Publications
Todd RT, Selmecki A. Copy Number Variation and Allele Ratio Analysis in Candida albicans Using Whole Genome Sequencing Data. Methods Mol Biol. 2023;2658:105-125. doi: 10.1007/978-1-0716-3155-3_8. PMID: 37024698.
Link to Methods in Molecular Biology
Be sure to check out the entire BOOK Antifungal Drug Resistance - Methods and Protocols!
Todd RT, Soisangwan N, Peters S, Kemp B, Crooks T, Gerstein A, Selmecki A. (2023)
Antifungal Drug Concentration Impacts the Spectrum of Adaptive Mutations in Candida albicans.
Molecular Biology and Evolution. Jan 4;40(1):msad009. doi: 10.1093/molbev/msad009. PMID: 36649220; PMCID: PMC9887641.
Link to Molecular Biology and Evolution
Rizzo M, Soisangwan N, Vega-Estevez S, Price RJ, Uyl C, Iracane E, Shaw M, Soetaert J,
Selmecki A, Buscaino A. (2022)
Stress combined with loss of the Candida albicans SUMO protease Ulp2 triggers selection of aneuploidy via a two-step process. PLoS Genetics. 2022 Dec 27;18(12):e1010576. doi: 10.1371/journal.pgen.1010576. PMID: 36574460; PMCID: PMC9829183.
Link to PLoS Genetics
Burrack L, Todd RT, Soisangwan N, Wiederhold NP, Selmecki A. (2022)
Genomic Diversity across Candida auris Clinical Isolates Shapes Rapid Development of Antifungal Resistance In Vitro and In Vivo. mBio. 2022 July 5.
Link to mBio
Perfect JR, Krysan DJ, Del Poeta M, Selmecki AM, Brown JCS, Cowen LE. (2022).
Editorial: Antifungal Pipeline: Build It Strong; Build It Better!
Front Cell Infect Microbiol. 2022 Mar 16;12:881272. doi: 10.3389/fcimb.2022.881272. eCollection 2022.
PMID: 35372097
MacAlpine J, Daniel-Ivad M, Liu Z, Yano J, Revie NM, Todd RT, Stogios PJ, Sanchez H, O'Meara TR, Tompkins TA, Savchenko A, Selmecki A, Veri AO, Andes DR, Fidel PL Jr, Robbins N, Nodwell J, Whitesell L, Cowen LE.
A small molecule produced by Lactobacillus species blocks Candida albicans filamentation by inhibiting a DYRK1-family kinase. Nature Communications. 2021 Oct 22;12(1):6151. PMID: 34686660
Link to Nature Communications
Yang F, Todd RT, Selmecki A, Jiang Y, Cao Y, Berman J. (2021)
The fitness costs and benefits of trisomy of each Candida albicans chromosome. Genetics. 2021 April 9; doi: 10.1093/genetics/iyab056
Todd RT, Selmecki A. (2020)
Expandable and reversible copy number amplification drives rapid adaptation to antifungal drugs. eLife. 2020;9:e58349.
Link to eLife.
Todd RT, Wikoff T, Forche A, Selmecki A. (2019)
Genome Plasticity in Candida albicans is driven by long repeat sequences. eLife. 2019;8:e45954.
Link to eLife.
Forche A, Solis NV, Swidergall M, Thomas R, Guyer A, Beach A, Cromie G, Le GT, Lowell E, Pavelka N, Berman J, Dudley AM, Selmecki A, Filler SG. (2019)
Selection of Candida albicans Trisomy during Oropharyngeal Infection Results in a Commensal-Like Phenotype. PLOS Genetics. 15 May. 15(5):e1008137. doi.org/10.1371/journal.pgen.1008137
Link to PLOS Genetics
Harrison LB, Fowler RC, Abdalhamid B, Selmecki A, and Hanson ND. (2019)
lptG Contributes to Changes in Membrane Permeability and the Emergence of Multidrug Hypersusceptibility in a Cystic Fibrosis Isolate of Pseudomonas aeruginosa. MicrobiologyOpen. Apr 12:e844. doi: 10.1002/mbo3.844. PubMed PMID: 30977288
Harrison LB, Selmecki A, Hanson ND. (2019)
Draft genome assemblies of clinical isolates of Klebsiella pneumoniaeV9011662 and Enterobacter hormaechei Entb306. Microbiology Resource Announcements. Apr 11;8(15). pii: e00091-19. doi: 10.1128/MRA.00091-19. PubMed PMID: 30975800.
