Development and physiological characterization of cellobiose-consuming Yarrowia lipolytica

Biotechnology and Bioengineering

Volumn 112, Issue 5, 2015, Pages 1012-1022

  Lane, Stephan ^a   Zhang, Shuyan ^a   Wei, Na ^b   Rao, Christopher ^a   Jin, Yong Su ^a  

^a UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

^b University of Pittsburgh   (United States)

Author keywords

Biofuels; Biotransformation; Cellodextrin; Citric acid; Lignocellulose; Lipid

Indexed keywords

BIOFUELS; CARBON; CELLULOSE; CITRIC ACID; CYTOLOGY; ENZYME ACTIVITY; LIPIDS; NITROGEN; PHYSIOLOGY; SACCHARIFICATION; STRAIN;

BIOTRANSFORMATION; CELLODEXTRIN; CELLODEXTRIN TRANSPORTERS; CRYSTALLINE CELLULOSE; ENDOGENOUS PROMOTERS; LIGNOCELLULOSE; RENEWABLE FEEDSTOCKS; SIMULTANEOUS SACCHARIFICATION AND FERMENTATION;

GLUCOSE;

BETA GLUCOSIDASE; CELLOBIOSE; CELLODEXTRIN TRANSPORTER 1; CELLULOSE; CITRIC ACID; GLUCOSE; NITROGEN; UNCLASSIFIED DRUG; BIOFUEL; CELLODEXTRIN; DEXTRIN; LIGNIN; LIGNOCELLULOSE;

ARTICLE; BIOTRANSFORMATION; CARBON SOURCE; CELL FUNCTION; CELL METABOLISM; CONTROLLED STUDY; ENZYME ACTIVITY; FERMENTATION; FUNGAL STRAIN; NEUROSPORA CRASSA; NONHUMAN; PROTEIN EXPRESSION; SACCHARIFICATION; YARROWIA LIPOLYTICA; ANALOGS AND DERIVATIVES; ENZYMOLOGY; GENE EXPRESSION; GENETICS; METABOLIC ENGINEERING; METABOLISM; MICROBIOLOGY; PROCEDURES; YARROWIA;

NEUROSPORA CRASSA; YARROWIA LIPOLYTICA;

BETA-GLUCOSIDASE; BIOFUELS; CELLOBIOSE; CELLULOSE; CITRIC ACID; DEXTRINS; FERMENTATION; GENE EXPRESSION; LIGNIN; METABOLIC ENGINEERING; NEUROSPORA CRASSA; YARROWIA;

EID: 84925636773     PISSN: 00063592     EISSN: 10970290     Source Type: Journal    
DOI: 10.1002/bit.25499     Document Type: Article

References (74)

