Development of a reporter system for the yeast Schwanniomyces occidentalis: Influence of DNA composition and codon usage

Yeast

Volumn 20, Issue 8, 2003, Pages 687-701

  Janatova, Ivana ^a   Costaglioli, Patricia ^b   Wesche, Jorgen ^b   Masson, Jean Michel ^b   Meilhoc, Elaine ^b  

^a INSTITUTE OF MICROBIOLOGY   (Czech Republic)

^b CNRS   (France)

Author keywords

Chloramphenicol acetyltransferase; Phleomycin resistance; Reporter genes; Schwanniomyces occidentialis

Indexed keywords

ADENOSINE; BETA FRUCTOFURANOSIDASE; BETA GLUCURONIDASE; BETA LACTAMASE; CHLORAMPHENICOL ACETYLTRANSFERASE; CYTOSINE; DNA; GUANOSINE; PHLEOMYCIN; SIGNAL PEPTIDE; THYMINE;

ANTIBIOTIC RESISTANCE; CODON USAGE; CONTROLLED STUDY; DNA CONTENT; ENZYME ACTIVITY; ESCHERICHIA COLI; GENE EXPRESSION SYSTEM; GENE SEQUENCE; GENETIC CODE; MARKER GENE; MOLECULAR CLONING; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN SECRETION; REPORTER GENE; REVIEW; SCHWANNIOMYCES OCCIDENTALIS; SEQUENCE HOMOLOGY; STAPHYLOCOCCUS AUREUS; TRANSCRIPTION REGULATION; YEAST; YEAST CELL;

BACTERIAL PROTEINS; BASE COMPOSITION; BETA-FRUCTOFURANOSIDASE; BETA-LACTAMASES; BLOTTING, NORTHERN; CHLORAMPHENICOL O-ACETYLTRANSFERASE; CODON; DNA, FUNGAL; GENE EXPRESSION REGULATION, FUNGAL; GENES, REPORTER; GLUCURONIDASE; GLYCOSIDE HYDROLASES; PROMOTER REGIONS (GENETICS); SACCHAROMYCETALES;

DEBARYOMYCES; DEBARYOMYCES OCCIDENTALIS; SACCHAROMYCES CEREVISIAE; STAPHYLOCOCCUS AUREUS;

EID: 0038142193     PISSN: 0749503X     EISSN: None     Source Type: Journal    
DOI: 10.1002/yea.997     Document Type: Review

References (65)

