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Diversity and phylogeny of basidiomycetous yeasts from plant leaves and soil: Proposal of two new orders, three new families, eight new genera and one hundred and seven new species.

Li AH, Yuan FX, Groenewald M, Bensch K, Yurkov AM, Li K, Han PJ, Guo LD, Aime MC, Sampaio JP, Jindamorakot S, Turchetti B, Inacio J, Fungsin B, Wang QM, Bai FY.

Stud Mycol. 2020 Jan 28;96:17-140. doi: 10.1016/j.simyco.2020.01.002. eCollection 2020 Jun.


The Wickerhamiella/Starmerella clade-A treasure trove for the study of the evolution of yeast metabolism.

Gonçalves P, Gonçalves C, Brito PH, Sampaio JP.

Yeast. 2020 Apr;37(4):313-320. doi: 10.1002/yea.3463. Epub 2020 Feb 26.


Cryolevonia gen. nov. and Cryolevonia schafbergensis sp. nov., a cryophilic yeast from ancient permafrost and melted sea ice.

Pontes A, Ruethi J, Frey B, Aires A, Thomas A, Overy D, Halti B, Kerr R, Sampaio JP.

Int J Syst Evol Microbiol. 2020 Feb 5. doi: 10.1099/ijsem.0.004040. [Epub ahead of print]


Yeast Diversity Associated with the Phylloplane of Corn Plants Cultivated in Thailand.

Into P, Pontes A, Sampaio JP, Limtong S.

Microorganisms. 2020 Jan 7;8(1). pii: E80. doi: 10.3390/microorganisms8010080.


Heterocephalacria sinensis sp. nov., Phaeotremella lacus sp. nov. and Solicoccozyma aquatica sp. nov., three novel basidiomycetous yeast species isolated from crater lakes.

Li AH, Zhou Y, Jia BS, Liu ZX, Sampaio JP, Zhou YG.

Int J Syst Evol Microbiol. 2019 Dec;69(12):3728-3739. doi: 10.1099/ijsem.0.003637.


Fermentation innovation through complex hybridization of wild and domesticated yeasts.

Langdon QK, Peris D, Baker EP, Opulente DA, Nguyen HV, Bond U, Gonçalves P, Sampaio JP, Libkind D, Hittinger CT.

Nat Ecol Evol. 2019 Nov;3(11):1576-1586. doi: 10.1038/s41559-019-0998-8. Epub 2019 Oct 21.


Sporobolomyces agrorum sp. nov. and Sporobolomyces sucorum sp. nov., two novel basidiomycetous yeast species isolated from grape and apple must in Italy.

Lorenzini M, Zapparoli G, Azzolini M, Carvalho C, Sampaio JP.

Int J Syst Evol Microbiol. 2019 Nov;69(11):3385-3391. doi: 10.1099/ijsem.0.003626.


A Quasi-Domesticate Relic Hybrid Population of Saccharomyces cerevisiae × S. paradoxus Adapted to Olive Brine.

Pontes A, Čadež N, Gonçalves P, Sampaio JP.

Front Genet. 2019 May 29;10:449. doi: 10.3389/fgene.2019.00449. eCollection 2019.


Microbe Profile: Saccharomyces eubayanus, the missing link to lager beer yeasts.

Sampaio JP.

Microbiology. 2018 Sep;164(9):1069-1071. doi: 10.1099/mic.0.000677. Review.


Multiple Rounds of Artificial Selection Promote Microbe Secondary Domestication-The Case of Cachaça Yeasts.

Barbosa R, Pontes A, Santos RO, Montandon GG, de Ponzzes-Gomes CM, Morais PB, Gonçalves P, Rosa CA, Sampaio JP.

Genome Biol Evol. 2018 Aug 1;10(8):1939-1955. doi: 10.1093/gbe/evy132.


Blastobotrys bombycis sp. nov., a d-xylose-fermenting yeast isolated from the gut of the silkworm larva Bombyx mori.

Barretto DA, Avchar R, Carvalho C, Sampaio JP, Vootla SK, Baghela A.

Int J Syst Evol Microbiol. 2018 Aug;68(8):2638-2643. doi: 10.1099/ijsem.0.002890. Epub 2018 Jun 27.


Zygotorulaspora chibaensis sp. nov. and Zygotorulaspora danielsina sp. nov., novel ascomycetous yeast species from tree bark and soil.

Carvalho C, Tomás A, Libkind D, Imanishi Y, Sampaio JP.

Int J Syst Evol Microbiol. 2018 Aug;68(8):2633-2637. doi: 10.1099/ijsem.0.002889. Epub 2018 Jun 22.