1. Aristidou A, Penttilä M. 2000. Metabolic engineering applications to renewable resource utilization. Curr Opin Biotechnol 11(2):187-198.
2. Bankar AV, Kumar AR, Zinjarde SS. 2009. Environmental and industrial applications of Yarrowia lipolytica. Appl Microbiol Biotechnol 84 (5):847-865.
3. Barth G, Gaillardin C. 1997. Physiology and genetics of the dimorphic fungus Yarrowia lipolytica. FEMS Microbiol Rev 19(4):219-237.
4. Beckerich JM, Boisramé-Baudevin A, Gaillardin C. 2010. Yarrowia lipolytica: a model organism for protein secretion studies. Int Microbiol 1(2):123-130.
5. Beopoulos A, Cescut J, Haddouche R, Uribelarrea JL, Molina-Jouve C, Nicaud JM. 2009a. Yarrowia lipolytica as a model for bio-oil production. Prog Lipid Res 48(6):375-387.
6. Beopoulos A, Chardot T, Nicaud JM. 2009b. Yarrowia lipolytica: a model and a tool to understand the mechanisms implicated in lipid accumulation. Biochimie 91(6):692-696.
7. Beopoulos A, Mrozova Z, Thevenieau F, Le Dall MT, Hapala I, Papanikolaou S, Chardot T, Nicaud JM. 2008. Control of Lipid Accumulation in the Yeast Yarrowia lipolytica. Appl Environ Microbiol 74(24):7779-7789.
8. Blazeck J, Hill A, Liu L, Knight R, Miller J, Pan A, Otoupal P, Alper HS. 2014. Harnessing Yarrowia lipolytica lipogenesis to create a platform for lipid and biofuel production. Nat Commun 5. Article number: 3131.
9. Blazeck J, Liu L, Redden H, Alper H. 2011. Tuning gene expression in Yarrowia lipolytica by a hybrid promoter approach. Appl Environ Microbiol 77(22):7905-7914.
10. Carroll A, Somerville C. 2009. Cellulosic biofuels. Annu Rev Plant Biol 60:165-182.
11. Chen DC, Beckerich JM, Gaillardin C. 1997. One-step transformation of the dimorphic yeast Yarrowia lipolytica. Appl Microbiol Biotechnol 48(2):232-235.
12. Chundawat SPS, Beckham GT, Himmel ME, Dale BE. 2011. Deconstruction of lignocellulosic biomass to fuels and chemicals. Ann Rev Chem Biomol Eng 2(1):121-145.
13. Dominguez A, Ferminan E, Gaillardin C. 2004. Yarrowia lipolytica: an organism amenable to genetic manipulation as a model for analyzing dimorphism in fungi. Contrib Microbiol 5:151-162.
14. Eriksen DT, Hsieh PCH, Lynn P, Zhao H. 2013. Directed evolution of a cellobiose utilization pathway in Saccharomyces cerevisiae by simultaneously engineering multiple proteins. Micro Cell Fact 12(1):61.
15. Fickers P, Benetti PH, Wache Y, Marty A, Mauersberger S, Smit M, Nicaud JM. 2005a. Hydrophobic substrate utilisation by the yeast Yarrowia lipolytica, and its potential applications. FEMS Yeast Res 5(6-7):527-543.
16. Fickers P, Fudalej F, Nicaud J-M, Destain J, Thonart P. 2005b. Selection of new over-producing derivatives for the improvement of extracellular lipase production by the non-conventional yeast Yarrowia lipolytica. J Biotechnol 115(4):379-386.
17. Fickers P, Nicaud JM, Destain J, Thonart P. 2003. Overproduction of lipase by Yarrowia lipolytica mutants. App Microbiol Biotechnol 63(2):136-142.
18. Finogenova TV, Morgunov IG, Kamzolova SV, Chernyavskaya OG. 2005. Organic acid production by the yeast Yarrowia lipolytica: a review of prospects. App Biochem Microbiol 41(5):418-425.
19. Förster A, Aurich A, Mauersberger S, Barth G. 2007. Citric acid production from sucrose using a recombinant strain of the yeast Yarrowia lipolytica. App Microbiol Biotechnol 75(6):1409-1417.
20. Fukuda R, Ohta A. 2013. Utilization of hydrophobic substrate by Yarrowia lipolytica. Yarrowia lipolytica. New York City, New York: Springer. p 111-119.
21. Gadaga TH, Mutukumira AN, Narvhus JA. 2000. Enumeration and identification of yeasts isolated from Zimbabwean traditional fermented milk. Int Dairy J 10(7):459-466.
22. Galazka JM, Tian C, Beeson WT, Martinez B, Glass NL, Cate JHD. 2010. Cellodextrin transport in yeast for improved biofuel production. Science 330(6000):84-86.
23. Gancedo JM. 1998. Yeast carbon catabolite repression. Microbiol Mol Biol Rev 62(2):334-361.
24. Gawand P, Hyland P, Ekins A, Martin VJJ, Mahadevan R. 2013. Novel approach to engineer strains for simultaneous sugar utilization. Metab Eng 20(0):63-72.
25. Gibson DG, Young L, Chuang R-Y, Venter JC, Hutchison CA, Smith HO. 2009. Enzymatic assembly of DNA molecules up to several hundred kilobases. Nat Meth 6(5):343-345.
26. Gray KA, Zhao L, Emptage M. 2006. Bioethanol. Curr Opin Chem Biol 10(2):141-146.