1. Abarca D, Fernandez-Lobato M, Claros MG, del Pozo L, Jimenez A. 1988. Cloning and expression in Saccharomyces cerevisiae of a α-amylase gene from Schwanniomyces occidentalis. Yeast 4: S137.
2. Abarca DM, Fernandez-Lobato M, Claros MG, del Pozo L, Jimenez A. 1991. Isolation of a new gene (SWA2) encoding a α-amylase from Schwanniomyces occidentalis and its expression in Saccharomyces cerevisiae. FEBS Lett 279: 41-44.
3. Ausubel FM, Brent R, Kingston RE, et al. (eds). 1987. Current Protocols in Molecular Biology. Greene/Wiley-Interscience: New York.
4. Banuelos MA, Rodriguez-Navarro A. 1998. P-type ATPases mediate sodium and potassium effluxes in Schwanniomyces occidentalis. J Biol Chem 273: 1640-1646.
5. Bauer R, Paltauf F, Kohlwein SD. 1993. Functional expression of bacterial β-glucuronidase and its use as a reporter system in the yeast Yarrowia lipolytica. Yeast 9: 71-75.
6. Bergmann JE, Lodish HF. 1979. A kinetic model of protein synthesis. Application to hemoglobin synthesis and translational control. J Biol Chem 254: 11927-11937.
7. Bradford M. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 72: 248-254.
8. Cagnon C. 1990. Etude des resistances aux antibiotiques glycopeptidiques par mutagenese dirigee. PhD Thesis, INSA Toulouse, France.
9. Caponigro G, Muhlrad D, Parker R. 1993. A small segment of the Matα 1 transcript promotes mRNA decay in Saccharomyces cerevisiae: a stimulatory role for rare codons. Mol Cell Biol 13: 5141-5148.
10. Cartwright CP, Li Y, Zhu YS, Tipper DJ. 1994. Use of β-lactamase as a secreted reporter of promoter function in yeast. Yeast 10: 497-508.
11. 1 killer preprotoxin. Yeast 8: 261-272.
12. Chen GT, Inouye M. 1994. Role of the AGA/AGG codons, the rarest codons in global gene expression in Escherichia coli. Genes Dev 8: 2641-2652.
13. Chen GT, Inouye M. 1990. Suppression of the negative effect of minor codons within the first 25 codons of Escherichia coli genes. Nucleic Acid Res 18: 1465-1473.
14. Chevalier MR, Aigle M. 1979. Qualitative detection of penicillinase produced by yeast strains carrying chimeric yeast-E. coli plasmids. FEBS Lett 108: 179-180.
15. Clare JJ, Rayment FB, Ballantine SP, Sreekrishna K, Romanos M. 1991. High-level expression of tetanus toxin fragment C in Pichia pastoris strains containing multiple tandem integrations of the gene. Bio/Technology 9: 455-460.
16. Cohen JD, Eccleshall TR, Needleman RB, et al. 1980. Functional expression in yeast of the Escherichia coli plasmid gene coding for chloramphenicol acetyltransferase. Proc Natl Acad Sci USA 77: 1078-1082.
17. Collins CM, Hall RH. 1985. Identification of a Tn5 determinant conferring resistance to phleomycins, bleomycins and tallysomycins. Plasmid 14: 143-151.
18. Costaglioli P, Meilhoc E, Masson JM. 1994. High-efficiency electrotransformation of the yeast Schwanniomyces occidentalis. Curr Genet 27: 26-30.
19. Costaglioli P, Meilhoc E, Janatova I, Klein RD, Masson JM. 1997. Secretion of invertase from Schwanniomyces occidentalis. Biotechnol Lett 19: 623-627.
20. Dave MN, Chattoo BB. 1997. A counter-selectable marker for genetic transformation of the yeast Schwanniomyces alluvius. Appl Microbiol Biotechnol 48: 204-207.
21. De Zoysa PA, Connerton IF, Watson DC, Johnston JR. 1991. Cloning, sequencing and expression of the Schwanniomyces occidentalis NADP-dependent glutamate dehydrogenase gene. Curr Genet 20: 219-224.
22. Dohmen RJ, Hollenberg CP. 1996. Schwanniomyces occidentalis. In Nonconventional Yeasts in Biotechnology, Wolf K (ed). Springer: Berlin; 117-137.
23. Dohmen RJ, Strasser AWM, Zitomer RS, Hollenberg CP. 1989. Regulated overproduction of α-amylase by transformation of the amylolytic yeast Schwanniomyces occidentalis. Curr Genet 15: 319-325.
