Nature Communications, 15: 9190.
Alternative sulphur metabolism in the fungal pathogen Candida parapsilosis
Lombardi L, Salzberg LI, Ó Cinnéide E, O'Brien CE, Morio F, Turner SA, Byrne KP, Butler G (2024)
Microbiology Resource Announcements, 13: e01081-23.
Genome sequences of two isolates of the yeast Candida zeylanoides: UCD849 from soil in Ireland, and AWD from an African Wild Dog
McLaughlin RW, Hession C, Bergin S, Cosgrove A, Dowd A, Garvey N, Litovskich G, Osaigbovo E, Popa D, Thuku C, Butler G, Wolfe KH, Byrne KP (2024)
Microbiology Resource Announcements, 13: e01073-23.
Draft genome sequence of the yeast Schwanniomyces capriottii strain UCD805, isolated from soil in Ireland
Heneghan P, Ryan A, Ó Cinnéide E, Davies J, Bracken C, Ogundipe V, Doheny M, Lenihan L, Passalaris A, Walker R, Wolfe KH, Butler G, Byrne KP (2024)
FEMS Yeast Research, 22: foac053.
Identification of European isolates of the lager yeast parent Saccharomyces eubayanus
Bergin SA, Allen S, Hession C, Ó Cinnéide E, Ryan A, Byrne KP, Ó Cróinín T, Wolfe KH and Butler G (2022)
PLOS Biology, 20: e3001877.
Identification of genetic variants of the industrial yeast Komagataella phaffii (Pichia pastoris) that contribute to increased yields of secreted heterologous proteins
Offei B, Braun-Galleani S, Venkatesh A, Casey WT, O'Connor KE, Byrne KP and Wolfe KH (2022)
PLOS Genetics, 18: e1010525.
A widespread inversion polymorphism conserved among Saccharomyces species is caused by recurrent homogenization of a sporulation gene family
Salzberg LI, Martos AAR, Lombardi L, Jermiin LS, Blanco A, Byrne KP and Wolfe KH (2022)
Microbiology Resource Announcements, 11: e00957-22.
Draft genome sequence of the yeast Blastobotrys aristata strain UCD613, isolated from soil in Ireland
Don A, Byrne KP, Alqaderi F, Mazhova A, O'Leary Chaney B, Redmond S, Allen A, Gao J, Ó Cinnéide E, Bergin SA, Hession C, Wolfe KH and Butler G (2022)
Microbiology Resource Announcements, 11: e00952-22.
Draft genome sequence of the yeast Torulaspora quercuum strain UCD657, isolated from soil in Ireland
Blessing I, Byrne KP, Ghnewa H, Davey R, Fubara A, Welc J, Oubihi S, Moore L, Smith C, Ó Cinnéide E, Bergin SA, Hession C, Wolfe KH and Butler G (2022)
Microbiology Resource Announcements, 10: e00736-21.
Draft genome sequence of the yeast Ogataea degrootiae strain UCD465, isolated from soil in Ireland
Ó Cinnéide E, Jones M, Bahate E, Boyd E, Clavero R, Doherty H, Drozdz I, Dumana M, Gonzales C, Kennedy J, Khan M, Maher S, McGurk C, Moreau K, Neville R, Norton J, Ó Cróinín T, O'Gorman E, Olliff JC, Orimaco R, Quinn E, Webb Kennedy S, Bergin SA, Byrne KP, Wolfe KH, and Butler G (2021)
Microbiology Resource Announcements, 10: e00761-21.
Draft genome sequences of a diploid and hybrid Candida species, Candida sanyaensis UCD423, isolated from compost in Ireland
Ryan A, Ó Cinnéide E, Bergin SA, Alhajeri G, Almotawaa H, Daly I, Heneghan S, Horan K, Kavanagh R, Keane C, Martin A, McDonagh A, O'Leary J, Osborne M, Watson E, Byrne KP, Wolfe KH, and Butler G (2021)
eLife, 9: e55336.
The yeast mating-type switching endonuclease HO is a domesticated member of an unorthodox homing genetic element family
Coughlan AY, Lombardi L, Braun-Galleani S, Martos AAR, Galeote V, Bigey F, Dequin S, Byrne KP and Wolfe KH (2020)
Microbial Cell Factories, 18: 211.
