Killer plasmids as drivers of genetic code changes during yeast evolution

Project Information

CODEKILLER

Grant agreement ID: 789341

DOI

10.3030/789341

Project closed

EC signature date 25 May 2018

Start date 1 October 2018

End date 31 March 2025

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 2 368 356,00

EU contribution

€ 2 368 356,00

Coordinated by

UNIVERSITY COLLEGE DUBLIN, NATIONAL UNIVERSITY OF IRELAND, DUBLIN
Ireland

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Peer reviewed articles (17)

Analysis of clinical<i>Candida parapsilosis</i>isolates reveals copy number variation in key fluconazole resistance genes

Author(s): Sean Bergin, Laura A. Doorley, Jeffrey M. Rybak, Kenneth H. Wolfe, Geraldine Butler, Christina A. Cuomo, P. David Rogers
Published in: Antimicrobial Agents and Chemotherapy, Issue 68, 2023, Page(s) aac.01619-23, ISSN 1098-6596
Publisher: American Society for Microbiology
DOI: 10.1101/2023.12.13.571446

Identification of genetic variants of the industrial yeast Komagataella phaffii (Pichia pastoris) that contribute to increased yields of secreted heterologous proteins

Author(s): Benjamin Offei, Stephanie Braun-Galleani, Anjan Venkatesh, William T. Casey, Kevin E. O’Connor, Kevin P. Byrne, Kenneth H. Wolfe
Published in: PLOS Biology, Issue 20, 2022, Page(s) e3001877, ISSN 1545-7885
Publisher: Public Library of Science (PLoS)
DOI: 10.1371/journal.pbio.3001877

Mating-Type Switching in Budding Yeasts, from Flip/Flop Inversion to Cassette Mechanisms

Author(s): Kenneth H. Wolfe, Geraldine Butler
Published in: Microbiology and Molecular Biology Reviews, Issue 86, 2022, Page(s) mmbr.00007-21, ISSN 1092-2172
Publisher: American Society for Microbiology
DOI: 10.1128/mmbr.00007-21

Draft genome sequence of the yeast <i>Schwanniomyces capriottii</i> strain UCD805, isolated from soil in Ireland

Author(s): Padraic G. Heneghan, Adam P. Ryan, Eoin Ó Cinnéide, Jordan Davies, Cathal Bracken, Victoria Ogundipe, Maria Doheny, Liam Lenihan, Anastasia Passalaris, Rosalind Walker, Kenneth H. Wolfe, Geraldine Butler, Kevin P. Byrne
Published in: Microbiology Resource Announcements, Issue 13, 2024, Page(s) mra.01073-23, ISSN 2576-098X
Publisher: American Society for Microbiology
DOI: 10.1128/mra.01073-23

Zymocin-like killer toxin gene clusters in the nuclear genomes of filamentous fungi

Author(s): Padraic G. Heneghan, Letal I. Salzberg, Kenneth H. Wolfe
Published in: Fungal Genetics and Biology, Issue 176, 2025, Page(s) 103957, ISSN 1087-1845
Publisher: Academic Press
DOI: 10.1016/j.fgb.2024.103957

WHO elements – A new category of selfish genetic elements at the borderline between homing elements and transposable elements

Author(s): Matthieu Osborne, Athaliah Fubara, Eoin Ó Cinnéide, Aisling Y. Coughlan, Kenneth H. Wolfe
Published in: Seminars in Cell &amp; Developmental Biology, Issue 163, 2024, Page(s) 2-13, ISSN 1084-9521
Publisher: Academic Press
DOI: 10.1016/j.semcdb.2024.04.001

Genomic diversity, chromosomal rearrangements, and interspecies hybridization in the <i>Ogataea polymorpha</i> species complex

Author(s): Sara J Hanson, Eoin Ó Cinnéide, Letal I Salzberg, Kenneth H Wolfe, Jamie McGowan, David A Fitzpatrick, Kate Matlin
Published in: G3, Issue 11, 2024, Page(s) jkab211, ISSN 2160-1836
Publisher: Genetics Society of America
DOI: 10.1093/g3journal/jkab211

Genome sequences of two isolates of the yeast <i>Candida zeylanoides</i> : UCD849 from soil in Ireland, and AWD from an African wild dog

Author(s): Richard W. McLaughlin, Conor Hession, Sean Bergin, Aoife Cosgrove, Andrew Dowd, Niall Garvey, Gabrielle Litovskich, Evita Osaigbovo, Denis Popa, Cynthia Thuku, Geraldine Butler, Kenneth H. Wolfe, Kevin P. Byrne
Published in: Microbiology Resource Announcements, Issue 13, 2024, Page(s) mra.01081-23, ISSN 2576-098X
Publisher: American Society for Microbiology
DOI: 10.1128/mra.01081-23