24. Dohmen RJ, Strasser AWM, Dahlems UM, Hollenberg CP. 1990. Cloning of the Schwanniomyces occidentalis glucoamylase gene (GAM1) and its expression in Saccharomyces cerevisiae. Gene 95: 111-121.
25. Droucourt D, Calmels T, Reynes JP, Baron M, Tiraby G. 1990. Cassettes of the Streptoalloteichus hindustanus ble gene for transformation of lower and higher eukaryotes to phleomycin resistance. Nucleic Acids Res 18: 4009.
26. +) in Saccharomyces cerevisiae, and its comparison with GPD1. Mol Microbiol 17: 95-107.
27. Gaillardin C, Ribet AM. 1987. LEU2-directed expression of β-galactosidase activity and phleomycin resistance in Yarrowia lipolytica. Curr Genet 11: 369-375.
28. Gao W, Tyagi S, Kramer FR, Goldman E. 1997. Messenger RNA release from ribosomes during 5′-translational blockage by consecutive low-usage arginine but not leucine codons in Escherichia coli. Mol Microbiol 25: 707-716.
29. Gatignol A, Baron M, Tiraby G. 1987. Phleomycin resistance encoded by the ble gene from transposon Tn5 as a dominant selectable marker in Saccharomyces cerevisiae. Mol Gen Genet 207: 342-348.
30. Gatignol A, Dassain M, Tiraby G. 1990. Cloning of Saccharomyces cerevisiae promoters using a probe vector based on phleomycin resistance. Gene 91: 35-41.
31. Goldman E, Rosenberg AH, Zubay G, Studier FW. 1995. Consecutive low-usage leucine codons block translation only when near the 5′ end of a message in Escherichia coli. J Mol Biol 245: 467-473.
32. Gourdon P, Janatova I, Meilhoc E, et al. 1995. Sequence analysis of the ADE2 gene coding for phosporibosylaminoimidazole carboxylase in Schwanniomyces occidentalis. Yeast 11: 1289-1293.
33. Ikemura T. 1982. Correlation between the abundance of yeast transfer RNAs and the occurrence of the respective codons in protein genes. Differences in synonymous codon choice patterns of yeast and Escherichia coli with reference to the abundance of isoaccepting transfer RNAs. J Mol Biol 158: 573-597.
34. Ingledew WM. 1987. Schwanniomyces: a potential superyeast? CRC Crit Rev Biotech 5: 159-176.
35. Iserentant D, Verachtert H. 1995. Cloning and sequencing of the LEU2 homologue gene of Schwanniomyces occidentalis. Yeast 11: 467-473.
36. Jämsä E, Holkeri H, Vihinen H, et al. 1995. Structural features of polypeptide carrier promoting secretion of a β-lactamase fusion protein in yeast. Yeast 11: 1381-1391.
37. Janatova I, Gourdon P, Meilhoc E, Klein RD, Masson JM. 2000. ARS sequences in homologous and heterologous ADE2 loci are capable of promoting autonomous replication of plasmids in Schwanniomyces occidentalis. Curr Genet 37: 298-303.
38. Jefferson RA. 1987. Assaying chimeric genes in plants: the GUS gene fusion system. Plant Mol Biol Rep 5: 387-405.
39. Klein RD, Favreau MA. 1988. Transformation of Schwanniomyces occidentalis with an ADE2 gene cloned from S. occidentalis. J Bacteriol 170: 5572-5578.
40. Klein RD, Poorman RA, Favreau MA, et al. 1989. Cloning and sequence analysis of the gene encoding invertase from the yeast Schwanniomyces occidentalis. Curr Genet 16: 145-152.
41. Marathe SV, McEven JE. 1995. Vectors with the gus reporter gene for identifying and quantifying promoter regions in Saccharomyces cerevisiae. Gene 154: 105-107.
42. McKnight GL, Kato H, Upshall A, et al. 1985. Identification and molecular analysis of a third Aspergillus nidulans alcohol dehydrogenase gene. EMBO J 4: 2093-2099.
43. Meilhoc E, Masson JM, Teissie J. 1990. High efficiency transformation of intact yeast cells by electric field pulses. Bio/Technology 8: 223-227.
44. Mulsant P, Gatignol A, Dalens M, Tiraby G. 1988. Phleomycin resistance as a dominant selectable marker in CHO cells. Somat Cell Mol Genet 14: 243-252.