27. Ha SJ, Galazka JM, Rin Kim S, Choi JH, Yang X, Seo JH, Louise Glass N, Cate JHD, Jin YS. 2010. Engineered saccharomyces cerevisiae capable of simultaneous cellobiose and xylose fermentation. Proc Natl Acad Sci 108(2):504-509.
28. Ha SJ, Wei Q, Kim SR, Galazka JM, Cate J, Jin YS. 2011. Cofermentation of cellobiose and galactose by an engineered Saccharomyces cerevisiae strain. App Environ Microbiol 77(16):5822-5825.
29. Haghighi Mood S, Hossein Golfeshan A, Tabatabaei M, Salehi Jouzani G, Najafi GH, Gholami M, Ardjmand M. 2013. Lignocellulosic biomass to bioethanol, a comprehensive review with a focus on pretreatment. Renew Sust Energ Rev 27(0):77-93.
30. Hahn-Hägerdal B, Galbe M, Gorwa-Grauslund MF, Lidén G, Zacchi G. 2006. Bio-ethanol - the fuel of tomorrow from the residues of today. Trends Biotechnol 24(12):549-556.
31. Herrero AB, López MC, Fernández-Lago L, Domínguez A. 1999. Candida albicans and Yarrowia lipolytica as alternative models for analysing budding patterns and germ tube formation in dimorphic fungi. Microbiol 145(10):2727-2737.
32. Hong SP, Seip J, Walters-Pollak D, Rupert R, Jackson R, Xue Z, Zhu Q. 2012. Engineering Yarrowia lipolytica to express secretory invertase with strong FBA1IN promoter. Yeast 29(2):59-72.
33. Karatay SE, Dönmez G. 2010. Improving the lipid accumulation properties of the yeast cells for biodiesel production using molasses. Bioresour Technol 101(20):7988-7990.
34. Kim SR, Ha SJ, Wei N, Oh EJ, Jin YS. 2012. Simultaneous co-fermentation of mixed sugars: a promising strategy for producing cellulosic ethanol. Trends Biotechnol 30(5):274-282.
35. Kretzschmar A, Otto C, Holz M, Werner S, Hubner L, Barth G. 2013. Increased homologous integration frequency in Yarrowia lipolytica strains defective in non-homologous end-joining. Curr Genet 59(1-2):63-72.
36. Kurtzman C, Fell JW, Boekhout T. 2011. The yeasts: a taxonomic study: Access Online via Elsevier.
37. Kurtzman CP. 2011. Yarrowia. The Yeasts (5th Edition). London Elsevier p 927-929.
38. Lee SK, Chou H, Ham TS, Lee TS, Keasling JD. 2008. Metabolic engineering of microorganisms for biofuels production: from bugs to synthetic biology to fuels. Curr Opin Biotechnol 19(6):556-563.
39. Lee WH, Nan H, Kim HJ, Jin YS. 2013. Simultaneous saccharification and fermentation by engineered Saccharomyces cerevisiae without supplementing extracellular β-glucosidase. J Biotechnol 167(3):316-322.
40. Li S, Du J, Sun J, Galazka JM, Glass NL, Cate JH, Yang X, Zhao H. 2010. Overcoming glucose repression in mixed sugar fermentation by co-expressing a cellobiose transporter and a β-glucosidase in Saccharomyces cerevisiae. Mol BioSyst 6(11):2129-2132.
41. Lopez-Garcia R. 2000. Citric Acid. Kirk-Othmer Encyclopedia of Chemical Technology. Hoboken, New Jersey: John Wiley & Sons, Inc.
42. Coelho MAZ, Belo I. 2010. Yarrowia lipolytica: an industrial workhorse. In Mendez-Vilas A, editor. Current Research, Technology and Education Topics in Applied Microbiology and Microbial Biotechnology. Badajoz, Spain: Formatex Research Center. p 930-940.
43. Madzak C, Gaillardin C, Beckerich JM. 2004. Heterologous protein expression and secretion in the non-conventional yeast Yarrowia lipolytica: a review. J Biotechnol 109(1-2):63-81.
44. Madzak C, Treton B, Blanchin-Roland S. 2000. Strong hybrid promoters and integrative expression/secretion vectors for quasi-constitutive expression of heterologous proteins in the yeast Yarrowia lipolytica. J Mol Microbiol Biotechnol 2(2):207-216.
45. Margeot A, Hahn-Hagerdal B, Edlund M, Slade R, Monot F. 2009. New improvements for lignocellulosic ethanol. Curr Opin Biotechnol 20(3):372-380.
46. Max B, Salgado JM, Rodríguez N, Cortés S, Converti A, Domínguez JM. 2010. Biotechnological production of citric acid. Braz J Microbiol 41(4):862-875.
47. Mosier N, Wyman C, Dale B, Elander R, Lee Y, Holtzapple M, Ladisch M. 2005a. Features of promising technologies for pretreatment of lignocellulosic biomass. Bioresour Technol 96(6):673-686.
48. Mosier N, Wyman C, Dale B, Elander R, Lee YY, Holtzapple M, Ladisch M. 2005b. Features of promising technologies for pretreatment of lignocellulosic biomass. Bioresour Technol 96(6):673-686.
49. Mumberg D, Muller R, Funk M. 1995. Yeast vectors for the controlled expression of heterologous proteins in different genetic backgrounds. Gene 156(1):119-122.