Polvi EJ, Veri AO, Liu Z, Hossain S, Hyde S, Kim SH, Tebbji F, Sellam A, Todd RT, Xie JL, Lin ZY, Wong CJ, Shapiro RS, Whiteway M, Robbins N, Gingras AC, Selmecki A, Cowen LE. (2019)
Functional divergence of a global regulatory complex governing fungal filamentation. PLoS Genetics. Jan 7;15(1):e1007901. eCollection 2019 Jan. PMID: 30615616.
Link to PLOS Genetics
Todd RT, Braverman A, Selmecki A. (2018)
Flow Cytometry Analysis of Fungal Ploidy.
Current Protocols in Microbiology. July 20:e58.
Link to Current Protocols in Microbiology
Franke JD, Blomberg WR, Todd RT, Thomas RW, Selmecki A. (2018)
Assembly of a Complete Genome Sequence for Gemmata obscuriglobus Reveals a Novel Prokaryotic rRNA Operon Gene Architecture. Antonie Van Leeuwenhoek. May 21.
Link to Antonie Van Leeuwenhoek
Jelenić I., Selmecki A., Laan L., Pavin N. (2018)
Spindle Dynamics Model Explains Chromosome Loss Rates in Yeast Polyploid Cells. Frontiers in Genetics.
Link to Frontiers in Genetics
Harley O'Connor Mount, Nicole Revie, Robert T. Todd, Kaitlin Anstett, Cathy Collins, Michael Costanzo, Charles Boone, Nicole Robbins, Anna Selmecki, and Leah E. Cowen. (2018)
Global Analysis of Genetic Circuitry and Adaptive Mechanisms Enabling Resistance to the Azole Antifungal Drugs. PLOS Genetics. 14(4):e1007319.
Link to PLOS Genetics
Todd RT, Forche A, Selmecki A. (2017)
Ploidy Variation in Fungi: Polyploidy, Aneuploidy, and Genome Evolution. The Fungal Kingdom. Chapter 28. Edited by Joseph Heitman, Barbara Howlett, Pedro Crous, Eva Stukenbrock, Timothy James, and Neil Gow.
Link to The Fungal Kingdom
Xie JL, Qin L, Miao Z, Grys BT, Diaz JC, Ting K, Krieger JR, Tong J, Tan K, Leach MD, Ketela T, Moran MF, Krysan DJ, Boone C, Andrews BJ, Selmecki A, Ho Wong K, Robbins N, Cowen LE. (2017)
The Candida albicans transcription factor Cas5 couples stress responses, drug resistance and cell cycle regulation. Nature Communications 8(1):499.
Link to Nature Communications
Scott A, Richmond P, Dowell D, Selmecki A. (2017)
The influence of polyploidy on the evolution of yeast grown in a sub-optimal carbon source. Molecular Biology and Evolution.
Link to Molecular Biology and Evolution
Todd RT, Forche A, Selmecki A. (2017)
Ploidy Variation in Fungi: Polyploidy, Aneuploidy, and Genome Evolution. Microbiology Spectrum. 5 (4).
Link to Microbiology Spectrum
Selmecki A*, Maruvka Y, Richmond P, Guillet M, Shoresh N, Sorenson A, Kishony R, Michor F, Dowell R, Pellman D. (2015)
Polyploidy can drive rapid adaptation in yeast. Nature. 519 (7543): 349-52.
*Co-corresponding author
Link to Nature
Andaluz E, Bellido A, Gómez-Raja J, Selmecki A, Bouchonville K, Calderone R, Berman J and Larriba G. (2011) Rad52 function prevents chromosome loss and truncation in Candida albicans. Molecular Microbiology. 79 (6): 1462-82.
Link to Molecular Microbiology
Selmecki A, Forche A, and Berman J. (2010)
Genomic plasticity of the human fungal pathogen Candida albicans. Review article. Eukaryotic Cell. 9 (7): 991-1008.
Link to Eukaryotic Cell
Zacchi LF, Selmecki A, Berman J, and Davis DA. (2010)
Low dosage of histone H4 leads to growth defects and morphological changes in Candida albicans. PLoS One. 5 (5): e10629.
Link to PLOS One
Selmecki A, Dulmage K, Anderson J, Cowen L, Berman J. (2009)
Acquisition of aneuploidy provides increased fitness during the evolution of antifungal drug resistance. PLoS Genetics. 5 (10): e1000705.
Link to PLOS Genetics
Bouchonville K, Forche A, Tang K, Selmecki A, and Berman J. (2009)
Aneuploid chromosomes are highly unstable during DNA transformation of C. albicans. Eukaryotic Cell. 8 (10): 1554-66.
