Milestones in Candida albicans gene manipulation

Fungal Genetics and Biology

Volumn 48, Issue 9, 2011, Pages 858-865

  Samaranayake, Dhanushki P ^a   Hanes, Steven D ^b  

^a STATE UNIVERSITY OF NEW YORK   (United States)

^b State University of New York Upstate Medical University: College of Medicine   (United States)

Author keywords

Candida albicans; Gene manipulation; Homologous recombination; Pathogenic fungi; Selectable marker

Indexed keywords

MYCOPHENOLIC ACID; NOURSEOTHRICIN;

ANEUPLOIDY; ANTIFUNGAL RESISTANCE; ASPERGILLUS; AUXOTROPHY; CANDIDA ALBICANS; FUNGAL GENE; FUNGAL GENOME; FUNGAL VIRULENCE; GENE CASSETTE; GENE DISRUPTION; GENE MUTATION; GENETIC MANIPULATION; GENETIC RECOMBINATION; MARKER GENE; NONHUMAN; PRIORITY JOURNAL; REVIEW; RNA INTERFERENCE; URA3 GENE;

CANDIDA ALBICANS; CANDIDIASIS; FUNGAL PROTEINS; GENE EXPRESSION REGULATION, FUNGAL; HUMANS;

CANDIDA ALBICANS; FUNGI;

EID: 79960567509     PISSN: 10871845     EISSN: 10960937     Source Type: Journal    
DOI: 10.1016/j.fgb.2011.04.003     Document Type: Review

References (79)