Genomic diversity and meiotic recombination among isolates of the biotech yeast Komagataella phaffii (Pichia pastoris)
Braun-Galleani S, Dias JA, Coughlan AY, Ryan AP, Byrne KP and Wolfe KH (2019)
Microbiology Resource Announcements, 8: e01255-19.
Draft genome sequence of the birch tree fungal pathogen Taphrina betulina UCD315
Heneghan P, Ryan AP, Nimmo D, Duggan C, Kumar P, O'Gaora P, Ó Cinnéide E, Byrne KP, Wolfe KH, O'Brien CE and Butler G (2019)
Microbiology Resource Announcements, 8: e01257-19.
Draft genome sequences of two isolates of the yeast Kazachstania servazzii recovered from soil in Ireland
Faherty L, Lewis C, McElheron M, Garvey N, Duggan R, Shovlin B, Ó Cróinín T, Byrne KP, O'Brien CE, Wolfe KH and Butler G (2019)
Microbiology Resource Announcements, 8: e01256-19.
Draft genome sequence of a red basidiomycete yeast, Symmetrospora coprosmae strain UCD350, isolated from soil in Ireland
Almasoud J, McArdle L, Henne R, Mathews K, O'Connor Í, McLoughlin LE, O'Gaora P, Byrne KP, O'Brien CE, Wolfe KH and Butler G (2019)
FEMS Yeast Research, 19: foz058.
The Methylotroph Gene Order Browser (MGOB) reveals conserved synteny and ancestral centromere locations in the yeast family Pichiaceae
Douglass AP, Byrne KP and Wolfe KH (2019)
Scientific Reports, 9: 9240.
The CYPome of the model xenobiotic-biotransforming fungus Cunninghamella elegans
Palmer-Brown W, Miranda-CasoLuengo R, Wolfe KH, Byrne KP and Murphy CD (2019)
G3, 9: 879-887.
Coverage-versus-Length plots, a simple quality control step for de novo yeast genome sequence assemblies
Douglass AP, O'Brien CE, Offei B, Coughlan AY, Ortiz-Merino RA, Butler G, Byrne KP and Wolfe KH (2019)
Genome Biology and Evolution, 11: 189-206.
Comparative analysis of Oomycete genome evolution using the Oomycete Gene Order Browser (OGOB)
McGowan J, Byrne KP and Fitzpatrick DA (2019)
PLOS Pathogens, 14: e1007138.
Population genomics shows no distinction between pathogenic Candida krusei and environmental Pichia kudriavzevii: One species, four names
Douglass AP, Offei B, Braun-Galleani S, Coughlan AY, Martos AAR, Ortiz-Merino RA, Byrne KP and Wolfe KH (2018)
Genome Announcements, 6: e00549-18.
Draft genome sequence of the yeast Nadsonia starkeyi-henricii UCD142, isolated from forest soil in Ireland
O'Boyle S, Bergin SA, Hussey ÉE, McLaughlin AD, Riddell LR, Byrne KP, Wolfe KH, O'Brien CE and Butler G (2018)
Applied and Environmental Microbiology, 84: e02294-17.
Transcriptional response to lactic acid stress in the hybrid yeast Zygosaccharomyces parabailii
Ortiz-Merino RA, Kuanyshev N, Byrne KP, Varela JA, Morrissey JP, Porro D, Wolfe KH and Branduardi P (2018)
PLOS Genetics, 13: e1007092.
Flip/flop mating-type switching in the methylotrophic yeast Ogataea polymorpha is regulated by an Efg1-Rme1-Ste12 pathway
Hanson SJ, Byrne KP and Wolfe KH (2017)
PLOS Biology, 15: e2002128.
Evolutionary restoration of fertility in an interspecies hybrid yeast, by whole-genome duplication after a failed mating-type switch
Ortiz-Merino RA, Kuanyshev N, Braun-Galleani S, Byrne KP, Porro D, Branduardi P and Wolfe KH (2017)
Genome Biology and Evolution, 8: 2482-92.
Centromeres of the yeast Komagataella phaffii (Pichia pastoris) have a simple inverted-repeat structure
Coughlan AY, Hanson SJ, Byrne KP and Wolfe KH (2016)
FEMS Yeast Research, 15: fov035.
Clade- and species-specific features of genome evolution in the Saccharomycetaceae
Wolfe KH, Armisén D, Proux-Wera E, ÓhÉigeartaigh SS, Azam H, Gordon JL and Byrne KP (2015)
PNAS, 111: E4851-8.