Link to Eukaryotic Cell
Forche A, Magee PT, Selmecki A, Berman J, May G. (2009)
Evolution in Candida albicans populations during a single passage through a mouse host. Genetics. 182 (3): 799-811.
Link to Genetics
Ketel C, Wang HS, McClellan M, Bouchonville K, Selmecki A, Lahav T, Germi-Nejad M, Berman J. (2009) Neocentromeres form efficiently at multiple possible loci in Candida albicans. PLoS Genetics. 5 (3): e1000400.
Link to PLOS Genetics
Selmecki A, Gerami-Nejad M, Paulson C, Forche A, Berman J. (2008)
An isochromosome confers drug resistance in vivo by amplification of two genes, ERG11 and TAC1. Molecular Microbiology. 68 (3): 624-41.
Link to Molecular Microbiology
Legrand M, Forche A, Selmecki A, Chan C, Kirkpatrick D, Berman J. (2008)
Haplotype mapping of a diploid non-meiotic organism using existing and induced aneuploidies. PLoS Genetics. 4 (1): e1.
Link to PLOS Genetics
Coste AT, Selmecki A, Forche A, Diogo D, Bougnoux M, Berman J, d’Enfert C, Sanglard D. (2007)
Genotypic evolution of azole resistance mechanisms in sequential Candida albicans isolates. Eukaryotic Cell. 6 (10): 1889-1904.
Link to Eukaryotic Cell
Selmecki A, Forche A, Berman J. (2006)
Aneuploidy and isochromosome formation in drug-resistant Candida albicans. Science. 313 (5785): 367-70.
Link to Science
Coste AT, Turner V, Ischer F, Morschhauser J, Forche A, Selmecki A, Berman J, Bille J, Sanglard D. (2006)
A mutation in Tac1p, a transcription factor regulating CDR1 and CDR2, is coupled with loss of heterozygosity at Chromosome 5 to mediate antifungal resistance in Candida albicans. Genetics. 172 (4): 2139-56.
Link to Genetics
Selmecki A, Bergmann S, Berman J. (2005)
Comparative genome hybridization reveals widespread aneuploidy in Candida albicans laboratory strains. Molecular Microbiology. 55 (5): 1553-1565.
Link to Molecular Microbiology
Todd RT, Selmecki A. Copy Number Variation and Allele Ratio Analysis in Candida albicans Using Whole Genome Sequencing Data. Methods Mol Biol. 2023;2658:105-125. doi: 10.1007/978-1-0716-3155-3_8. PMID: 37024698.
Link to Methods in Molecular Biology
Be sure to check out the entire BOOK Antifungal Drug Resistance - Methods and Protocols!
Todd RT, Soisangwan N, Peters S, Kemp B, Crooks T, Gerstein A, Selmecki A. (2023)
Antifungal Drug Concentration Impacts the Spectrum of Adaptive Mutations in Candida albicans.
Molecular Biology and Evolution. Jan 4;40(1):msad009. doi: 10.1093/molbev/msad009. PMID: 36649220; PMCID: PMC9887641.
Link to Molecular Biology and Evolution
Rizzo M, Soisangwan N, Vega-Estevez S, Price RJ, Uyl C, Iracane E, Shaw M, Soetaert J,
Selmecki A, Buscaino A. (2022)
Stress combined with loss of the Candida albicans SUMO protease Ulp2 triggers selection of aneuploidy via a two-step process. PLoS Genetics. 2022 Dec 27;18(12):e1010576. doi: 10.1371/journal.pgen.1010576. PMID: 36574460; PMCID: PMC9829183.
Link to PLoS Genetics
Burrack L, Todd RT, Soisangwan N, Wiederhold NP, Selmecki A. (2022)
Genomic Diversity across Candida auris Clinical Isolates Shapes Rapid Development of Antifungal Resistance In Vitro and In Vivo. mBio. 2022 July 5.
Link to mBio
Perfect JR, Krysan DJ, Del Poeta M, Selmecki AM, Brown JCS, Cowen LE. (2022).
Editorial: Antifungal Pipeline: Build It Strong; Build It Better!
Front Cell Infect Microbiol. 2022 Mar 16;12:881272. doi: 10.3389/fcimb.2022.881272. eCollection 2022.
PMID: 35372097
MacAlpine J, Daniel-Ivad M, Liu Z, Yano J, Revie NM, Todd RT, Stogios PJ, Sanchez H, O'Meara TR, Tompkins TA, Savchenko A, Selmecki A, Veri AO, Andes DR, Fidel PL Jr, Robbins N, Nodwell J, Whitesell L, Cowen LE.
