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Items: 33

1.

Global analysis of mutations driving microevolution of a heterozygous diploid fungal pathogen.

Ene IV, Farrer RA, Hirakawa MP, Agwamba K, Cuomo CA, Bennett RJ.

Proc Natl Acad Sci U S A. 2018 Sep 11;115(37):E8688-E8697. doi: 10.1073/pnas.1806002115. Epub 2018 Aug 27.

2.

MARDy: Mycology Antifungal Resistance Database.

Nash A, Sewell T, Farrer RA, Abdolrasouli A, Shelton JMG, Fisher MC, Rhodes J.

Bioinformatics. 2018 Sep 15;34(18):3233-3234. doi: 10.1093/bioinformatics/bty321.

3.

Author Correction: Genomic epidemiology of the UK outbreak of the emerging human fungal pathogen Candida auris.

Rhodes J, Abdolrasouli A, Farrer RA, Cuomo CA, Aanensen DM, Armstrong-James D, Fisher MC, Schelenz S.

Emerg Microbes Infect. 2018 May 31;7(1):104. doi: 10.1038/s41426-018-0098-x.

4.

Development and worldwide use of non-lethal, and minimal population-level impact, protocols for the isolation of amphibian chytrid fungi.

Fisher MC, Ghosh P, Shelton JMG, Bates K, Brookes L, Wierzbicki C, Rosa GM, Farrer RA, Aanensen DM, Alvarado-Rybak M, Bataille A, Berger L, Böll S, Bosch J, Clare FC, A Courtois E, Crottini A, Cunningham AA, Doherty-Bone TM, Gebresenbet F, Gower DJ, Höglund J, James TY, Jenkinson TS, Kosch TA, Lambertini C, Laurila A, Lin CF, Loyau A, Martel A, Meurling S, Miaud C, Minting P, Ndriantsoa S, O'Hanlon SJ, Pasmans F, Rakotonanahary T, Rabemananjara FCE, Ribeiro LP, Schmeller DS, Schmidt BR, Skerratt L, Smith F, Soto-Azat C, Tessa G, Toledo LF, Valenzuela-Sánchez A, Verster R, Vörös J, Waldman B, Webb RJ, Weldon C, Wombwell E, Zamudio KR, Longcore JE, Garner TWJ.

Sci Rep. 2018 May 17;8(1):7772. doi: 10.1038/s41598-018-24472-2.

5.

Recent Asian origin of chytrid fungi causing global amphibian declines.

O'Hanlon SJ, Rieux A, Farrer RA, Rosa GM, Waldman B, Bataille A, Kosch TA, Murray KA, Brankovics B, Fumagalli M, Martin MD, Wales N, Alvarado-Rybak M, Bates KA, Berger L, Böll S, Brookes L, Clare F, Courtois EA, Cunningham AA, Doherty-Bone TM, Ghosh P, Gower DJ, Hintz WE, Höglund J, Jenkinson TS, Lin CF, Laurila A, Loyau A, Martel A, Meurling S, Miaud C, Minting P, Pasmans F, Schmeller DS, Schmidt BR, Shelton JMG, Skerratt LF, Smith F, Soto-Azat C, Spagnoletti M, Tessa G, Toledo LF, Valenzuela-Sánchez A, Verster R, Vörös J, Webb RJ, Wierzbicki C, Wombwell E, Zamudio KR, Aanensen DM, James TY, Gilbert MTP, Weldon C, Bosch J, Balloux F, Garner TWJ, Fisher MC.

Science. 2018 May 11;360(6389):621-627. doi: 10.1126/science.aar1965.

PMID:
29748278
6.

Genomic epidemiology of the UK outbreak of the emerging human fungal pathogen Candida auris.

Rhodes J, Abdolrasouli A, Farrer RA, Cuomo CA, Aanensen DM, Armstrong-James D, Fisher MC, Schelenz S.

Emerg Microbes Infect. 2018 Mar 29;7(1):43. doi: 10.1038/s41426-018-0045-x. Erratum in: Emerg Microbes Infect. 2018 May 31;7(1):104.

7.

Synima: a Synteny imaging tool for annotated genome assemblies.

Farrer RA.

BMC Bioinformatics. 2017 Nov 21;18(1):507. doi: 10.1186/s12859-017-1939-7.

8.

Describing Genomic and Epigenomic Traits Underpinning Emerging Fungal Pathogens.

Farrer RA, Fisher MC.

Adv Genet. 2017;100:73-140. doi: 10.1016/bs.adgen.2017.09.009. Epub 2017 Oct 28. Review.

PMID:
29153405
9.

Genomic innovations linked to infection strategies across emerging pathogenic chytrid fungi.

