gene prioritization tools in speed, and acts as a real-time phenotype driven gene prioritization tool to aid the clinical diagnosis of rare undiagnosed diseases. In addition to a command line tool released under the MIT license (https://github.com/WGLab/Phen2Gene), we also developed a web server and web service (https://phen2gene.wglab.org/) for running the tool via web interface or RESTful API queries. Finally, we have curated a large amount of benchmarking data for phenotype-to-gene tools involving 197 patients across 76 scientific articles and 85 patients de-identified HPO term data from CHOP.