Genetic analysis in fungi using restriction-enzyme-mediated integration

Current Opinion in Microbiology

Volumn 1, Issue 4, 1998, Pages 395-399

  Riggle, Perry J ^a   Kumamoto, Carol A ^a  

^a TUFTS UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DICTYOSTELIUM; EUKARYOTA; FUNGI;

RESTRICTION ENDONUCLEASE;

FUNGUS; GENE EXPRESSION REGULATION; GENETIC RECOMBINATION; GENETIC TRANSFORMATION; GENETICS; METABOLISM; METHODOLOGY; REVIEW;

DNA RESTRICTION ENZYMES; FUNGI; MUTAGENESIS, INSERTIONAL; RECOMBINATION, GENETIC; TRANSFORMATION, GENETIC;

EID: 0032129736     PISSN: 13695274     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1369-5274(98)80055-6     Document Type: Article

References (38)

1. Kinsey JA, Helber J: Isolation of a transposable element from Neurospora crassa. Proc Natl Acad Sci 1989, 86:1929-1933.
2. McHale MT, Roberts IN, Noble SM, Beaumont C, Whitehead MP, Seth D, Oliver RP: CfT-I: an LTR-retrotransposon in Cladosporium fulvum, a fungal pathogen of tomato. Mol Gen Genet 1992, 233:337-347.
3. Devine SE, Boeke JD: Integration of the yeast retrotransposon Ty1 is targeted to regions upstream of genes transcribed by RNA polymerase III. Genes Dev 1996, 10:620-633.
4. Fincham JRS: Transformation in fungi. Microbiol Rev 1989, 53:148-170.
5. Schiestl RH, Petes TD: Integration of DNA fragments by illegitimate recombination in Saccharomyces cerevisiae. Proc Natl Acad Sci USA 1991, 88:7585-7589.
6. Thode S, Schafer A, Pfeiffer P, Vielmetter W: A novel pathway of DNA end-to-end joining. Cell 1990, 60:921-928.
7. Manivasakam P, Schiestl RH: Nonhomologous end joining during restriction enzyme mediated DNA integration in Saccharomyces cerevisiae. Mol Cell Biol 1998, 18:1736-1745. This is a significant paper in that it changes the way in which REMI has heretofore been perceived. Most discussions of the REMI process focused on the stimulation of transformation and mechanistically described the process as essentially a ligation reaction. This work shows that REMI is a type of nonhomologous end joining and that the stimulation of integration varies from none to quite high depending upon variables such as the degree of processing required for the end joining process. Additionally, because the entire sequence of the S. cerevisiae genome is known, within this paper are data addressing randomness of integration with respect to chromosomes, open reading frames, and untranscribed regions and mutagenic lesions such as deletions associated with the integration event.
8. Moore JK, Haber JE: Cell cycle and genetic requirements of two pathways of nonhomologous end-joining repair of double-strand breaks in Saccharomyces cerevisiae. Mol Cell Biol 1996, 16:2164-2173.
9. Milne GT, Jin S, Shannon KB, Weaver DT: Mutations in two Ku homologs define a DNA end-joining repair pathway in Saccharomyces cerevisiae. Mol Cell Biol 1996, 16:4189-4198.
10. Schiestl RH, Zhu J, Petes TD: Effect of mutations in genes affecting homologous recombination on restriction enzyme-mediated and Illegitimate recombination in Saccharomyces cerevisiae. Mol Cell Biol 1994, 14:4493-4500.
11. Kuspa A, Loomis WF: Tagging developmental genes in Dictyostelium by restriction enzyme-mediated integration of plasmid DNA. Proc Natl Acad Sci USA 1992, 89:8803-8807.
12. Chen M, Long Y, Devreotes PN: A novel cytosolic regulator, Pianissimo, is required for chemoattractant receptor and G protein-mediated activation of the 12 transmembrane domain adenylyl cyclase in Dictyostelium. Genes Dev 1997, 11:3218-3231.
13. Shaulsky G, Escalante R, Loomis WF: Developmental signal transduction pathways uncovered by genetic suppressors. Proc Natl Acad Sci USA 1996, 93:15260-15265.
14. Shaulsky G, Kuspa A, Loomis WF: A multidrug resistance transporter/serine protease gene is required for prestalk specialization in Dictyostelium. Genes Dev 1995, 9:1111-1122.
15. Dynes JL, Clark AM, Shaulsky G, Kuspa A, Loomis WF, Firtel RA: LagC is required for cell-cell interactions that are essential for cell-type differentiation in Dictyostelium. Genes Dev 1994, 8:948-958.