1. Arbour M., Epp E., Hogues H., Sellam A., Lacroix C., Rauceo J., Mitchell A., Whiteway M., Nantel A. Widespread occurrence of chromosomal aneuploidy following the routine production of Candida albicans mutants. FEMS Yeast Res. 2009, 9:1070-1077.
2. Barnett J.A. A history of research on yeasts 12: medical yeasts. Part 1. Candida albicans. Yeast 2008, 25:385-417.
3. Barton L.M., Prade R.A. Inducible RNA interference of brlAβ in Aspergillus nidulans. Euk. Cell 2008, 7:2004-2007.
4. Bouchonville K., Forche A., Tang K.E., Selmecki A., Berman J. Aneuploid chromosomes are highly unstable during DNA transformation of Candida albicans. Euk. Cell 2009, 8:1554-1566.
5. Brakhage A.A., Langfelder K. Menacing mold: the molecular biology of Aspergillus fumigatus. Annu. Rev. Microbiol. 2002, 56:433-455.
6. Brand A., MacCallum D.M., Brown A.J.P., Gow N.A.R., Odds F.C. Ectopic expression of URA3 can influence the virulence phenotypes and proteome of Candida albicans but can be overcome by targeted reintegration of URA3 at the RSP10 locus. Euk. Cell 2004, 3:900-909.
7. Brookman J.L., Denning D.W. Molecular genetics in Aspergillus fumigatus. Curr. Opin. Microbiol. 2000, 3:468-474.
8. Cannon R.D., Lamping E., Holmes A.R., Niimi K., Tanabe K., Niimi M., Monk B.C. Candida albicans drug resistance-another way to cope with stress. Microbiology 2007, 153:3211-3217.
9. Casalinuovo I.A., Di Francesco P., Garaci E. Fluconazole resistance in Candida albicans: a review of mechanism. Eur. Rev. Med. Pharmacol. Sci. 2004, 8:69-77.
10. Chen X., Magee B.B., Dawson D., Magee P.T., Kumamoto C.A. Chromosome 1 trisomy compromises the virulence of Candida albicans. Mol. Microbiol. 2004, 51:551-565.
11. Cheng S., Nguyen M.H., Zhang Z., Jia H., Handfield M., Clancy C.J. Evaluation of the roles of four Candida albicans genes in virulence by using gene disruption strains that express URA3 from the native locus. Infect Immun. 2003, 71:6101-6103.
12. Cox M.M., Layton S.L., Jiang T., Cole K., Hargis B.M., Berghman L.R., Bottje W.G., Kwon Y.M. Scarless and site-directed mutagenesis in Salmonella enteritidis chromosome. BMC Biotechnol. 2007, 7:59.
13. Davis D., Edwards J.E.Jr., Mitchell A.P., Ibrahim A.S. Candida albicans RIM101 pH response pathway is required for host-pathogen interactions. Infect. Immun. 2000, 68:5953-5959.
14. De Backer M.D., Magee P.T., Pla J. Recent developments in molecular genetics of Candida albicans. Annu. Rev. Microbiol. 2000, 54:463-498.
15. d'Enfert C., Goyard S., Rodriguez-Arnaveilhe S., Frangeul L., Jones L., Tekaia F., Bader O., Albrecht A., Castillo L., Dominguez A., Ernst J.F., Fradin C., Gaillardin C., Garcia-Sanchez S., de Groot P., Hube B., Klis F.M., Krishnamurthy S., Kunze D., Lopez M.C., Mavor A., Martin N., Moszer I., Onésime D., Perez Martin J., Sentandreu R., Valentin E., Brown A.J. CandidaDB: a genome database for Candida albicans pathogenomics. Nucleic Acids Res. 2005, 33(Database issue):D353-D357.
16. Dennison P.M., Ramsdale M., Manson C.L., Brown A.J. Gene disruption in Candida albicans using a synthetic, codon-optimised Cre-loxP system. Fungal Genet. Biol. 2005, 42:737-748.
17. De Rosa F.G., Garazzino S., Pasero D., Di Perri G., Ranieri V.M. Invasive candidiasis and candidemia: new guidelines. Minerva Anestesiol. 2009, 75:453-458.
18. Devasahayam G., Chaturvedi V., Hanes S.D. The Ess1 prolyl isomerase is required for growth and morphogenetic switching in Candida albicans. Genetics 2002, 160:37-48.
19. Doyle T.C., Nawotka K.A., Purchio A.F., Akin A.R., Francis K.P., Contag P.R. Expression of firefly luciferase in Candida albicans and its use in the selection of stable transformants. Microb. Pathog. 2006, 40:69-81.
20. Drinnenberg I.A., Weinberg D.E., Xie K.T., Mower J.P., Wolfe K.H., Fink G.R., Barte L.D.P. RNAi in budding yeast. Science 2009, 326:544-550.
21. Enloe B., Diamond A., Mitchell A.P. A single-transformation gene function test in diploid Candida albicans. J. Bacteriol. 2000, 182:5730-5736.
22. Epstein J.B., Hancock P.J., Nante L.S. Oral candidiasis in hematopoietic cell transplantation patients: an outcome-based analysis. Oral Surg. Oral Med. Oral Pathol. Oral Radiol. Endod. 2003, 96:154-163.
23. Fehér T., Karcagi I., Gyorfy Z., Umenhoffer K., Csörgo B., Pósfai G. Scarless engineering of the Escherichia coli genome. Methods Mol. Biol. 2008, 416:251-259.
24. Fonzi W.A., Irwin M.Y. Isogenic strain construction and gene mapping in Candida albicans. Genetics 1993, 134:717-728.
25. Fridkin S.K., Kaufman D., Edwards J.R., Shetty S., Horan T. Changing incidence of Candida bloodstream infections among NICU patients in the United States: 1995-2004. Pediatrics 2006, 117:1680-1687.
26. Goshorn A.K., Scherer S. Genetic analysis of prototrophic natural variants of Candida albicans. Genetics 1989, 123:667-673.
