Open access to sequence: Browsing the Pichia pastoris genome

Microbial Cell Factories

Volumn 8, Issue , 2009, Pages 53-

  Mattanovich, Diethard ^a,b   Callewaert, Nico ^c,d   Rouzé, Pierre ^c,d   Lin, Yao Cheng ^c,d   Graf, Alexandra ^a,b   Redl, Andreas ^a,b   Tiels, Petra ^c,d   Gasser, Brigitte ^a   De Schutter, Kristof ^c,d  

^a UNIVERSITY OF NATURAL RESOURCES AND LIFE SCIENCES   (Austria)

^b Fachhochschule Campus Wien   (Austria)

^c DEPARTMENT OF PLANT SYSTEMS BIOLOGY   (Belgium)

^d GHENT UNIVERSITY   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

FUNGAL PROTEIN;

ACCESS TO INFORMATION; FUNGAL GENE; FUNGAL GENETICS; GENE FUNCTION; GENE SEQUENCE; GENE STRUCTURE; GENETIC ANALYSIS; GENETIC REGULATION; INFORMATION DISSEMINATION; INFORMATION PROCESSING; INTERNET; NONHUMAN; NOTE; PICHIA PASTORIS; PROTEIN SYNTHESIS;

DATABASES, GENETIC; GENOME, FUNGAL; PICHIA; SOFTWARE;

PICHIA PASTORIS;

EID: 70449699931     PISSN: None     EISSN: 14752859     Source Type: Journal    
DOI: 10.1186/1475-2859-8-53     Document Type: Note

References (30)

