Almeida P, Barbosa R, Zalar P, Imanishi Y, Shimizu K, Turchetti B, Legras JL, Serra M, Dequin S, Couloux A, Guy J, Bensasson D, Gonçalves P, Sampaio JP. 2015. A Population Genomics Insight into the Mediterranean Origins of Wine Yeast Domestication. Molecular Ecology DOI: 10.1111/mec.13341
Almeida P, Gonçalves C, Teixeira S, Libkind D, Bontrager M, Masneuf-Pomarède I, Albertin W, Durrens P, Sherman DJ, Marullo P, Hittinger CT, Gonçalves P, Sampaio JP. 2014. A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum. Nature Communications 5:4044. DOI:10.1038/ncomms5044
Peris D, Sylvester K, Libkind D, Gonçalves P, Sampaio JP, Alexander WG, Hittinger CT. 2014. Population Structure and Reticulate Evolution of Saccharomyces eubayanus and Its Lager-Brewing Hybrids. Molecular Ecology 23: 2031–2045. DOI:10.1111/mec.12702
David-Palma M, Libkind D, Sampaio JP. 2014. Global distribution, diversity hotspots and niche transitions of an astaxanthin-producing eukaryotic microbe. Molecular Ecology 23: 921-932. DOI:10.1111/mec.12642
Leducq J-B, Guillaume C, Samani P, Dubé AK, Sylvester K, James B, Almeida P, Sampaio JP, Hittinger CT, Bell G, Landry CR. 2014. Local climatic adaptation in a widespread microorganism. Proceedings of the Royal Society B 281: 20132472. DOI:10.1098/rspb.2013.2472
Libkind D, Hittinger CT, Valério E, Gonçalves C, Dover J, Johnston M, Gonçalves P, Sampaio JP. 2011. Microbe domestication and the identification of the wild genetic stock of lager-brewing yeast. Proceedings of the National Academy of Sciences USA 108: 14539-14544.
DOI 10.1073/pnas.1105430108
Gonçalves P, Valério E, Correia C, Almeida JMGCF, Sampaio JP. 2011. Evidence for divergent evolution of growth temperature preference in sympatric Saccharomyces species. PLoS ONE 6 (6): e20739.
doi:10.1371/journal.pone.0020739
Coelho MA, Gonçalves P, Sampaio JP. 2011. Evidence for maintenance of sex determinants but not of sexual stages in red yeasts, a group of early diverged basidiomycetes. BMC Evolutionary Biology 11: 249.
DOI 10.1186/1471-2148-11-249
Hittinger CT, Gonçalves P, Sampaio JP, Dover J, Johnston M and Rokas A. 2010. Remarkably ancient balanced polymorphisms in a multi-locus gene network. Nature 464: 54-58.
doi:10.1038/nature08791
Coelho MA, Sampaio JP and Gonçalves P. 2010. A deviation from the bipolar-tetrapolar mating paradigm in an early diverged basidiomycete. PLoS Genetics PLoS 6(8): e1001052.
doi:10.1371/journal.pgen.1001052
Sampaio, J.P. and Gonçalves, P. (2008) Natural populations of Saccharomyces kudriavzevii in Portugal are associated with oak bark and sympatric with S. cerevisiae and S. paradoxus. Applied and Environmental Microbiology 74: 2144-2152. doi:10.1128/AEM.02396-07
Hibbett D, Binder M, Bischoff JF, Blackwell M, Cannon PF, Eriksson OE, Huhndorf S, James TY, Kirk PM, Lucking R, Lumbsch HT, Lutzoni FL, Matheny PB, McLaughlin DJ, Powell MJ, Redhead S, Schoch CL, Spatafora, JW, Stalpers JA, Vilgalys R, Aime MC, Aptroot A, Bauer R, Begerow D, Benny GL, Castlebury LA, Crous PW, Dai Y-C, Gams W, Geiser DM, Griffith GW, Gueidan C, Hawksworth DL, Hestmark G, Hosaka K, Humber RA, Hyde, KD, Ironside JE, Koljag U, Kurtzman CP, Larsson K-H, Lichtwardt R, Longcore J, Miadlikowska J, Miller A, Moncalvo J-M, Mozley-Standridge S, Oberwinkler F, Parmasto E, Reeb V, Rogers JD, Roux C, Ryvarden L, Sampaio JP, Schußler A, Sugiyama J, Thorn RG, Tibell L, Untereiner WA, Walker C, Wang Z, Weir A, Weiss M, White MM, Winka K, Yao Y-J, and Zhang N. 2007. A higher-level phylogenetic classification of the Fungi. Mycological Research 111: 509-547.
doi:10.1016/j.mycres.2007.03.004
Libkind, D., Ruffini, A., van Broock, M. Alves, L and Sampaio, J.P. (2007) Biogeography, host-specificity and molecular phylogeny of the basidiomycetous yeast Phaffia rhodozyma and its sexual state Xanthophyllomyces dendrorhous. Applied and Environmental Microbiology, 73:1120-1125 doi:10.1128/AEM.01432-06
Aime, C., Matheny P. B., Henk, D. A., Frieders, E.M., Nilsson, H., Piepenbring, M., McLaughlin, D.J., Szabo, L.J., Begerow, D., Sampaio, J.P., Bauer, R., Weiss, M., Oberwinkler, F. and Hibbett, D. (2006) An overview of the higher-level classification of Pucciniomycotina based on combined analyses of nuclear large and small subunit rDNA sequences. Mycologia, 98:896-905