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.
Ramos, A.M., Usié, A., Barbosa, P., Barros, P.M., Capote, T., Chaves, I., Simões, F., Abreu, I., Carrasquinho, I., Faro, C., Guimarães, J.B., Mendonça, D., Nóbrega, F., Rodrigues, L., Saibo, N.J.M., Varela, M.C., Egas, C., Matos, J., Miguel, C.M., Oliveira, M.M., Ricardo, C.P. & Gonçalves, S. (2018) Data Descriptor: The draft genome sequence of cork oak.Scientific Data, Online early, . DOI:10.1038/sdata.2018.69 (IF2017 5,311; Q1 Multidisciplinary Sciences)
Gopalakrishnan, S., Sinding, M.H.S., Ramos-Madrigal, J., Niemann, J., Castruita, J.A.S., Vieira, F.G., Carøe, C., Montero, M.M., Kuderna, L., Serres, A., Gonzalez-Basallote, V.M., Liu, Y.H., Wang, G.D., Marques-Bonet, T., Mirarab, S., Fernandes, C., Gaubert, P., Koepfli, K.P., Budd, J., Rueness, E.K., Heide-Jørgensen, M.P., Petersen, B., Sicheritz-Ponten, T., Bachmann, L., Wiig, O., Hansen, A.J. & Gilbert, M.T.P. (2018) Interspecific Gene Flow Shaped the Evolution of the Genus Canis.Current Biology, Online early, . DOI:10.1016/j.cub.2018.08.041 (IF2017 9,251; Q1 Cell Biology)
Detry, C., Cardoso, J.L., Heras Mora, J., Bustamante-Álvarez, M., Silva, A.M., Pimenta, J., Fernandes, I. & Fernandes, C. (2018) Did the Romans introduce the Egyptian mongoose (Herpestes ichneumon) into the Iberian Peninsula?The Science of Nature, 105, 63. DOI:10.1007/s00114-018-1586-5 (IF2017 1,789; Q2 Multidisciplinary Sciences)