Genome Analysis of a Newly Discovered Yeast Species, Hanseniaspora menglaensis

Author(s): Adam P. Ryan, Marizeth Groenewald, Maudy Th. Smith, Cian Holohan, Teun Boekhout, Kenneth H. Wolfe, Geraldine Butler
Published in: Journal of Fungi, Issue 10, 2025, Page(s) 180, ISSN 2309-608X
Publisher: MDPI AG
DOI: 10.3390/jof10030180

Evolution of the Genetic Code in the Ascoideales (CUG-Ser2) Yeast Clade: The Ancestral tRNA-Leu(CAG) Gene Is Retained in Most <i>Saccharomycopsis</i> Species but Is Nonessential and Not Used for Translation

Author(s): Eoin Ó Cinnéide, Caitriona Scaife, Eugène T Dillon, Kenneth H Wolfe
Published in: Genome Biology and Evolution, Issue 16, 2024, Page(s) evae166, ISSN 1759-6653
Publisher: Oxford University Press
DOI: 10.1093/gbe/evae166

The yeast mating-type switching endonuclease HO is a domesticated member of an unorthodox homing genetic element family

Author(s): Aisling Y Coughlan, Lisa Lombardi, Stephanie Braun-Galleani, Alexandre AR Martos, Virginie Galeote, Frédéric Bigey, Sylvie Dequin, Kevin P Byrne, Kenneth H Wolfe
Published in: eLife, Issue 9, 2020, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.55336

Origin of Lactose Fermentation in Kluyveromyces lactis by Interspecies Transfer of a Neo-functionalized Gene Cluster during Domestication

Author(s): Javier A. Varela, Martina Puricelli, Raúl A. Ortiz-Merino, Romina Giacomobono, Stephanie Braun-Galleani, Kenneth H. Wolfe, John P. Morrissey
Published in: Current Biology, Issue 29/24, 2019, Page(s) 4284-4290.e2, ISSN 0960-9822
Publisher: Cell Press
DOI: 10.1016/j.cub.2019.10.044

Polymorphic centromere locations in the pathogenic yeast Candida parapsilosis

Author(s): Mihaela Ola, Caoimhe E. O'Brien, Aisling Y. Coughlan, Qinxi Ma, Paul D. Donovan, Kenneth H. Wolfe, Geraldine Butler
Published in: Genome Research, Issue 30/5, 2020, Page(s) 684-696, ISSN 1088-9051
Publisher: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gr.257816.119

Multiple Reinventions of Mating-type Switching during Budding Yeast Evolution

Author(s): Tadeusz Krassowski, Jacek Kominek, Xing-Xing Shen, Dana A. Opulente, Xiaofan Zhou, Antonis Rokas, Chris Todd Hittinger, Kenneth H. Wolfe
Published in: Current Biology, Issue 29/15, 2019, Page(s) 2555-2562.e8, ISSN 0960-9822
Publisher: Cell Press
DOI: 10.1016/j.cub.2019.06.056

Giant GAL gene clusters for the melibiose‐galactose pathway in Torulaspora

Author(s): Anjan Venkatesh, Anthony L. Murray, Aisling Y. Coughlan, Kenneth H. Wolfe
Published in: Yeast, Issue 38/1, 2021, Page(s) 117-126, ISSN 0749-503X
Publisher: John Wiley & Sons Inc.
DOI: 10.1002/yea.3532

Ancient origin and high diversity of zymocin-like killer toxins in the budding yeast subphylum

Author(s): Padraic G. Heneghan, Letal I. Salzberg, Eoin Ó Cinnéide, Jan A. Dewald, Christina E. Weinberg, Kenneth H. Wolfe
Published in: Proceedings of the National Academy of Sciences of the USA, Issue 122, 2025, Page(s) e2419860122, ISSN 1091-6490
Publisher: National Academy of Sciences
DOI: 10.1101/2024.09.27.615389

A widespread inversion polymorphism conserved among Saccharomyces species is caused by recurrent homogenization of a sporulation gene family

Author(s): Letal I. Salzberg, Alexandre A. R. Martos, Lisa Lombardi, Lars S. Jermiin, Alfonso Blanco, Kevin P. Byrne, Kenneth H. Wolfe
Published in: PLOS Genetics, Issue 18, 2022, Page(s) e1010525, ISSN 1553-7404
Publisher: Public Library of Science (PLoS)
DOI: 10.1371/journal.pgen.1010525