Use of pantothenate as a metabolic switch increases the genetic stability of farnesene producing Saccharomyces cerevisiae

Metabolic Engineering

Volumn 25, Issue , 2014, Pages 215-226

  Sandoval, Celeste M ^a   Ayson, Marites ^a   Moss, Nathan ^a   Lieu, Bonny ^a   Jackson, Peter ^a   Gaucher, Sara P ^a   Horning, Tizita ^a   Dahl, Robert H ^a   Denery, Judith R ^a   Abbott, Derek A ^a   Meadows, Adam L ^a  

^a Amyris Inc   (United States)

Author keywords

Farnesene; Genetic stability; Media development; Metabolic switch; Pantothenate; Yeast

Indexed keywords

FATTY ACIDS; GROWTH RATE; METABOLISM; MOLECULES; SYNTHESIS (CHEMICAL);

FARNESENE; FATTY ACID SYNTHESIS; GENETIC STABILITY; GROWTH ADVANTAGES; LAB-SCALE BIOREACTORS; MANUFACTURING FACILITY; MEDIA DEVELOPMENT; PANTOTHENATE;

YEAST;

ACYL COENZYME A; BETA FARNESENE; PANTOTHENIC ACID; SACCHAROMYCES CEREVISIAE PROTEIN; SESQUITERPENE;

ARTICLE; CULTURE MEDIUM; FATTY ACID ANALYSIS; FATTY ACID OXIDATION; FATTY ACID SYNTHESIS; FUNGAL BIOMASS; FUNGAL METABOLISM; FUNGUS GROWTH; GENE EXPRESSION; GENETIC STABILITY; GROWTH RATE; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; LIPID COMPOSITION; METABOLIC ENGINEERING; METABOLIC SWITCH; NONHUMAN; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE; SCALE UP; STEROL SYNTHESIS; SYNTHESIS; TANDEM MASS SPECTROMETRY; WILD TYPE; GENETIC ENHANCEMENT; GENETICS; GENOMIC INSTABILITY; METABOLISM; PHYSIOLOGY; PROCEDURES;

GENETIC ENHANCEMENT; GENOMIC INSTABILITY; METABOLIC ENGINEERING; PANTOTHENIC ACID; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SESQUITERPENES;

EID: 84907357354     PISSN: 10967176     EISSN: 10967184     Source Type: Journal    
DOI: 10.1016/j.ymben.2014.07.006     Document Type: Article

References (42)