A small molecule produced by Lactobacillus species blocks Candida albicans filamentation by inhibiting a DYRK1-family kinase. Nature Communications. 2021 Oct 22;12(1):6151. PMID: 34686660
Link to Nature Communications
Yang F, Todd RT, Selmecki A, Jiang Y, Cao Y, Berman J. (2021)
The fitness costs and benefits of trisomy of each Candida albicans chromosome. Genetics. 2021 April 9; doi: 10.1093/genetics/iyab056
Todd RT, Selmecki A. (2020)
Expandable and reversible copy number amplification drives rapid adaptation to antifungal drugs. eLife. 2020;9:e58349.
Link to eLife.
Todd RT, Wikoff T, Forche A, Selmecki A. (2019)
Genome Plasticity in Candida albicans is driven by long repeat sequences. eLife. 2019;8:e45954.
Link to eLife.
Forche A, Solis NV, Swidergall M, Thomas R, Guyer A, Beach A, Cromie G, Le GT, Lowell E, Pavelka N, Berman J, Dudley AM, Selmecki A, Filler SG. (2019)
Selection of Candida albicans Trisomy during Oropharyngeal Infection Results in a Commensal-Like Phenotype. PLOS Genetics. 15 May. 15(5):e1008137. doi.org/10.1371/journal.pgen.1008137
Link to PLOS Genetics
Harrison LB, Fowler RC, Abdalhamid B, Selmecki A, and Hanson ND. (2019)
lptG Contributes to Changes in Membrane Permeability and the Emergence of Multidrug Hypersusceptibility in a Cystic Fibrosis Isolate of Pseudomonas aeruginosa. MicrobiologyOpen. Apr 12:e844. doi: 10.1002/mbo3.844. PubMed PMID: 30977288
Harrison LB, Selmecki A, Hanson ND. (2019)
Draft genome assemblies of clinical isolates of Klebsiella pneumoniaeV9011662 and Enterobacter hormaechei Entb306. Microbiology Resource Announcements. Apr 11;8(15). pii: e00091-19. doi: 10.1128/MRA.00091-19. PubMed PMID: 30975800.
Polvi EJ, Veri AO, Liu Z, Hossain S, Hyde S, Kim SH, Tebbji F, Sellam A, Todd RT, Xie JL, Lin ZY, Wong CJ, Shapiro RS, Whiteway M, Robbins N, Gingras AC, Selmecki A, Cowen LE. (2019)
Functional divergence of a global regulatory complex governing fungal filamentation. PLoS Genetics. Jan 7;15(1):e1007901. eCollection 2019 Jan. PMID: 30615616.
Link to PLOS Genetics
Todd RT, Braverman A, Selmecki A. (2018)
Flow Cytometry Analysis of Fungal Ploidy.
Current Protocols in Microbiology. July 20:e58.
Link to Current Protocols in Microbiology
Franke JD, Blomberg WR, Todd RT, Thomas RW, Selmecki A. (2018)
Assembly of a Complete Genome Sequence for Gemmata obscuriglobus Reveals a Novel Prokaryotic rRNA Operon Gene Architecture. Antonie Van Leeuwenhoek. May 21.
Link to Antonie Van Leeuwenhoek
Jelenić I., Selmecki A., Laan L., Pavin N. (2018)
Spindle Dynamics Model Explains Chromosome Loss Rates in Yeast Polyploid Cells. Frontiers in Genetics.
Link to Frontiers in Genetics
Harley O'Connor Mount, Nicole Revie, Robert T. Todd, Kaitlin Anstett, Cathy Collins, Michael Costanzo, Charles Boone, Nicole Robbins, Anna Selmecki, and Leah E. Cowen. (2018)
Global Analysis of Genetic Circuitry and Adaptive Mechanisms Enabling Resistance to the Azole Antifungal Drugs. PLOS Genetics. 14(4):e1007319.
Link to PLOS Genetics
Todd RT, Forche A, Selmecki A. (2017)
Ploidy Variation in Fungi: Polyploidy, Aneuploidy, and Genome Evolution. The Fungal Kingdom. Chapter 28. Edited by Joseph Heitman, Barbara Howlett, Pedro Crous, Eva Stukenbrock, Timothy James, and Neil Gow.
Link to The Fungal Kingdom
Xie JL, Qin L, Miao Z, Grys BT, Diaz JC, Ting K, Krieger JR, Tong J, Tan K, Leach MD, Ketela T, Moran MF, Krysan DJ, Boone C, Andrews BJ, Selmecki A, Ho Wong K, Robbins N, Cowen LE. (2017)
The Candida albicans transcription factor Cas5 couples stress responses, drug resistance and cell cycle regulation. Nature Communications 8(1):499.