27. Gossen M., Freundlieb S., Bender G., Müller G., Hillen W., Bujard H. Transcriptional activation by tetracyclines in mammalian cells. Science 1995, 268:1766-1769.
28. García M.G., O'Connor J.E., García L.L., Martínez S.I., Herrero E., del Castillo Agudo L. Isolation of a Candida albicans gene, tightly linked to URA3, coding for a putative transcription factor that suppresses a Saccharomyces cerevisiae aft1 mutation. Yeast 2001, 18:301-311.
29. Heilmann C.J., Schneider S., Barker K.S., Rogers P.D., Morschhäuser J. An A643T mutation in the transcription factor Upc2p causes constitutive ERG11 upregulation and increased fluconazole resistance in Candida albicans. Antimicrob. Agents Chemother. 2010, 54:353-359.
30. Homann O.R., Dea J., Noble S.M., Johnson A.D. A phenotypic profile of the Candida albicans regulatory network. PLoS Genet. 2009, 5:e1000783.
31. Horn D.L., Neofytos D., Anaissie E.J., Fishman J.A., Steinbach W.J., Olyaei A.J., Marr K.A., Pfaller M.A., Chang C.H., Webster K.M. Epidemiology and outcomes of candidemia in 2019 patients: data from the prospective antifungal therapy alliance registry. Clin. Infect. Dis. 2009, 48:1695-1703.
32. Hua J., Meyer J.D., Lodge J.K. Development of positive selectable markers for the fungal pathogen Cryptococcus neoformans. Clin. Diagn. Lab. Immunol. 2000, 7:125-128.
33. Hull C.M., Heitman J. Genetics of Cryptococcus neoformans. Annu. Rev. Genet. 2002, 36:557-615.
34. Jones T., Federspiel N.A., Chibana H., Dungan J., Kalman S., Magee B.B., Newport G., Thorstenson Y.R., Agabian N., Magee P.T., Davis R.W., Scherer S. The diploid genome sequence of Candida albicans. Proc. Natl. Acad. Sci. USA 2004, 101:7329-7334.
35. Kao A.S., Brandt M.E., Pruitt W.R., Conn L.A., Perkins B.A., Stephens D.S., Baughman W.S., Reingold A.L., Rothrock G.A., Pfaller M.A., Pinner R.W., Hajjeh R.A. The epidemiology of candidemia in two United States cities: results of a population-based active surveillance. Clin. Infect. Dis. 1999, 29:1164-1170.
36. Köhler G.A., White T.C., Agabian N. Overexpression of a cloned IMP dehydrogenase gene of Candida albicans confers resistance to the specific inhibitor mycophenolic acid. J. Bacteriol. 1997, 179:2331-2338.
37. Lai C., Tan C., Huang Y., Shao P., Hsueh P. Current challenges in the management of invasive fungal infections. J. Infect. Chemother. 2008, 14:77-85.
38. Lay J., Henry L.K., Clifford J., Koltin Y., Bulawa C.E., Becker J.M. Altered expression of selectable marker URA3 in gene-disrupted Candida albicans strains complicates interpretation of virulence studies. Infect. Immun. 1998, 66:5301-5306.
39. Liang R., Liu J. Scarless and sequential gene modification in Pseudomonas using PCR product flanked by short homology regions. BMC Microbiol. 2010, 10:209.
40. Liu H., Cottrell T.R., Pierini L.M., Goldman W.E., Doering T.L. RNA interference in the pathogenic fungus Cryptococcus neoformans. Genetics 2002, 160:463-470.
41. Magee P.T., Gale C., Berman J., Davis D. Molecular genetic and genomic approaches to the study of medically important fungi. Infect. Immun. 2003, 71:2299-2309.
42. McDade H.C., Cox G.M. A new dominant selectable marker for use in Cryptococcus neoformans. Med. Mycol. 2001, 39:151-154.
43. Miceli M.H., Díaz J.A., Lee S.A. Emerging opportunistic yeast infections. Lancet Infect. Dis. 2011, 11:142-151.
44. Miller L.G., Hajjeh R.A., Edwards J.E. Estimating the cost of nosocomial candidemia in the united states. Clin. Infect. Dis. 2001, 32:1110.
45. Morschhäuser J., Michel S., Hacker J. Expression of a chromosomally integrated, single-copy GFP gene in Candida albicans, and its use as a reporter of gene regulation. Mol. Gen. Genet. 1998, 257:412-420.
46. Morschhäuser J., Michel S., Staib P. Sequential gene disruption in Candida albicans by FLP-mediated site-specific recombination. Mol. Microbiol. 1999, 32:547-556.
47. Mouyna I., Henry C., Doering T.L., Latgé J.P. Gene silencing with RNA interference in the human pathogenic fungus Aspergillus fumigatus. FEMS Microbiol. Lett. 2004, 237:317-324.
48. Müller F.M., Groll A.H., Walsh T.J. Current approaches to diagnosis and treatment of fungal infections in children infected with human immuno deficiency virus. Eur. J Pediatr. 1999, 158:187-199.
49. Murad A.M., Lee P.R., Broadbent I.D., Barelle C.J., Brown A.J. CIp10, an efficient and convenient integrating vector for Candida albicans. Yeast 2000, 16:325-327.
50. Narasipura S.D., Ren P., Dyavaiah M., Auger I., Chaturvedi V., Chaturvedi S. An efficient method for homologous gene reconstitution in Cryptococcus gattii using URA5 auxotrophic marker. Mycopathologia 2006, 162:401-409.
51. Navarro-García F., Pérez-Diaz R.M., Magee B.B., Pla J., Nombela C., Magee P. Chromosome reorganization in Candida albicans 1001 strain. J. Med. Vet. Mycol. 1995, 33:361-366.