50. Naik SN, Goud VV, Rout PK, Dalai AK. 2010. Production of first and second generation biofuels: A comprehensive review. Renew Sust Energ Rev 14(2):578-597.
51. Nicaud JM, Fabre E, Gaillardin C. 1989. Expression of invertase activity in Yarrowia lipolytica and its use as a selective marker. Curr Genet 16(4):253-260.
52. Nicaud JM, Madzak C, van den Broek P, Gysler C, Duboc P, Niederberger P, Gaillardin C. 2002. Protein expression and secretion in the yeast Yarrowia lipolytica. FEMS Yeast Res 2(3):371-379.
53. Oh EJ, Ha SJ, Rin Kim S, Lee WH, Galazka JM, Cate JHD, Jin YS. 2013. Enhanced xylitol production through simultaneous co-utilization of cellobiose and xylose by engineered Saccharomyces cerevisiae. Metab Eng 15(0):226-234.
54. Olofsson K, Bertilsson M, Lidén G. 2008. A short review on SSF-an interesting process option for ethanol production from lignocellulosic feedstocks. Biotechnol Biofuels 1(7):1-14.
55. Papanikolaou S, Aggelis G. 2010. Yarrowia lipolytica: a model microorganism used for the production of tailor-made lipids. Eur J Lipid Sci Technol 112(6):639-654.
56. Peralta-Yahya PP, Zhang F, del Cardayre SB, Keasling JD. 2012. Microbial engineering for the production of advanced biofuels. Nature 488(7411):320-328.
57. Pereira-Meirelles FV, Rocha-LeãO MHM, Sant'Anna GL Jr. 1997. A stable lipase from Candida lipolytica. Biotechnology for Fuels and Chemicals. New York City, New York: Humana Press. p 73-85.
58. Rane K, Sims K. 1996. Citric acid production by Yarrowia lipolytica: effect of nitrogen and biomass concentration on yield and productivity. Biotechnol Lett 18(10):1139-1144.
59. Sambrook J. 2001. Molecular Cloning: A Laboratory Manual. Joseph Sambrook, Russell DW, editors. Cold Spring Harbor, N.Y: Cold Spring Harbor Laboratory.
60. Sauer M, Porro D, Mattanovich D, Branduardi P. 2008. Microbial production of organic acids: expanding the markets. Trends Biotechnol 26(2):100-108.
61. Seip J, Jackson R, He H, Zhu Q, Hong SP. 2013. Snf1 is a regulator of lipid accumulation in Yarrowia lipolytica. Appl Environ Microbiol 79(23):7360-7370.
62. Sinigaglia M, Lanciotti R, Guerzoni ME. 1994. Biochemical and physiological characteristics of Yarrowia lipolytica strains in relation to isolation source. Can J Microbiol 40(1):54-59.
63. Skipton M, Watson K, Houghton R, Griffiths D. 1974. A Comparative Study of Cells and Mitochondria of Saccharomyces cerevisiae and of a Hydrocarbon-utilizing Yeast, Candida lipolytica. J Gen Microbiol 84(1):94-110.
64. Sun Y, Cheng J. 2002. Hydrolysis of lignocellulosic materials for ethanol production: a review. Bioresour Technol 83(1):1-11.
65. Tai M. 2012. Metabolic Engineering of Oleaginous Yeast for the Production of Biofuels. Cambridge: Massachusetts Institute of Technology. 220 p.
66. Tai M, Stephanopoulos G. 2013. Engineering the push and pull of lipid biosynthesis in oleaginous yeast Yarrowia lipolytica for biofuel production. Metab Eng 15:1-9.
67. Titorenko VI, Ogrydziak DM, Rachubinski RA. 1997. Four distinct secretory pathways serve protein secretion, cell surface growth, and peroxisome biogenesis in the yeast Yarrowia lipolytica. Mol Cell Biol 17(9):5210-5226.
68. Titorenko VI, Smith JJ, Szilard RK, Rachubinski RA. 2000. Peroxisome biogenesis in the yeast Yarrowia lipolytica. Cell Biochem Biophys 32(1-3):21-26.
69. Trumbly R. 1992. Glucose repression in the yeast Saccharomyces cerevisiae. Mol Microbiol 6(1):15-21.
70. Tsigie YA, Wang CY, Truong CT, Ju YH. 2011. Lipid production from Yarrowia lipolytica Po1g grown in sugarcane bagasse hydrolysate. Bioresour Technol 102(19):9216-9222.
71. Tsigie YA, Wang CY, Kasim NS, Diem QD, Huynh LH, Ho QP, Truong CT, Ju YH. 2012. Oil production from Yarrowia lipolytica Po1g using rice bran hydrolysate. J Biomed Biotechnol 2012. Article ID: 378384.
72. Wolf K. 1996. Nonconventional Yeasts in Biotechnology:. Berlin: Springer. p 617.
73. Xue Z, Sharpe PL, Hong S-P, Yadav NS, Xie D, Short DR, Damude HG, Rupert RA, Seip JE, Wang J. and others 2013. Production of omega-3 eicosapentaenoic acid by metabolic engineering of Yarrowia lipolytica. Nat Biotech 31(8):734-740.
74. Yamane T, Sakai H, Nagahama K, Ogawa T, Matsuoka M. 2008. Dissection of centromeric DNA from yeast Yarrowia lipolytica and identification of protein-binding site required for plasmid transmission. J Biosci Bioeng 105(6):571-578.