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Kevin Byrne

Research Scientist

School Of Medicine
Conway Institute
Belfield
Dublin 4

Tel: +353 1 7166834
Email: kevin.byrne@ucd.ie

Biography

Research Fellow working on genome evolution and bioinformatics (2006-2013) Smurfit Institute of Genetics, Trinity College Dublin 

 

PhD, Genome Evolution (2007) TCD
MSc, Elementary Particle Theory (2002) TCD
BA(Mod), Theoretical Physics (1999) TCD

Professional

         

Conference Contributions

Maguire SL, Fitzpatrick DA, O¿Gaora P, Byrne KP, Butler G; (2011) CGOB: the Candida gene order browser. [Poster Presentation], FEBS Advanced Course on Human Fungal Pathogens, La Colle sur Loup, France , 08-MAY-11 - 13-MAY-11.
   

Education

Year 2007 Institution: Trinity College Dublin
Qualification: PhD Subject: Genome Evolution (Thesis Title: Post-Polyploidy Evolution in Yeasts)
Year 2002 Institution: Trinity College Dublin
Qualification: MSc Subject: Elementary Particle Theory (Thesis Title: Single spin asymmetry for proton-carbon scattering)
Year 1999 Institution: Trinity College Dublin
Qualification: BA (Mod) Subject: Theoretical Physics
     

Journals Edited

Journal Of Molecular Evolution: Reviewer.
Plos Computational Biology: Reviewer.
Plos One: Reviewer.
Bmc Genomics: Reviewer.
Genome Biology And Evolution: Reviewer.
Molecular Biology And Evolution: Reviewer.
 

Publications

     

Peer Reviewed Journals

Wolfe KH, Armis¿¿n D;Proux-Wera E;¿¿h¿¿igeartaigh SS;Azam H;Gordon JL;Byrne KP (2015) 'Clade- and species-specific features of genome evolution in the Saccharomycetaceae'. FEMS Yeast Research, 15 (5). [DOI] [Details]
¿¿h¿¿igeartaigh SS, Armis¿¿n D;Byrne KP;Wolfe KH (2014) 'SearchDOGS bacteria, software that provides automated identification of potentially missed genes in annotated bacterial genomes'. Journal of Bacteriology, 196 (11):2030-2042. [DOI] [Details]
Hanson SJ, Byrne KP;Wolfe KH (2014) 'Mating-type switching by chromosomal inversion in methylotrophic yeasts suggests an origin for the three-locus Saccharomyces cerevisiae system'. Proceedings of the National Academy of Sciences of the United States of America, 111 (45):1-8. [DOI] [Details]
Proux-Wera, E. and Byrne, K. P. and Wolfe, K. H. (2013) 'Evolutionary mobility of the ribosomal DNA array in yeasts'. Genome Biology and Evolution, 5 (3):525-531. [Details]
Maguire SL, Ohéigeartaigh SS, Byrne KP, Schröder MS, O'Gaora P, Wolfe KH, Butler G (2013) 'Comparative Genome Analysis and Gene Finding in Candida Species Using CGOB'. Molecular Biology and Evolution, 30 (6):1281-1291. [DOI] Link to full text [Details]
Proux-Wera, E. and Armisen, D. and Byrne, K. P. and Wolfe, K. H. (2012) 'A pipeline for automated annotation of yeast genome sequences by a conserved-synteny approach'. BMC Bioinformatics, 13 :237. [Details]
Gordon, J. L. and Armisen, D. and Proux-Wera, E. and OhEigeartaigh, S. S. and Byrne, K. P. and Wolfe, K. H. (2011) 'Evolutionary erosion of yeast sex chromosomes by mating-type switching accidents'. Proc. Natl. Acad. Sci. U.S.A, 108 (50):20024-20029. [Details]
OhEigeartaigh, S. S. and Armisen, D. and Byrne, K. P. and Wolfe, K. H. (2011) 'Systematic discovery of unannotated genes in 11 yeast species using a database of orthologous genomic segments'. BMC Genomics, 12 :377. [Details]
Gordon, J. L. and Byrne, K. P. and Wolfe, K. H. (2011) 'Mechanisms of chromosome number evolution in yeast'. PLoS Genet, 7 (7):e1002190. [Details]
Fitzpatrick DA, O'Gaora P, Byrne KP, Butler G.; (2010) 'Analysis of gene evolution and metabolic pathways using the Candida Gene Order Browser'. BMC Genomics, 11 :290-303. [DOI] [Details]
Fitzpatrick, DA,O'Gaora, P,Byrne, KP,Butler, G; (2010) 'Analysis of gene evolution and metabolic pathways using the Candida Gene Order Browser'. Genomics, 11 . [DOI] [Details]
Gordon, J. L. and Byrne, K. P. and Wolfe, K. H. (2009) 'Additions, losses, and rearrangements on the evolutionary route from a reconstructed ancestor to the modern Saccharomyces cerevisiae genome'. PLoS Genet, 5 (5):e1000485. [Details]
Scannell, D. R. and Frank, A. C. and Conant, G. C. and Byrne, K. P. and Woolfit, M. and Wolfe, K. H. (2007) 'Independent sorting-out of thousands of duplicated gene pairs in two yeast species descended from a whole-genome duplication'. Proc. Natl. Acad. Sci. U.S.A, 104 (20):8397-8402. [Details]
Byrne, K. P. and Wolfe, K. H. (2007) 'Consistent patterns of rate asymmetry and gene loss indicate widespread neofunctionalization of yeast genes after whole-genome duplication'. Genetics, 175 (3):1341-1350. [Details]
Scannell, D. R.* and Byrne, K. P.* and Gordon, J. L. and Wong, S. and Wolfe, K. H. (2006) 'Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts'. Nature, 440 (7082):341-345. [Details]
Byrne, K. P. and Wolfe, K. H. (2006) 'Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser'. Nucleic Acids Research, 34 (Database issue):D452-455. [Details]
Fares, M. A. and Byrne, K. P. and Wolfe, K. H. (2006) 'Rate asymmetry after genome duplication causes substantial long-branch attraction artifacts in the phylogeny of Saccharomyces species'. Mol. Biol. Evol, 23 (2):245-253. [Details]
Byrne, K. P. and Wolfe, K. H. (2005) 'The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species'. Genome Res, 15 (10):1456-1461. [Details]
Byrne KP, Wolfe KH (2005) 'The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species'. Genome Research, 15 (10):1456-1461. [DOI] [Details]

Other Journals

Byrne K.P. and Blanc G. (2006) 'Computational analyses of ancient polyploidy' Current Bioinformatics 1 (2) :131-146. [Details]
                                                                                           

Research

Research Interests

Dr Byrne's work focuses on studying genome evolution in model organisms using bioinformatics approaches. Systems of particular interest have been the hemiascomycete and methylotrophic yeasts. High throughput analysis of genomic data, the development of visualisation and analysis platforms and next generation sequencing (both for genome sequencing and transcriptomics) are used to examine various aspects of the evolution of chromosome structure, gene order relationships and mating.
 

UCD Medicine Research Centre: Bioinformatics