1. Alani E., Cao L., Kleckner N. A method for gene disruption that allows repeated use of URA3 selection in the construction of multiply disrupted yeast strains. Genetics 1987, 116(4):541-545.
2. Alonso-Gutierrez J., et al. Metabolic engineering of Escherichia coli for limonene and perillyl alcohol production. Metab. Eng. 2013, 19:33-41.
3. Baugh L.R., Kurhanewicz N., Sternberg P.W. Sensitive and precise quantification of insulin-like mRNA expression in Caenorhabditis elegans. PLoS One 2011, 6(3):e18086.
4. Birch A., et al. Extremely large chromosomal deletions are intimately involved in genetic instability and genomic rearrangements in Streptomyces glaucescens. Mol. Gen. Genet. 1989, 217(2-3):447-458.
5. Cardwell D. For Solazyme, a Side Trip on the Way to Clean Fuel 2013, The New York Times, New York.
6. Chen Y., Siewers V., Nielsen J. Profiling of cytosolic and peroxisomal acetyl-CoA metabolism in Saccharomyces cerevisiae. PLoS One 2012, 7(8):e42475.
7. Cherry J.M., et al. Saccharomyces Genome Database: the genomics resource of budding yeast. Nucleic Acids. Res. 2012, 40:D700-D705. (Database issue).
8. De Kok S., et al. Rapid and reliable DNA assembly via ligase cycling reaction. ACS Synth. Biol. 2014, 2(3):97-106.
9. van Dijken J.P., et al. An interlaboratory comparison of physiological and genetic properties of four Saccharomyces cerevisiae strains. Enzyme Microb. Technol. 2000, 26(9-10):706-714.
10. Douma R.D., et al. Degeneration of penicillin production in ethanol-limited chemostat cultivations of Penicillium chrysogenum: a systems biology approach. BMC Syst. Biol. 2011, 5(1):132.
11. Drake J.W. A constant rate of spontaneous mutation in DNA-based microbes. Proc. Natl. Acad. Sci. USA 1991, 88(16):7160-7164.
12. Ferea T.L., et al. Systematic changes in gene expression patterns following adaptive evolution in yeast. Proc. Natl. Acad. Sci. USA 1999, 96(17):9721-9726.
13. Geiss G.K., et al. Direct multiplexed measurement of gene expression with color-coded probe pairs. Nat. Biotechnol. 2008, 26(3):317-325.
14. Gravius B., et al. Genetic instability and strain degeneration in Streptomyces rimosus. Appl. Environ. Microbiol. 1993, 59(7):2220-2228.
15. Gronenberg L.S., Marcheschi R.J., Liao J.C. Next generation biofuel engineering in prokaryotes. Curr. Opin. Chem. Biol. 2013, 17(3):462-471.
16. Gruchattka E., et al. In silico profiling of Escherichia coli and Saccharomyces cerevisiae as terpenoid factories. Microb. Cell Fact. 2013, 12(1):84.
17. Guthrie C., Fink G.F. Methods in enzymology. Guide to Yeast Genetics and Molecular Biology 1991, 194. Academic Press, London.
18. van Hoek P., van Dijken J.P., Pronk J.T. Regulation of fermentative capacity and levels of glycolytic enzymes in chemostat cultures of Saccharomyces cerevisiae. Enzyme Microb. Technol. 2000, 26(9-10):724-736.
19. Lennen R.M., et al. A process for microbial hydrocarbon synthesis: overproduction of fatty acids in Escherichia coli and catalytic conversion to alkanes. Biotechnol. Bioeng. 2010, 106(2):193-202.
20. Leonian L.H., Lilly V.G. Vitamin synthesis by a yeast converted from a heterotrophic to an autotrophic habit. Science 1942, 95(2478):658.
21. Lu X., Vora H., Khosla C. Overproduction of free fatty acids in E. coli: implications for biodiesel production. Metab. Eng. 2008, 10(6):333-339.
22. Martin V.J., et al. Engineering a mevalonate pathway in Escherichia coli for production of terpenoids. Nat. Biotechnol. 2003, 21(7):796-802.
23. Maury J., et al. Microbial isoprenoid production: an example of green chemistry through metabolic engineering. Adv. Biochem. Eng. Biotechnol. 2005, 100:19-51.
24. Meadows A.L., et al. Application of dynamic flux balance analysis to an industrial Escherichia coli fermentation. Metab. Eng. 2010, 12(2):150-160.
25. Nielsen J. Production of biopharmaceutical proteins by yeast: advances through metabolic engineering. Bioengineered 2013, 4(4):207-211.
26. Nijkamp J.F., et al. De novo sequencing, assembly and analysis of the genome of the laboratory strain Saccharomyces cerevisiae CEN.PK113-7D, a model for modern industrial biotechnology. Microb. Cell Fact. 2012, 11:36.
27. Pronk J.T., Yde Steensma H., Van Dijken J.P. Pyruvate metabolism in Saccharomyces cerevisiae. Yeast 1996, 12(16):1607-1633.
28. Reyes L.H., Gomez J.M., Kao K.C. Improving carotenoids production in yeast via adaptive laboratory evolution. Metab. Eng. 2014, 21:26-33.
29. Rose M.D., Winston F., Hieter P. Methods in Yeast Genetics: A Laboratory Course Manual 1990, Cold Spring Harbor Laboratory Press, Plainview, NY.
30. Rude M.A., Schirmer A. New microbial fuels: a biotech perspective. Curr. Opin. Microbiol. 2009, 12(3):274-281.
31. Serber Z., et al. Compositions and Methods for the Assembly of Polynucleotides 2012, Amyris, Inc., USA.
32. Steen E.J., et al. Microbial production of fatty-acid-derived fuels and chemicals from plant biomass. Nature 2010, 463(7280):559-562.
33. Stolz J., Sauer N. The fenpropimorph resistance gene FEN2 from Saccharomyces cerevisiae encodes a plasma membrane H+-pantothenate symporter. J. Biol. Chem. 1999, 274(26):18747-18752.
34. Suutari M., Liukkonen K., Laakso S. Temperature adaptation in yeasts: the role of fatty acids. J. Gen. Microbiol. 1990, 136(8):1469-1474.
35. Biochemical Pathways: An Atlas of Biochemistry and Molecular Biology 1999, 277. John Wiley & Sons, Inc., New York. G. Michal (Ed.).
36. Verduyn C., et al. Physiology of Saccharomyces cerevisiae in anaerobic glucose-limited chemostat cultures. J. Gen. Microbiol. 1990, 136(3):395-403.
37. Verduyn C., et al. A theoretical evaluation of growth yields of yeasts. Antonie Van Leeuwenhoek 1991, 59(1):49-63.
38. Wang C., et al. Metabolic engineering of Escherichia coli for alpha-farnesene production. Metab. Eng. 2011, 13(6):648-655.
39. Westfall P.J., et al. Production of amorphadiene in yeast, and its conversion to dihydroartemisinic acid, precursor to the antimalarial agent artemisinin. Proc. Natl. Acad. Sci. USA 2012, 109(3):E111-E118.
40. White W.H., Gunyuzlu P.L., Toyn J.H. Saccharomyces cerevisiae is capable of de novo pantothenic acid biosynthesis involving a novel pathway of beta-alanine production from spermine. J. Biol. Chem. 2001, 276(14):10794-10800.
41. You K.M., Rosenfield C.L., Knipple D.C. Ethanol tolerance in the yeast Saccharomyces cerevisiae is dependent on cellular oleic acid content. Appl. Environ. Microbiol. 2003, 69(3):1499-1503.
42. Zhao L., et al. Methods of Developing Terpene Synthase Variants 2012, Amyris, Inc., USA.