Occultifur mephitis f.a., sp. nov. and other yeast species from hypoxic and elevated CO2 mofette environments.

Šibanc N, Zalar P, Schroers HJ, Zajc J, Pontes A, Sampaio JP, Maček I.

Int J Syst Evol Microbiol. 2018 Jul;68(7):2285-2298. doi: 10.1099/ijsem.0.002824. Epub 2018 May 29.


Adaptation of S. cerevisiae to Fermented Food Environments Reveals Remarkable Genome Plasticity and the Footprints of Domestication.

Legras JL, Galeote V, Bigey F, Camarasa C, Marsit S, Nidelet T, Sanchez I, Couloux A, Guy J, Franco-Duarte R, Marcet-Houben M, Gabaldon T, Schuller D, Sampaio JP, Dequin S.

Mol Biol Evol. 2018 Jul 1;35(7):1712-1727. doi: 10.1093/molbev/msy066.


Cystobasidium alpinum sp. nov. and Rhodosporidiobolus oreadorum sp. nov. from European Cold Environments and Arctic Region.

Turchetti B, Selbmann L, Gunde-Cimerman N, Buzzini P, Sampaio JP, Zalar P.

Life (Basel). 2018 May 5;8(2). pii: E9. doi: 10.3390/life8020009.


Papiliotrema plantarum sp. nov., a novel tremellaceous sexual yeast species.

Into P, Pontes A, Jacques N, Casaregola S, Limtong S, Sampaio JP.

Int J Syst Evol Microbiol. 2018 Jun;68(6):1937-1941. doi: 10.1099/ijsem.0.002771. Epub 2018 Apr 20.


Cryptotrichosporon argae sp. nov., Cryptotrichosporon brontae sp. nov. and Cryptotrichosporon steropae sp. nov., isolated from forest soils.

Pontes A, Röhl O, Maldonado C, Yurkov AM, Sampaio JP.

Int J Syst Evol Microbiol. 2017 Sep;67(9):3610-3614. doi: 10.1099/ijsem.0.002177. Epub 2017 Sep 6.


New yeasts-new brews: modern approaches to brewing yeast design and development.

Gibson B, Geertman JA, Hittinger CT, Krogerus K, Libkind D, Louis EJ, Magalhães F, Sampaio JP.

FEMS Yeast Res. 2017 Jun 1;17(4). doi: 10.1093/femsyr/fox038. Review.


Hybridization and adaptive evolution of diverse Saccharomyces species for cellulosic biofuel production.

Peris D, Moriarty RV, Alexander WG, Baker E, Sylvester K, Sardi M, Langdon QK, Libkind D, Wang QM, Bai FY, Leducq JB, Charron G, Landry CR, Sampaio JP, Gonçalves P, Hyma KE, Fay JC, Sato TK, Hittinger CT.

Biotechnol Biofuels. 2017 Mar 27;10:78. doi: 10.1186/s13068-017-0763-7. eCollection 2017.


Adaptive divergence in wine yeasts and their wild relatives suggests a prominent role for introgressions and rapid evolution at noncoding sites.

Almeida P, Barbosa R, Bensasson D, Gonçalves P, Sampaio JP.

Mol Ecol. 2017 Apr;26(7):2167-2182. doi: 10.1111/mec.14071. Epub 2017 Mar 22.


Libkindia masarykiana gen. et sp. nov., Yurkovia mendeliana gen. et sp. nov. and Leucosporidium krtinense f.a. sp. nov., isolated from temperate forest soils.

Mašínová T, Pontes A, Carvalho C, Sampaio JP, Baldrian P.

Int J Syst Evol Microbiol. 2017 Apr;67(4):902-908. doi: 10.1099/ijsem.0.001707. Epub 2017 May 5.


Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma.

Bellora N, Moliné M, David-Palma M, Coelho MA, Hittinger CT, Sampaio JP, Gonçalves P, Libkind D.

BMC Genomics. 2016 Nov 9;17(1):901.


Distinct Domestication Trajectories in Top-Fermenting Beer Yeasts and Wine Yeasts.

Gonçalves M, Pontes A, Almeida P, Barbosa R, Serra M, Libkind D, Hutzler M, Gonçalves P, Sampaio JP.

Curr Biol. 2016 Oct 24;26(20):2750-2761. doi: 10.1016/j.cub.2016.08.040. Epub 2016 Oct 6.


Genetic Dissection of Sexual Reproduction in a Primary Homothallic Basidiomycete.

David-Palma M, Sampaio JP, Gonçalves P.