45. Neumann JR, Morency CA, Russian KO. 1987. A novel rapid assay for chloramphenicol acetyltransferase gene expression. BioTechniques 5: 444-447.
46. Niaudet B, Goze A, Ehrlich SD. 1982. Insertional mutagenesis in Bacillus subtilis: mechanism and use in gene cloning. Gene 19: 2777-2784.
47. O'Callaghan CH, Morris A, Kirby SM, Shingler AH. 1972. Novel method for detection of β-lactamase by using a chromogenic cephalosporin substrate. Antimicrob Agents Chemother 1: 283-288.
48. Passoth V, Hahn-Hägerdal B. 2000. GFP assisted transcription analysis reveals a carbon source and oxygenation-dependent regulation of the ADH2 gene in Pichia stipitis. Xth ISSY, 27 August-1 September 2000, Papendal, Arnhem, The Netherlands. Symposium Book, p. 356.
49. Perez P, Tiraby G, Kallerhoff J, Perret J. 1989. Phleomycin resistance as a dominant selectable marker for plant cell transformation. Plant Mol Biol 13: 365-373.
50. Piontek M, Hagerdorn J, Hollenberg CP, Gellisen G, Strasser AWM. 1998. Two novel gene expression systems based on the yeasts Schwanniomyces occidentalis and Pichia stipitis. Appl Microbiol Biotechnol 50: 331-338.
51. Roggenkamp R, Kustermann-Kuhn B, Hollenberg CP. 1981. Expression and processing of bacterial β-lactamase in the yeast Saccharomyces cerevisiae. Proc Natl Acad Sci USA 78: 4466-4470.
52. Rose M. 1995. Molecular and biochemical characterization of the hexokinase from the starch-utilizing yeast Schwanniomyces occidentalis. Curr Genet 27: 330-338.
53. Sagliocco FA, Zhu D, Vega Laso MR, et al. 1994. Rapid mRNA degradation in yeast can proceed independently of translational elongation. J Biol Chem 269: 18 630-18 637.
54. Sambrook J, Fritsch EF, Maniatis T. 1989. Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press: New York.
55. Schmitz UKD, Lonsdale M, Jefferson RA. 1990. Application of the β-glucuronidase gene fusion system to Saccharomyces cerevisiae. Curr Genet 17: 261-264.
56. Semon D, Movva NR, Smith TF, el Alama M, Davies J. 1987. Plasmid-determined bleomycin resistance in Staphylococcus aureus. Plasmid 17: 46-53.
57. Sinclair G, Choy FYM. 2002. Synonymous codon usage bias and the expression of human glucocerebrosidase in the methylotrophic yeast, Pichia pastoris. Prot Exp Purif 26: 96-105.
58. Strasser AWM, Selk R, Dohmen RJ, et al. 1989. Analysis of the α-amylase gene of Schwanniomyces occidentalis and the secretion of its gene product in transformants of different yeast genera. Eur J Biochem 184: 699-706.
59. Sugiyama M, Thompson CJ, Kumagai T, et al. 1994. Characterization by molecular cloning of two genes from Streptomyces verticillus encoding resistance to bleomycin. Gene 151: 11-16.
60. Vega Laso MR, Zhu D, Sangliocco F, et al. 1993. Inhibition of translational initiation in the yeast Saccharomyces cerevisiae as a function of the stability and position of hairpin structures in the mRNA leader. J Biol Chem 268: 6453-6462.
61. Wang TT, Lee BH. 1997. Transformation system for Schwanniomyces occidentalis. Biotechnol Tech 11: 307-309.
62. Wang TT, Lee CF, Lee BH. 1999. The molecular biology of Schwanniomyces occidentalis Klocker. CRC Crit Rev Biotechnol 19: 113-143.
63. Withers-Martinez C, Carpenter EP, Hackett F, et al. 1999. PCR-based gene synthesis as an efficient approach for expression of the A+T-rich malaria genome. Protein Eng 12: 1113-1120.
64. Wittrup KD, Benig V. 1994. Optimization of amino acid supplements for heterologous protein secretion in Saccharomyces cerevisiae. Biotechnol Lett 8: 161-166.
65. Yanisch-Peron C, Vieira J, Messing J. 1985. Improved M13phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene 33: 103-119.