Vázquez, N., Vieira, C. P., Amorim, B. S. R., Torres, A., et al. (2017). Automated collection and sharing of adaptive amino acid changes data. Advances in Intelligent Systems and Computing (Vol. 616, pp. 18 - 25).

Brito, Â., Ramos, V., Mota, R., Lima, S., et al. (2017). Description of new genera and species of marine cyanobacteria from the Portuguese Atlantic coast. Molecular Phylogenetics and Evolution, 111, 18 - 34.

Reis, M., Silva, A. C., Vieira, C. P., & Vieira, J. (2016). The Drosophila melanogaster Muc68E mucin gene influences adult size, starvation tolerance, and cold recovery. G3: Genes, Genomes, Genetics, 6(7), 1841 - 1851.

Aguiar, B., Vieira, J., Cunha, A. E., Fonseca, N. A., et al. (2015). Convergent evolution at the gametophytic self-incompatibility system in Malus and Prunus. PLoS ONE, 10(5).

Aguiar, B., Vieira, J., Cunha, A. E., & Vieira, C. P. (2015). No evidence for Fabaceae Gametophytic self-incompatibility being determined by Rosaceae, Solanaceae, and Plantaginaceae S-RNase lineage genes. BMC Plant Biology, 15(1).

Aguiar, B., Vieira, J., Cunha, A. E., & Vieira, C. P. (2015). No evidence for Fabaceae Gametophytic self-incompatibility being determined by Rosaceae, Solanaceae, and Plantaginaceae S-RNase lineage genes. BMC Plant Biology.

Sillero, N., Reis, M., Vieira, C. P., Vieira, J., & Morales-Hojas, R. (2014). Niche evolution and thermal adaptation in the temperate species Drosophila americana. Journal of Evolutionary Biology.

Fonseca, N. A., Morales-Hojas, R., Reis, M., Rocha, H., et al. (2013). Drosophila americana as a model species for comparative studies on the molecular basis of phenotypic variation. Genome Biology and Evolution, 5(4), 661 - 679.

Araújo, A. R., Reis, M., Rocha, H., Aguiar, B., et al. (2013). The Drosophila melanogaster methuselah Gene: A Novel Gene with Ancient Functions. PLoS ONE, 8(5).

Aguiar, B., Vieira, J., Cunha, A. E., Fonseca, N. A., et al. (2013). Patterns of evolution at the gametophytic self-incompatibility Sorbus aucuparia (Pyrinae) S pollen genes support the non-self recognition by multiple factors model. Journal of Experimental Botany, 64(8), 2423 - 2434.

Fonseca, N. A., Vieira, C. P., Schlötterer, C., & Vieira, J. (2012). The DAIBAM MITE element is involved in the origin of one fixed and two polymorphic Drosophila virilis phylad inversions. Fly, 6(2), 71 - 74.

Reis, M., Vieira, C. P., Morales-Hojas, R., Aguiar, B., et al. (2011). A comparative study of the short term cold resistance response in distantly related Drosophila species: The role of regucalcin and Frost. PLoS ONE, 6(10).

Reis, M., Sousa-Guimarães, S., Vieira, C. P., Sunkel, C. E., & Vieira, J. (2011). Drosophila genes that affect meiosis duration are among the meiosis related genes that are more often found duplicated. PLoS ONE, 6(3).

Morales-Hojas, R., Reis, M., Vieira, C. P., & Vieira, J. (2011). Resolving the phylogenetic relationships and evolutionary history of the Drosophila virilis group using multilocus data. Molecular Phylogenetics and Evolution, 60(2), 249 - 258.

Vieira, J., Ferreira, P. G., Aguiar, B., Fonseca, N. A., & Vieira, C. P. (2010). Evolutionary patterns at the RNase based gametophytic self - Incompatibility system in two divergent Rosaceae groups (Maloideae and Prunus). BMC Evolutionary Biology, 10(1).

Vieira, J., & Vieira, C. P. (2010). On the identification of human selected loci in grapevines. Heredity, 104(4), 327 - 328.

MacEdo, M. F., Porto, G., Costa, M., Vieira, C. P., et al. (2010). Low numbers of CD8 + T lymphocytes in hereditary haemochromatosis are explained by a decrease of the most mature CD8 + effector memory T cells. Clinical and Experimental Immunology, 159(3), 363 - 371.

Seabra, A. R., Vieira, C. P., Cullimore, J. V., & Carvalho, H. G. (2010). Medicago truncatula contains a second gene encoding a plastid located glutamine synthetase exclusively expressed in developing seeds. BMC Plant Biology, 10.

Santos, J. S., Fonseca, N. A., Vieira, C. P., Vieira, J., & Casares, F. (2010). Phylogeny of the teashirt-related zinc finger (tshz) gene family and analysis of the developmental expression of tshz2 and tshz3b in the zebrafish. Developmental Dynamics, 239(3), 1010 - 1018.