PLoS Genet. 2016 Jun 21;12(6):e1006110. doi: 10.1371/journal.pgen.1006110. eCollection 2016 Jun.


Yamadazyma barbieri f.a. sp. nov., an ascomycetous anamorphic yeast isolated from a Mid-Atlantic Ridge hydrothermal site (-2300 m) and marine coastal waters.

Burgaud G, Coton M, Jacques N, Debaets S, Maciel NOP, Rosa CA, Gadanho M, Sampaio JP, Casaregola S.

Int J Syst Evol Microbiol. 2016 Sep;66(9):3600-3606. doi: 10.1099/ijsem.0.001239. Epub 2016 Jun 14.


Evidence of Natural Hybridization in Brazilian Wild Lineages of Saccharomyces cerevisiae.

Barbosa R, Almeida P, Safar SV, Santos RO, Morais PB, Nielly-Thibault L, Leducq JB, Landry CR, Gonçalves P, Rosa CA, Sampaio JP.

Genome Biol Evol. 2016 Jan 18;8(2):317-29. doi: 10.1093/gbe/evv263.


Genomics and the making of yeast biodiversity.

Hittinger CT, Rokas A, Bai FY, Boekhout T, Gonçalves P, Jeffries TW, Kominek J, Lachance MA, Libkind D, Rosa CA, Sampaio JP, Kurtzman CP.

Curr Opin Genet Dev. 2015 Dec;35:100-9. doi: 10.1016/j.gde.2015.10.008. Epub 2015 Nov 30. Review.


Jaminaea phylloscopi sp. nov. (Microstromatales), a basidiomycetous yeast isolated from migratory birds in the Mediterranean basin.

Francesca N, Guerreiro MA, Carvalho C, Coelho M, Alfonzo A, Randazzo W, Sampaio JP, Moschetti G.

Int J Syst Evol Microbiol. 2016 Feb;66(2):824-829. doi: 10.1099/ijsem.0.000801. Epub 2015 Nov 26.


Local climatic conditions constrain soil yeast diversity patterns in Mediterranean forests, woodlands and scrub biome.

Yurkov AM, Röhl O, Pontes A, Carvalho C, Maldonado C, Sampaio JP.

FEMS Yeast Res. 2016 Feb;16(1):fov103. doi: 10.1093/femsyr/fov103. Epub 2015 Nov 13.


Starmera pilosocereana sp. nov., a yeast isolated from necrotic tissue of cacti in a sandy coastal dune ecosystem.

Freitas LF, Barbosa R, Sampaio JP, Lachance MA, Rosa CA.

Int J Syst Evol Microbiol. 2015 Dec;65(12):4474-8. doi: 10.1099/ijsem.0.000596. Epub 2015 Sep 11.


A population genomics insight into the Mediterranean origins of wine yeast domestication.

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.

Mol Ecol. 2015 Nov;24(21):5412-27. doi: 10.1111/mec.13341. Epub 2015 Sep 3.


Evolution of Mating Systems in Basidiomycetes and the Genetic Architecture Underlying Mating-Type Determination in the Yeast Leucosporidium scottii.

Maia TM, Lopes ST, Almeida JM, Rosa LH, Sampaio JP, Gonçalves P, Coelho MA.

Genetics. 2015 Sep;201(1):75-89. doi: 10.1534/genetics.115.177717. Epub 2015 Jul 14.


Sex in the cold: taxonomic reorganization of psychrotolerant yeasts in the order Leucosporidiales.

de García V, Coelho MA, Maia TM, Rosa LH, Vaz AM, Rosa CA, Sampaio JP, Gonçalves P, van Broock M, Libkind D.

FEMS Yeast Res. 2015 Jun;15(4):fov019. doi: 10.1093/femsyr/fov019. Epub 2015 Apr 22.


The diversity and extracellular enzymatic activities of yeasts isolated from water tanks of Vriesea minarum, an endangered bromeliad species in Brazil, and the description of Occultifur brasiliensis f.a., sp. nov.

Gomes FC, Safar SV, Marques AR, Medeiros AO, Santos AR, Carvalho C, Lachance MA, Sampaio JP, Rosa CA.

Antonie Van Leeuwenhoek. 2015 Feb;107(2):597-611. doi: 10.1007/s10482-014-0356-4. Epub 2014 Dec 17.


Progressive loss of E-cadherin immunoexpression during cervical carcinogenesis.

Cavalcante JR, Sampaio JP, Maia Filho JT, Vieira RB, Eleutério J Jr, Lima RC Jr, Ribeiro RA, Almeida PR.

Acta Cir Bras. 2014 Oct;29(10):667-74.