Link to Nature Communications
Scott A, Richmond P, Dowell D, Selmecki A. (2017)
The influence of polyploidy on the evolution of yeast grown in a sub-optimal carbon source. Molecular Biology and Evolution.
Link to Molecular Biology and Evolution
Todd RT, Forche A, Selmecki A. (2017)
Ploidy Variation in Fungi: Polyploidy, Aneuploidy, and Genome Evolution. Microbiology Spectrum. 5 (4).
Link to Microbiology Spectrum
Selmecki A*, Maruvka Y, Richmond P, Guillet M, Shoresh N, Sorenson A, Kishony R, Michor F, Dowell R, Pellman D. (2015)
Polyploidy can drive rapid adaptation in yeast. Nature. 519 (7543): 349-52.
*Co-corresponding author
Link to Nature
- Research Highlighted in Nature Reviews Genetics by Darren Burgess. (2015) Evolution: Polyploid gains. and by:
- Creighton University (2015)
- Science Daily (2015)
Andaluz E, Bellido A, Gómez-Raja J, Selmecki A, Bouchonville K, Calderone R, Berman J and Larriba G. (2011) Rad52 function prevents chromosome loss and truncation in Candida albicans. Molecular Microbiology. 79 (6): 1462-82.
Link to Molecular Microbiology
Selmecki A, Forche A, and Berman J. (2010)
Genomic plasticity of the human fungal pathogen Candida albicans. Review article. Eukaryotic Cell. 9 (7): 991-1008.
Link to Eukaryotic Cell
Zacchi LF, Selmecki A, Berman J, and Davis DA. (2010)
Low dosage of histone H4 leads to growth defects and morphological changes in Candida albicans. PLoS One. 5 (5): e10629.
Link to PLOS One
Selmecki A, Dulmage K, Anderson J, Cowen L, Berman J. (2009)
Acquisition of aneuploidy provides increased fitness during the evolution of antifungal drug resistance. PLoS Genetics. 5 (10): e1000705.
Link to PLOS Genetics
Bouchonville K, Forche A, Tang K, Selmecki A, and Berman J. (2009)
Aneuploid chromosomes are highly unstable during DNA transformation of C. albicans. Eukaryotic Cell. 8 (10): 1554-66.
Link to Eukaryotic Cell
Forche A, Magee PT, Selmecki A, Berman J, May G. (2009)
Evolution in Candida albicans populations during a single passage through a mouse host. Genetics. 182 (3): 799-811.
Link to Genetics
Ketel C, Wang HS, McClellan M, Bouchonville K, Selmecki A, Lahav T, Germi-Nejad M, Berman J. (2009) Neocentromeres form efficiently at multiple possible loci in Candida albicans. PLoS Genetics. 5 (3): e1000400.
Link to PLOS Genetics
Selmecki A, Gerami-Nejad M, Paulson C, Forche A, Berman J. (2008)
An isochromosome confers drug resistance in vivo by amplification of two genes, ERG11 and TAC1. Molecular Microbiology. 68 (3): 624-41.
Link to Molecular Microbiology
Legrand M, Forche A, Selmecki A, Chan C, Kirkpatrick D, Berman J. (2008)
Haplotype mapping of a diploid non-meiotic organism using existing and induced aneuploidies. PLoS Genetics. 4 (1): e1.
Link to PLOS Genetics
Coste AT, Selmecki A, Forche A, Diogo D, Bougnoux M, Berman J, d’Enfert C, Sanglard D. (2007)
Genotypic evolution of azole resistance mechanisms in sequential Candida albicans isolates. Eukaryotic Cell. 6 (10): 1889-1904.
Link to Eukaryotic Cell
Selmecki A, Forche A, Berman J. (2006)
Aneuploidy and isochromosome formation in drug-resistant Candida albicans. Science. 313 (5785): 367-70.
Link to Science
- Research Highlighted in Nature Reviews Genetics by Sheilagh Molloy. (2006) Fungal genetics: Fungal resistance needs a little extra. Nature Reviews Genetics 7, 668
Coste AT, Turner V, Ischer F, Morschhauser J, Forche A, Selmecki A, Berman J, Bille J, Sanglard D. (2006)
A mutation in Tac1p, a transcription factor regulating CDR1 and CDR2, is coupled with loss of heterozygosity at Chromosome 5 to mediate antifungal resistance in Candida albicans. Genetics. 172 (4): 2139-56.
Link to Genetics
Selmecki A, Bergmann S, Berman J. (2005)
Comparative genome hybridization reveals widespread aneuploidy in Candida albicans laboratory strains. Molecular Microbiology. 55 (5): 1553-1565.
Link to Molecular Microbiology