Farrer RA, Martel A, Verbrugghe E, Abouelleil A, Ducatelle R, Longcore JE, James TY, Pasmans F, Fisher MC, Cuomo CA.

Nat Commun. 2017 Mar 21;8:14742. doi: 10.1038/ncomms14742.

10.

Microevolution of Serial Clinical Isolates of Cryptococcus neoformans var. grubii and C. gattii.

Chen Y, Farrer RA, Giamberardino C, Sakthikumar S, Jones A, Yang T, Tenor JL, Wagih O, Van Wyk M, Govender NP, Mitchell TG, Litvintseva AP, Cuomo CA, Perfect JR.

MBio. 2017 Mar 7;8(2). pii: e00166-17. doi: 10.1128/mBio.00166-17.

11.

Microevolutionary traits and comparative population genomics of the emerging pathogenic fungus Cryptococcus gattii.

Farrer RA, Voelz K, Henk DA, Johnston SA, Fisher MC, May RC, Cuomo CA.

Philos Trans R Soc Lond B Biol Sci. 2016 Dec 5;371(1709). pii: 20160021. doi: 10.1098/rstb.2016.0021.

12.

Zinc Cluster Transcription Factors Alter Virulence in Candida albicans.

Issi L, Farrer RA, Pastor K, Landry B, Delorey T, Bell GW, Thompson DA, Cuomo CA, Rao RP.

Genetics. 2017 Feb;205(2):559-576. doi: 10.1534/genetics.116.195024. Epub 2016 Dec 7.

13.

Genome Diversity, Recombination, and Virulence across the Major Lineages of Paracoccidioides.

Muñoz JF, Farrer RA, Desjardins CA, Gallo JE, Sykes S, Sakthikumar S, Misas E, Whiston EA, Bagagli E, Soares CM, Teixeira MM, Taylor JW, Clay OK, McEwen JG, Cuomo CA.

mSphere. 2016 Sep 28;1(5). pii: e00213-16. eCollection 2016 Sep-Oct.

14.

Hsf1 and Hsp90 orchestrate temperature-dependent global transcriptional remodelling and chromatin architecture in Candida albicans.

Leach MD, Farrer RA, Tan K, Miao Z, Walker LA, Cuomo CA, Wheeler RT, Brown AJ, Wong KH, Cowen LE.

Nat Commun. 2016 May 26;7:11704. doi: 10.1038/ncomms11704.

15.

Genome Evolution and Innovation across the Four Major Lineages of Cryptococcus gattii.

Farrer RA, Desjardins CA, Sakthikumar S, Gujja S, Saif S, Zeng Q, Chen Y, Voelz K, Heitman J, May RC, Fisher MC, Cuomo CA.

MBio. 2015 Sep 1;6(5):e00868-15. doi: 10.1128/mBio.00868-15.

16.

Wildlife disease. Recent introduction of a chytrid fungus endangers Western Palearctic salamanders.

Martel A, Blooi M, Adriaensen C, Van Rooij P, Beukema W, Fisher MC, Farrer RA, Schmidt BR, Tobler U, Goka K, Lips KR, Muletz C, Zamudio KR, Bosch J, Lötters S, Wombwell E, Garner TW, Cunningham AA, Spitzen-van der Sluijs A, Salvidio S, Ducatelle R, Nishikawa K, Nguyen TT, Kolby JE, Van Bocxlaer I, Bossuyt F, Pasmans F.

Science. 2014 Oct 31;346(6209):630-1. doi: 10.1126/science.1258268.

17.

Transmission of Hypervirulence traits via sexual reproduction within and between lineages of the human fungal pathogen cryptococcus gattii.

Voelz K, Ma H, Phadke S, Byrnes EJ, Zhu P, Mueller O, Farrer RA, Henk DA, Lewit Y, Hsueh YP, Fisher MC, Idnurm A, Heitman J, May RC.

PLoS Genet. 2013;9(9):e1003771. doi: 10.1371/journal.pgen.1003771. Epub 2013 Sep 5.

18.

Chromosomal copy number variation, selection and uneven rates of recombination reveal cryptic genome diversity linked to pathogenicity.

Farrer RA, Henk DA, Garner TW, Balloux F, Woodhams DC, Fisher MC.

PLoS Genet. 2013;9(8):e1003703. doi: 10.1371/journal.pgen.1003703. Epub 2013 Aug 15.

19.

Using false discovery rates to benchmark SNP-callers in next-generation sequencing projects.

Farrer RA, Henk DA, MacLean D, Studholme DJ, Fisher MC.

Sci Rep. 2013;3:1512. doi: 10.1038/srep01512.

20.