1. Ideker T, Galitski T, Hood L. A new approach to decoding life: systems biology. Annu Rev Genomics Hum Genet 2001, 2:343-372. 10.1146/annurev.genom.2.1.343, 11701654.
2. Lee S, Lee D, Kim T. Systems biotechnology for strain improvement. Trends Biotechnol 2005, 23(7):349-358. 10.1016/j.tibtech.2005.05.003, 15923052.
3. Cereghino JL, Cregg JM. Heterologous protein expression in the methylotrophic yeast Pichia pastoris. FEMS Microbiol Rev 2000, 24(1):45-66. 10.1111/j.1574-6976.2000.tb00532.x, 10640598.
4. Macauley-Patrick S, Fazenda ML, McNeil B, Harvey LM. Heterologous protein production using the Pichia pastoris expression system. Yeast 2005, 22(4):249-270. 10.1002/yea.1208, 15704221.
5. Marx H, Mattanovich D, Sauer M. Overexpression of the riboflavin biosynthetic pathway in Pichia pastoris. Microb Cell Fact 2008, 7:23. 10.1186/1475-2859-7-23, 2517057, 18664246.
6. Hu H, Qian J, Chu J, Wang Y, Zhuang Y, Zhang S. DNA shuffling of methionine adenosyltransferase gene leads to improved S-adenosyl-L-methionine production in Pichia pastoris. J Biotechnol 2009, 141(3-4):97-103. 10.1016/j.jbiotec.2009.03.006, 19433211.
7. Hamilton S, Davidson R, Sethuraman N, Nett J, Jiang Y, Rios S, Bobrowicz P, Stadheim T, Li H, Choi B. Humanization of yeast to produce complex terminally sialylated glycoproteins. Science 2006, 313(5792):1441-1443. 10.1126/science.1130256, 16960007.
8. Hamilton S, Gerngross T. Glycosylation engineering in yeast: the advent of fully humanized yeast. Curr Opin Biotechnol 2007, 18(5):387-392. 10.1016/j.copbio.2007.09.001, 17951046.
9. Jacobs P, Geysens S, Vervecken W, Contreras R, Callewaert N. Engineering complex-type N-glycosylation in Pichia pastoris using GlycoSwitch technology. Nat Protoc 2009, 4(1):58-70. 10.1038/nprot.2008.213, 19131957.
10. Gasser B, Saloheimo M, Rinas U, Dragosits M, Rodríguez-Carmona E, Baumann K, Giuliani M, Parrilli E, Branduardi P, Lang C. Protein folding and conformational stress in microbial cells producing recombinant proteins: a host comparative overview. Microb Cell Fact 2008, 7:11. 10.1186/1475-2859-7-11, 2322954, 18394160.
11. Gasser B, Maurer M, Rautio J, Sauer M, Bhattacharyya A, Saloheimo M, Penttilä M, Mattanovich D. Monitoring of transcriptional regulation in Pichia pastoris under protein production conditions. BMC Genomics 2007, 8:179. 10.1186/1471-2164-8-179, 1919374, 17578563.
12. Graf A, Gasser B, Dragosits M, Sauer M, Leparc G, Tuechler T, Kreil D, Mattanovich D. Novel insights into the unfolded protein response using Pichia pastoris specific DNA microarrays. BMC Genomics 2008, 9(1):390. 10.1186/1471-2164-9-390, 2533675, 18713468.
13. Dragosits M, Stadlmann J, Albiol J, Baumann K, Maurer M, Gasser B, Sauer M, Altmann F, Ferrer P, Mattanovich D. The effect of temperature on the proteome of recombinant Pichia pastoris. J Proteome Res 2009, 1380-92. 10.1021/pr8007623, 19216534.
14. Solà A, Maaheimo H, Ylönen K, Ferrer P, Szyperski T. Amino acid biosynthesis and metabolic flux profiling of Pichia pastoris. Eur J Biochem 2004, 271(12):2462-2470. 10.1111/j.1432-1033.2004.04176.x, 15182362.
15. Solà A, Jouhten P, Maaheimo H, Sánchez-Ferrando F, Szyperski T, Ferrer P. Metabolic flux profiling of Pichia pastoris grown on glycerol/methanol mixtures in chemostat cultures at low and high dilution rates. Microbiology 2007, 153(Pt 1):281-290. 10.1099/mic.0.29263-0, 17185557.
16. Mattanovich D, Graf A, Stadlmann J, Dragosits M, Redl A, Maurer M, Kleinheinz M, Sauer M, Altmann F, Gasser B. Genome, secretome and glucose transport highlight unique features of the protein production host Pichia pastoris. Microb Cell Fact 2009, 8:29. 10.1186/1475-2859-8-29, 2702363, 19490607.
17. De Schutter K, Lin YC, Tiels P, Van Hecke A, Glinka S, Weber-Lehmann J, Rouze P, Peer Y, Callewaert N. Genome sequence of the recombinant protein production host Pichia pastoris. Nat Biotechnol 2009, 27(6):561-566. 10.1038/nbt.1544, 19465926.
18. Pichia Genome browser. , http://www.pichiagenome.org
19. BOGAS. , http://bioinformatics.psb.ugent.be/webtools/bogas
20. Anno-J. , http://www.annoj.org/
21. GMOD. , http://www.gmod.org/
22. Stein L, Mungall C, Shu S, Caudy M, Mangone M, Day A, Nickerson E, Stajich J, Harris T, Arva A. The generic genome browser: a building block for a model organism system database. Genome Res 2002, 12(10):1599-1610. 10.1101/gr.403602, 187535, 12368253.
23. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 2000, 25(1):25-29. 10.1038/75556, 10802651.
24. Zdobnov EM, Apweiler R. InterProScan--an integration platform for the signature-recognition methods in InterPro. Bioinformatics 2001, 17(9):847-848. 10.1093/bioinformatics/17.9.847, 11590104.
25. GBrowse Tutorial. , http://www.openhelix.com/gbrowse
26. GBrowse Tutorial. , http://gmod.org/wiki/Gbrowse
27. Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004, 32(5):1792-1797. 10.1093/nar/gkh340, 390337, 15034147.
28. Rutherford K, Parkhill J, Crook J, Horsnell T, Rice P, Rajandream MA, Barrell B. Artemis: sequence visualization and annotation. Bioinformatics 2000, 16(10):944-945. 10.1093/bioinformatics/16.10.944, 11120685.
29. GenomeView. , http://genomeview.sourceforge.net
30. Cherry JM. Genetic nomenclature guide. Saccharomyces cerevisiae. Trends Genet 1995, 11-12.