Yeasts vectored by migratory birds collected in the Mediterranean island of Ustica and description of Phaffomyces usticensis f.a. sp. nov., a new species related to the cactus ecoclade.

Francesca N, Carvalho C, Sannino C, Guerreiro MA, Almeida PM, Settanni L, Massa B, Sampaio JP, Moschetti G.

FEMS Yeast Res. 2014 Sep;14(6):910-21. doi: 10.1111/1567-1364.12179. Epub 2014 Jul 28.


A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum.

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.

Nat Commun. 2014 Jun 2;5:4044. doi: 10.1038/ncomms5044.


A handcrafted tissue microarray for a matrix arrangement of tissue samples.

Sampaio JP, Cavalcante JR, Furtado FN, Lima-Júnior RC, Ribeiro RA, Almeida PR.

J Pharmacol Toxicol Methods. 2014 Jul-Aug;70(1):70-2. doi: 10.1016/j.vascn.2014.05.005. Epub 2014 May 28.


Population structure and reticulate evolution of Saccharomyces eubayanus and its lager-brewing hybrids.

Peris D, Sylvester K, Libkind D, Gonçalves P, Sampaio JP, Alexander WG, Hittinger CT.

Mol Ecol. 2014 Apr;23(8):2031-45. doi: 10.1111/mec.12702. Epub 2014 Apr 3.


Local climatic adaptation in a widespread microorganism.

Leducq JB, Charron G, Samani P, Dubé AK, Sylvester K, James B, Almeida P, Sampaio JP, Hittinger CT, Bell G, Landry CR.

Proc Biol Sci. 2014 Jan 8;281(1777):20132472. doi: 10.1098/rspb.2013.2472. Print 2014 Feb 22.


Global distribution, diversity hot spots and niche transitions of an astaxanthin-producing eukaryotic microbe.

David-Palma M, Libkind D, Sampaio JP.

Mol Ecol. 2014 Feb;23(4):921-32. doi: 10.1111/mec.12642.


Wickerhamomyces sylviae f.a., sp. nov., an ascomycetous yeast species isolated from migratory birds.

Francesca N, Carvalho C, Almeida PM, Sannino C, Settanni L, Sampaio JP, Moschetti G.

Int J Syst Evol Microbiol. 2013 Dec;63(Pt 12):4824-30. doi: 10.1099/ijs.0.056382-0. Epub 2013 Oct 14.


Extensive intra-kingdom horizontal gene transfer converging on a fungal fructose transporter gene.

Coelho MA, Gonçalves C, Sampaio JP, Gonçalves P.

PLoS Genet. 2013 Jun;9(6):e1003587. doi: 10.1371/journal.pgen.1003587. Epub 2013 Jun 20.


Living and thriving on the skin: Malassezia genomes tell the story.

Coelho MA, Sampaio JP, Gonçalves P.

mBio. 2013 Mar 19;4(2):e00117-13. doi: 10.1128/mBio.00117-13.


Xanthophyllomyces dendrorhous (Phaffia rhodozyma) on stromata of Cyttaria hariotii in northwestern Patagonian Nothofagus forests.

Libkind D, Tognetti C, Ruffini A, Sampaio JP, Van Broock M.

Rev Argent Microbiol. 2011 Jul-Sep;43(3):226-32. doi: 10.1590/S0325-75412011000300011.


Evidence for maintenance of sex determinants but not of sexual stages in red yeasts, a group of early diverged basidiomycetes.

Coelho MA, Gonçalves P, Sampaio JP.

BMC Evol Biol. 2011 Aug 31;11:249. doi: 10.1186/1471-2148-11-249.


Microbe domestication and the identification of the wild genetic stock of lager-brewing yeast.

Libkind D, Hittinger CT, Valério E, Gonçalves C, Dover J, Johnston M, Gonçalves P, Sampaio JP.

Proc Natl Acad Sci U S A. 2011 Aug 30;108(35):14539-44. doi: 10.1073/pnas.1105430108. Epub 2011 Aug 22.


Phylogenetic distribution of fungal mycosporines within the Pucciniomycotina (Basidiomycota).

Libkind D, Moliné M, Sommaruga R, Sampaio JP, van Broock M.

Yeast. 2011 Aug;28(8):619-27. doi: 10.1002/yea.1891. Epub 2011 Jul 11.


Evidence for divergent evolution of growth temperature preference in sympatric Saccharomyces species.

Gonçalves P, Valério E, Correia C, de Almeida JM, Sampaio JP.

PLoS One. 2011;6(6):e20739. doi: 10.1371/journal.pone.0020739. Epub 2011 Jun 2.

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