Morales-Hojas, R., Vieira, C. P., Reis, M., & Vieira, J. (2009). Comparative analysis of five immunity-related genes reveals different levels of adaptive evolution in the virilis and melanogaster groups of Drosophila. Heredity, 102(6), 573 - 578.

Fonseca, N. A., Vieira, C. P., & Vieira, J. (2009). Gene classification based on amino acid motifs and residues: The DLX (distal-less) test case. PLoS ONE, 4(6).

Vieira, J., Fonseca, N. A., & Vieira, C. P. (2009). RNase-based gametophytic self-incompatibility evolution: Questioning the hypothesis of multiple independent recruitments of the s-pollen gene. Journal of Molecular Evolution, 69(1), 32 - 41.

Tsukamoto, T., Potter, D., Tao, R., Vieira, C. P., et al. (2008). Genetic and molecular characterization of three novel S-haplotypes in sour cherry (Prunus cerasus L.). Journal of Experimental Botany, 59(11), 3169 - 3185.

Vieira, J., Santos, R. A. M., Ferreira, S. M., & Vieira, C. P. (2008). Inferences on the number and frequency of S-pollen gene (SFB) specificities in the polyploid Prunus spinosa. Heredity, 101(4), 351 - 358.

Morales-Hojas, R., Vieira, C. P., & Vieira, J. (2008). Inferring the evolutionary history of Drosophila americana and Drosophila novamexicana using a multilocus approach and the influence of chromosomal rearrangements in single gene analyses. Molecular Ecology, 17(12), 2910 - 2926.

Vieira, J., Fonseca, N. A., Santos, R. A. M., Habu, T., et al. (2008). The number, age, sharing and relatedness of S-locus specificities in Prunus. Genetics Research, 90(1), 17 - 26.

Reis, M., Vieira, C. P., Morales-Hojas, R., & Vieira, J. (2008). An old bilbo-like non-LTR retroelement insertion provides insight into the relationship of species of the virilis group. Gene, 425(1-2), 48 - 55.

Fonseca, N. A., Vieira, C. P., Holland, P. W. H., & Vieira, J. (2008). Protein evolution of ANTP and PRD homeobox genes. BMC Evolutionary Biology, 8(1).

Vieira, J., Santos, R. A. M., Habu, T., Tao, R., & Vieira, C. P. (2008). The Prunus self-incompatibility locus (S locus) is seldom rearranged. Journal of Heredity, 99(6), 657 - 660.

Vieira, J., Teles, E., Santos, R. A. M., & Vieira, C. P. (2008). Recombination at prunus S-locus region SLFL1 gene. Genetics, 180(1), 483 - 491.

Vieira, J., Fonseca, N. A., & Vieira, C. P. (2008). An S-RNase-based gametophytic self-incompatibility system evolved only once in eudicots. Journal of Molecular Evolution, 67(2), 179 - 190.

Morales-Hojas, R., Päällysaho, S., Vieira, C. P., Hoikkala, A., & Vieira, J. (2007). Comparative polytene chromosome maps of D. montana and D. virilis. Chromosoma, 116(1), 21 - 27.

Vieira, J., Morales-Hojas, R., Santos, R. A. M., & Vieira, C. P. (2007). Different positively selected sites at the gametophytic self-incompatibility pistil S-RNase gene in the Solanaceae and Rosaceae (Prunus, Pyrus, and Malus). Journal of Molecular Evolution, 65(2), 175 - 185.

Morales-Hojas, R., Vieira, C. P., & Vieira, J. (2006). The evolutionary history of the transposable element Penelope in the Drosophila virilis group of species. Journal of Molecular Evolution, 63(2), 262 - 273.

Vieira, C. P., Almeida, A., Dias, J. D., & Vieira, J. (2006). On the location of the gene(s) harbouring the advantageous variant that maintains the X/4 fusion of Drosophila americana. Genetical Research, 87(3), 163 - 174.

Nunes, M. D. S., Santos, R. A. M., Ferreira, S. M., Vieira, J., & Vieira, C. P. (2006). Variability patterns and positively selected sites at the gametophytic self-incompatibility pollen SFB gene in a wild self-incompatible Prunus spinosa (Rosaceae) population. New Phytologist, 172(3), 577 - 587.

Päällysaho, S., Vieira, C. P., Hoikkala, A., & Vieira, J. (2005). Evidence for introgression in differentiated North-American and Finnish Drosophila montana populations. Genetica, 123(3), 285 - 293.

Costas, J., Pereira, P. S., Vieira, C. P., Pinho, S., et al. (2004). Dynamics and function of intron sequences of the wingless gene during the evolution of the Drosophila genus. Evolution and Development, 6(5), 325 - 335.