The general goal of the EG Research Group is to study and understand the genetics of evolutionary processes in wild and domestic species, across different groups (fish, birds, mammals, plants). We aim to reconstruct their evolutionary history, characterizing the role of natural selection and demographic history on genetic diversity patterns. We are specifically focused on studying adaptive responses to environmental change, molecular evolution, and the role of hybridization in diversification and speciation. In our research projects we use cutting-edge approaches, integrating genomics theory and data, gene expression, cytogenomics, epigenomics, proteomics and physiology.
Models and case studies include a diversity of vertebrate taxa, ranging from freshwater fish to marine and terrestrial mammals. At the EG group we generate genomic resources (e.g. transcriptomes, SNPs) for endangered and non-model species and develop software to analyze such data. Notably, we generate conservation genetics data for several species and populations that are currently threatened in Portugal, some of them national or Iberian endemics. For domestic species in particular, molecular data and pedigree analysis are used to characterize, define and carry out proper conservation programs of Animal Genetic Resources (AnGR).
Current research includes projects on: 1) Evolutionary history and speciation of natural populations (e.g. endemic freshwater fish, Australian skinks, Procellariiform seabirds, dolphins, Eurasian mesocarnivores); 2) Hybridization in evolution and speciation (homoploid and polyploid fish complexes, dolphins); 3) Molecular and chromosomal evolution and adaptation (endemic freshwater fish, Procellariiform seabirds, African genets); and 4) Evolutionary processes in domestic animal populations (particularly horses and dogs); 5) genetic basis of phenotypic variation in animals and plants; 6) development of computational methods to study population divergence and adaptation with gene flow.
Keywords: Adaptation, Hybridization, Speciation, Phylogeography, Conservation Genetics, Polyploidy, Population Genetics, Genomics, Domestication, Animal Genetic Resources.
Basuony, A.E., Saleh, M., Sarhan, M., Younes, M., Abdel-Hamid, F., Fernandes, C.R., Vercammen, P., Aboshaala, F., Bounaceur, F., Chadwick, E.A. & Hailer, F. (2023) Paraphyly of the widespread generalist red fox (Vulpes vulpes): introgression rather than recent divergence of the arid-adapted Rüppell’s fox (Vulpes rueppellii)?Biological Journal of the Linnean Society, 138(4), 453-469. DOI:10.1093/biolinnean/blad001 (IF2021 2,277; Q4 Evolutionary Biology)
Theissinger K., Fernandes C., Formenti G., Bista I., Berg P.R., Bleidorn C., Bombarely A., Crottini A., Gallo G.R., Godoy J.A., Jentoft S., Malukiewicz J., Mouton A., Oomen R.A., Paez S., Palsbøll P.J., Pampoulie C., Ruiz-López M.J., Secomandi S., Svardal H., Theofanopoulou C., de Vries J., Waldvogel A.M., Zhang G., Jarvis E.D., Bálint M., Ciofi C., Waterhouse R.M., Mazzoni C.J., Höglund J. & The European Reference Genome Atlas Consortium (36 et al. Amorim I.R., Cunha M.V., Paulo O.S.) 2023. How genomics can help biodiversity conservation. Trends in Genetics 39(7):545-559.Trends in Genetics, online early, . DOI:10.1016/j.tig.2023.01.005 (IF2021 11,821; Q1 Genetics & Heredity)
Guimarães, J.B., Nunes, C., Pereira, G., Gomes, A., Nhantumbo, N., Cabrita, P., Matos, J., Simões, F. & Veloso, M.M. (2023) Genetic Diversity and Population Structure of Cowpea (Vigna unguiculata (L.) Walp.) Landraces from Portugal and MozambiquePlants-Basel, 12(4), 846. DOI:10.3390/ plants12040846 (IF2021 4,658; Q2 Plant Sciences)