Mating type switching by chromosomal inversion in methylotrophic yeasts suggests an origin for the three-locus Saccharomyces cerevisiae system
Hanson SJ, Byrne KP and Wolfe KH (2014)
Journal of Bacteriology, 196: 2030-2042.
SearchDOGS Bacteria, software that provides automated identification of potentially missed genes in annotated bacterial genomes
ÓhÉigeartaigh SS, Armisén D, Byrne KP and Wolfe KH (2014)
Molecular Biology and Evolution, 30: 1281-1291.
Comparative genome analysis and gene finding in Candida species using CGOB
Maguire S, ÓhÉigeartaigh SS, Byrne KP, Schroeder M, O'Gaora P, Wolfe KH and Butler G (2013)
Genome Biology and Evolution, 5: 525-531.
Evolutionary mobility of the ribosomal DNA array in yeasts
Proux-Wéra E, Byrne KP and Wolfe KH (2013)
Party Politics, 19: 985-997.
What's in a name? Using surnames as data for party research
Kevin Byrne and Eoin O'Malley (2013)
Irish Political Studies, 28: 130-139.
The two types of Ulster unionism: Testing an ethnic explanation for the unionist/loyalist divide
Kevin Byrne and Eoin O'Malley (2013)
BMC Bioinformatics, 13: 237.
A pipeline for automated annotation of yeast genome sequences by a conserved-synteny approach
Proux-Wéra E, Armisén D, Byrne KP and Wolfe KH (2012)
British Journal of Politics and International Relations, 14: 613-629.
Politics with Hidden Bases: Unearthing the deep roots of party systems
Kevin Byrne and Eoin O'Malley (2012)
PNAS, 108: 20024-20029.
Evolutionary erosion of yeast sex chromosomes by mating-type switching accidents
Gordon JL, Armisén D, Proux-Wéra E, ÓhÉigeartaigh SS, Byrne KP and Wolfe KH (2011)
PLOS Genetics, 7: e1002190.
Mechanisms of chromosome number evolution in yeast
Gordon JL, Byrne KP and Wolfe KH (2011)
BMC Genomics, 12: 377.
Systematic discovery of unannotated genes in 11 yeast species using a database of orthologous genomic segments
OhEigeartaigh SS, Armisen D, Byrne KP and Wolfe KH (2011)
BMC Genomics, 11: 290.
Analysis of gene evolution and metabolic pathways using the Candida Gene Order Browser
Fitzpatrick DA, O'Gaora P, Byrne KP and Butler G (2010)
PLOS Genetics, 5: e1000485.
Additions, losses and rearrangements on the evolutionary route from a reconstructed ancestor to the modern Saccharomyces cerevisiae genome
Gordon JL, Byrne KP and Wolfe KH (2009)
PNAS, 104: 8397-8402.
Independent sorting-out of thousands of duplicated gene pairs in two yeast species descended from a whole-genome duplication
Scannell DR, Frank AC, Conant GC, Byrne KP, Woolfit M and Wolfe KH (2007)
Genetics, 175: 1341-1350.
Consistent patterns of rate asymmetry and gene loss indicate widespread neo-functionalization of yeast genes after whole-genome duplication
Byrne KP and Wolfe KH (2007)
Nature, 440: 341-345.
Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts
Scannell DR*, Byrne KP*, Gordon JL, Wong S and Wolfe KH (2006)
* These authors contributed equally to this work.
Nucleic Acids Research, 34: D452-455.
Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser
Byrne KP and Wolfe KH (2006)
Molecular Biology and Evolution, 23: 245-253.
Rate asymmetry and adaptive evolution after genome duplication causes substantial long branch attraction artifacts in the phylogeny of Saccharomyces species
Fares MA, Byrne KP and Wolfe KH (2006)
Current Bioinformatics, 1: 131-146.
Computational analyses of ancient polyploidy
Byrne KP and Blanc G (2006)
Genome Research, 15: 1456-1461.
The Yeast Gene Order Browser: Combining curated homology and syntenic context reveals gene fate in polyploid species
Byrne KP and Wolfe KH (2005)
Fifth Workshop on QCD, 346-353
The spin dependence of swift proton collisions
AT Bates, NH Buttimore and KP Byrne (2000)