16. Lu S, Lyngholm L, Yang G, Bronson C, Yoder OC, Turgeon BG: Tagged mutations at the Tox1 locus of Cochliobolus heterostrophus by restriction enzyme-mediated integration. Proc Natl Acad Sci USA 1994, 91:12649-12653.
17. Bölker M, Böhnert H, Braun KH, Görl J, Kahmann R: Tagging pathogenicity genes in Ustilago maydis by restriction enzyme-mediated integration (REMI). Mol Gen Genet 1995, 248:547-552.
18. Shi Z, Christian D, Leung H; Enhanced transformation in Magnaporthe grisea by restriction enzyme mediated integration of plasmid DNA. Phytopathology 1995, 85:329-333.
19. Riggle PJ, Slobodkin IV, Brown DH, Hanson MP, Volkert TL, Kumamoto CA: Two transcripts, differing at their 3′ ends, are produced from the C. albicans SEC14 gene. Microbiology 1997, 143:3527-3535.
20. Granado JD, Kertesz-Chaloupková K, Aebi M, Kües U: Restriction enzyme-mediated DNA integration in Coprinus cinereus. Mol Gen Genet 1997, 256:28-36.
21. Shi Z, Leung H: Genetic analysis of sporulation in Magnaporthe grisea by chemical and insertional mutagenesis. Mol Plant-Microbe Internat 1995, 8:949-959.
22. Pfeiffer P, Thode S, Hancke J, Vielmetter W: Mechanisms of overlap formation in nonhomologous DNA end joining. Mol Cell Biol 1994, 14:888-895.
23. Winegar RA, Phillips JW, Youngblom JH, Morgan WF: Cell electroporation is a highly efficient method for introducing restriction endonucleases into cells. Mutat Res 1989, 225:49-53.
24. Winegar RA, Phillips JW, Lutze L, Morgan WF: Chromosome aberration induction in Chinese hamster ovary cells by restriction enzymes with different methylation sensitivity. Somat Cell Mol Genet 1990, 16:251-256.
25. Barnes G, Rhine J: Regulated expression of endonuclease EcoRI in Saccharomyces cerevisiae: nuclear entry and biological consequences. Proc Natl Acad Sci USA 1985, 82:1354-1358.
26. Kuspa A, Loomis WF: REMI-RFLP mapping in the Dictyostelium genome. Genetics 1994, 138:665-674.
27. Loomis WF, Welker D, Hughes J, Maghakian D, Kuspa A: Integrated maps of the chromosomes in Dictyostelium discoidium. Genetics 1995, 141:147-157.
28. Chang W, Gross JD, Newell PC: Trapping developmental promoters in Dictyostelium. Plasmid 1995, 34:175-183.
29. Fey P, Cox EC: Gene trapping with GFP: the isolation of developmental mutants in the slime mold Polysphondylium. Curr Biol 1997, 7:909-912.
30. Brown DH, Slobodkin IV, Kumamoto CA: Stable transformtation and regulated expression of an inducible reporter construct in Candida albicans using restriction enzyme mediated integration. Mol Gen Genet 1996, 251:75-80.
31. Worsham PL, Goldman WE: Development of a genetic transformation system for Histoplasma capsulatum: complementation of uracil auxotrophy. Mol Gen Genet 1990, 221:358-362.
32. Varma A, Edman JC, Kwon-Chung KJ: Molecular and genetic analysis of URA5 transformants of Cryptococcus neoformans. Infect Immun 1992, 60:1101-1108.
33. Toffaletti DL, Rude TH, Johnston SA, Durack DT, Perfect JR: Gene transfer in Cryptococcus neoformans by use of biolistic delivery of DNA. J Bacteriol 1993, 175:1405-1411.
34. Toffaletti DL, Perfect JR: Study of Cryptococcus neoformans actin gene regulation with a β-galactosidase-actin fusion. J Med Vet Mycol 1997, 35:313-320.
35. Lodge JK, Jackson-Machelski E, Toffaletti DL, Perfect JR, Gordon JI: Targeted gene replacement demonstrates that myristoyl-CoA:protein N-myristoyltransferase is essential for viability of Cryptococcus neoformans. Proc Natl Acad Sci USA 1994, 91:12008-12012.
36. Tang CM, Cohen J, Holden DW: An Aspergillus fumigatus alkaline protease mutant constructed by gene disruption is deficient in extracellular elastase activity. Mol Microbiol 1992, 6:1663-1671.
37. Hogan LH, Klein BS: Transforming DNA integrates at multiple sites in the dimorphic fungal pathogen Blastomyces dermatitidis. Gene 1997, 186:219-226.
38. S'ånchez O, Navarro RE, Aguirre J: Increased transformation frequency and tagging of developmental genes in Aspergillus nidulans by restriction enzyme-mediated-integration (REMI). Mol Gen Genet 1998, 258:89-94. This is the first report of the successful use of REMI as a genetic tool in Aspergillus nidulans.