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Sevilla, C.

Publications and source records attributed to Sevilla, C..

3 recordsLinked to original sources

Why they move: breeding-site availability drives partial migration in a large terrestrial reptile

1. Migration is a widespread phenomenon across taxa, yet the ecological mechanisms underlying its evolution and maintenance, particularly whether migratory behaviors are primarily driven by access to spatially restricted breeding sites or by seasonal tracking of trophic resources, remain poorly documented outside birds and large mammals. Despite increasing evidence that reptiles perform seasonal migrations, the ecological mechanisms underlying these movements have rarely been formally tested. 2. The critically endangered Galapagos pink land iguana (Conolophus marthae), endemic to Wolf Volcano, Isabela Island, exhibits partial migration along a steep altitudinal gradient, providing an opportunity to disentangle the relative roles of breeding-site availability, trophic resource dynamics, and thermoregulatory conditions as drivers of migration. 3. We used GPS tracking data from 22 individuals (7 males, 15 females) monitored between 2019 and 2023, combined with high-resolution spatio-temporal models of vegetation productivity and air temperature across the species' altitudinal range, to characterize population-level movement patterns and evaluate competing hypotheses explaining the evolution of this migratory behavior. 4. Movement models revealed a clear pattern of partial migration: 16 out of 22 tracked individuals performed seasonal altitudinal movements between a restricted high-elevation mating area and a larger dispersal area at lower elevation, with males reaching the mating area approximately 48 days earlier than females. The dispersal area remained consistently more productive than the mating area throughout the year, rejecting the prediction that individuals should track the shifting trophic resource peaks. Instead, the mating season coincided with the local productivity peak within the mating area, whereas temperature differences between areas were small (ca. 2{degrees}C) and did not explain migration timing. 5. These results support a site-dependent hypothesis of partial migration over a resource-tracking hypothesis, indicating that access to spatially restricted breeding sites is the primary driver of migration in this species, with local trophic resource dynamics fine-tuning reproductive timing. Providing empirical evidence for the ecological mechanisms underlying migration in a large terrestrial reptile, our results extend site-dependent theories of migration beyond birds and mammals and identify breeding-site availability as a key ecological driver of migratory behaviors across taxa.

ecology↗

Pathway-based, reaction-specific annotation of disease variants for elucidation of molecular phenotypes

Disease variant annotation in the context of biological reactions and pathways can provide a standardized overview of molecular phenotypes of pathogenic mutations that is amenable to computational mining and mathematical modeling. Reactome, an open source, manually curated, peer-reviewed database of human biological pathways, provides annotations for over 4000 disease variants of close to 400 genes in the context of [~]800 disease reactions constituting [~]400 disease pathways. Functional annotation of disease variants proceeds from normal gene functions, through disease variants whose divergence from normal molecular behaviors has been experimentally verified, to extrapolation from molecular phenotypes of characterized variants to variants of unknown significance using criteria of the American College of Medical Genetics and Genomics (ACMG). Reactomes pathway-based, reaction-specific disease variant dataset and data model provide a platform to infer pathway output impacts of numerous human disease variants and model organism orthologs, complementing computational predictions of variant pathogenicity.

systems biology↗

Illuminating Dark Proteins using Reactome Pathways

Limited knowledge about a substantial portion of protein coding genes, known as "dark" proteins, hinders our understanding of their functions and potential therapeutic applications. To address this, we leveraged Reactome, the most comprehensive, open source, open-access pathway knowledgebase, to contextualize dark proteins within biological pathways. By integrating multiple resources and employing a random forest classifier trained on 106 protein/gene pairwise features, we predicted functional interactions between dark proteins and Reactome-annotated proteins. We then developed three scores to measure the interactions between dark proteins and Reactome pathways, utilizing enrichment analysis and fuzzy logic simulations. Correlation analysis of these scores with an independent single-cell RNA sequencing dataset provided supporting evidence for this approach. Furthermore, systematic natural language processing (NLP) analysis of over 22 million PubMed abstracts and manual checking of the literature associated with 20 randomly selected dark proteins reinforced the predicted interactions between proteins and pathways. To enhance the visualization and exploration of dark proteins within Reactome pathways, we developed the Reactome IDG portal, deployed at https://idg.reactome.org, a web application featuring tissue-specific protein and gene expression overlay, as well as drug interactions. Our integrated computational approach, together with the user-friendly web platform, offers a valuable resource for uncovering potential biological functions and therapeutic implications of dark proteins.

bioinformatics↗