52. Negredo A., Monteoliva L., Gil C., Pla J., Nombela C. Cloning, analysis and one-step disruption of the ARG5, 6 gene of Candida albicans. Microbiology. 1997, 143:297-302.
53. Noble S.M., Johnson A.D. Strains and strategies for large-scale gene deletion Studies of the diploid human fungal pathogen Candida albicans. Euk. Cell 2005, 4:298-309.
54. Noble S.M., Johnson A.D. Genetics of Candida albicans, a diploid human fungal pathogen. Annu. Rev. Genet. 2007, 41:193-211.
55. Noble S.M., French S., Kohn L.A., Chen V., Johnson A.D. Systematic screens of a Candida albicans homozygous deletion library decouple morphogenetic switching and pathogenicity. Nat. Genet. 2010, 42:590-598.
56. Odds F.C. Candida species and virulence. ASM News 1994, 60:313-318.
57. Oh J., Fung E., Schlecht U., Davis R.W., Giaever G., St Onge R.P., Deutschbauer A., Nislow C. Gene annotation and drug target discovery in Candida albicans with a tagged transposon mutant collection. PLoS Pathog. 2010, 6(pii):e1001140.
58. Park Y.N., Morschhäuser J. Tetracycline-inducible gene expression and gene deletion in Candida albicans. Euk. Cell 2005, 4:1328-1342.
59. Ramanan N., Wang Y. A high-affinity iron permease essential for Candida albicans virulence. Science 2000, 288:1062-1064.
60. Ramón A.M., Fonzi W.A. Diverged binding specificity of Rim101p, the Candida albicans ortholog of PacC. Euk. Cell 2003, 2:718-728.
61. Reuss O., Vik A., Kolter R., Morschhäuser J. The SAT1 flipper, an optimized tool for gene disruption in Candida albicans. Gene 2004, 341:119-127.
62. Roemer T., Jiang B., Davison J., Ketela T., Veillette K., Breton A., Tandia F., Linteau A., Sillaots S., Marta C., Martel N., Veronneau S., Lemieux S., Kauffman S., Becker J., Storms R., Boone C., Bussey H. Large-scale essential gene identification in Candida albicans and applications to antifungal drug discovery. Mol. Microbiol. 2003, 50:167-181.
63. Ruhnke M. Epidemiology of Candida albicans infections and role of non-Candida albicans yeasts. Curr. Drug Targets. 2006, 7:495-504.
64. Rustchenko E. Chromosome instability in Candida albicans. FEMS Yeast Res. 2007, 7:2-11.
65. Santos M.A., Tuite M.F. The CUG codon is decoded in vivo as serine and not leucine in Candida albicans. Nucleic Acids Res. 1995, 23:1481-1486.
66. Schelenz S., Abdallah S., Gray G., Stubbings H., Gow I., Baker P., Hunter P.R. Epidemiology of oral yeast colonization and infection in patients with hematological malignancies, head neck and solid tumors. J. Oral Pathol. Med. 2011, 40:83-89.
67. Selmecki A., Bergmann S., Berman J. Comparative genome hybridization reveals widespread aneuploidy in Candida albicans laboratory strains. Mol. Microbiol. 2005, 55:1553-1565.
68. Shao P.L., Huang L.M., Hsueh P.R. Recent advances and challenges in the treatment of invasive fungal infections. Int. J. Antimicrob. Agents 2007, 30:487-495.
69. Shen J., Guo W., Köhler J.R. CaNAT1, a heterologous dominant selectable marker for transformation of Candida albicans and other pathogenic Candida species. Infect. Immun. 2005, 73:1239-1242.
70. Srikantha T., Klapach A., Lorenz W.W., Tsai L.K., Laughlin L.A., Gorman J.A., Soll D.R. The sea pansy Renilla reniform is luciferase serves as a sensitive bioluminescent reporter for differential gene expression in Candida albicans. J. Bacteriol. 1996, 178:121-129.
71. Staab J.F., White T.C., Marr K.A. Hairpin dsRNA does not trigger RNA interference in Candida albicans cells. Yeast 2011, 28:1-8.
72. Storici F., Lewis L.K., Resnick M.A. In vivo site-directed mutagenesis using oligonucleotides. Nat. Biotechnol. 2001, 19:773-776.
73. Storici F., Resnick M.A. The delitto perfetto approach to in vivo site-directed mutagenesis and chromosome rearrangements with synthetic oligonucleotides in yeast. Methods Enzymol. 2006, 409:329-345.
74. Sundstrom P., Cutler J.E., Staab J.F. Reevaluation of the role of HWP1 in systemic candidiasis by use of Candida albicans strains with selectable marker URA3 targeted to the ENO1 locus. Infect. Immun. 2002, 70:3281-3283.
75. Thrash-Bingham C., Gorman J.A. DNA translocations contribute to chromosome length polymorphisms in Candida albicans. Curr. Genet. 1992, 22:93-100.
76. Wellington M., Kabir M.A., Rustchenko E. 5-Fluoro-orotic acid induces chromosome alterations in genetically manipulated strains of Candida albicans. Mycologia 2006, 98:393-398.
77. Wilson R.B., Davis D., Mitchell A.P. Rapid hypothesis testing with Candida albicans through gene disruption with short homology regions. J. Bacteriol. 1999, 181:1868-1874.
78. Wilson R.B., Davis D., Enloe B.M., Mitchell A.P. A recyclable Candida albicans URA3 cassette for PCR product-directed gene disruptions. Yeast 2000, 16:65-70.
79. Wirsching S., Michel S., Morschhäuser J. Targeted gene disruption in Candida albicans wild-type strains: the role of the MDR1 gene in fluconazole resistance of clinical Candida albicans isolates. Mol. Microbiol. 2000, 36:856-865.