Genome analyses of an aggressive and invasive lineage of the Irish potato famine pathogen.

Cooke DE, Cano LM, Raffaele S, Bain RA, Cooke LR, Etherington GJ, Deahl KL, Farrer RA, Gilroy EM, Goss EM, Grünwald NJ, Hein I, MacLean D, McNicol JW, Randall E, Oliva RF, Pel MA, Shaw DS, Squires JN, Taylor MC, Vleeshouwers VG, Birch PR, Lees AK, Kamoun S.

PLoS Pathog. 2012;8(10):e1002940. doi: 10.1371/journal.ppat.1002940. Epub 2012 Oct 4.

21.

Multiple emergences of genetically diverse amphibian-infecting chytrids include a globalized hypervirulent recombinant lineage.

Farrer RA, Weinert LA, Bielby J, Garner TW, Balloux F, Clare F, Bosch J, Cunningham AA, Weldon C, du Preez LH, Anderson L, Pond SL, Shahar-Golan R, Henk DA, Fisher MC.

Proc Natl Acad Sci U S A. 2011 Nov 15;108(46):18732-6. doi: 10.1073/pnas.1111915108. Epub 2011 Nov 7.

22.

Genome evolution following host jumps in the Irish potato famine pathogen lineage.

Raffaele S, Farrer RA, Cano LM, Studholme DJ, MacLean D, Thines M, Jiang RH, Zody MC, Kunjeti SG, Donofrio NM, Meyers BC, Nusbaum C, Kamoun S.

Science. 2010 Dec 10;330(6010):1540-3. doi: 10.1126/science.1193070.

23.

De novo assembly of the Pseudomonas syringae pv. syringae B728a genome using Illumina/Solexa short sequence reads.

Farrer RA, Kemen E, Jones JD, Studholme DJ.

FEMS Microbiol Lett. 2009 Feb;291(1):103-11. doi: 10.1111/j.1574-6968.2008.01441.x. Epub 2008 Dec 9.

24.

Single-molecule detection with a two-photon fluorescence microscope with fast-scanning capabilities and polarization sensitivity.

Farrer RA, Previte MJ, Olson CE, Peyser LA, Fourkas JT, So PT.

Opt Lett. 1999 Dec 15;24(24):1832-4.

PMID:
18079946
25.

Multiphoton fabrication.

LaFratta CN, Fourkas JT, Baldacchini T, Farrer RA.

Angew Chem Int Ed Engl. 2007;46(33):6238-58.

PMID:
17654468
26.

Ultrafast orientational dynamics of nanoconfined benzene.

Zhu X, Farrer RA, Fourkas JT.

J Phys Chem B. 2005 Jul 7;109(26):12724-30.

PMID:
16852576
27.

Optical Kerr effect spectroscopy using time-delayed pairs of pump pulses with orthogonal polarizations.

Zhu X, Farrer RA, Fourkas JT.

J Phys Chem B. 2005 May 5;109(17):8481-8.

PMID:
16851996
28.

Selective functionalization of 3-D polymer microstructures.

Farrer RA, LaFratta CN, Li L, Praino J, Naughton MJ, Saleh BE, Teich MC, Fourkas JT.

J Am Chem Soc. 2006 Feb 15;128(6):1796-7.

PMID:
16464071
29.

Highly efficient multiphoton-absorption-induced luminescence from gold nanoparticles.

Farrer RA, Butterfield FL, Chen VW, Fourkas JT.

Nano Lett. 2005 Jun;5(6):1139-42.

PMID:
15943457
30.

In situ observation of molecular diffusion in solid supports using two-photon fluorescence microscopy.

Taniguchi MM, Farrer RA, Fourkas JT.

J Comb Chem. 2005 Jan-Feb;7(1):54-7.

PMID:
15638479
31.
32.

Production, analysis, and application of spatially resolved shells in solid-phase polymer spheres.

Farrer RA, Copeland GT, Previte MJ, Okamoto MM, Miller SJ, Fourkas JT.

J Am Chem Soc. 2002 Mar 6;124(9):1994-2003.

PMID:
11866613
33.

Immobilization of Olefin Metathesis Catalysts on Monolithic Sol-Gel: Practical, Efficient, and Easily Recyclable Catalysts for Organic and Combinatorial Synthesis.

Kingsbury JS, Garber SB, Giftos JM, Gray BL, Okamoto MM, Farrer RA, Fourkas JT, Hoveyda AH.

Angew Chem Int Ed Engl. 2001 Nov 19;40(22):4251-4256. doi: 10.1002/1521-3773(20011119)40:22<4251::AID-ANIE4251>3.0.CO;2-L.

PMID:
29712112

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