Draft Genome Sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10

Schneider J, Andrea H, Blom J, Jaenicke S, Rückert C, Schorsch C, Szczepanowski R, Farwick M, Goesmann A, Pühler A, Schaffer S, et al. (2012)
Eukaryotic Cell 11(12): 1582-1583.

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DOI
Autor*in
Schneider, JessicaUniBi; Andrea, Heiko; Blom, JochenUniBi; Jaenicke, SebastianUniBi; Rückert, ChristianUniBi ; Schorsch, Christoph; Szczepanowski, RafaelUniBi; Farwick, Mike; Goesmann, AlexanderUniBi ; Pühler, AlfredUniBi ; Schaffer, Steffen; Tauch, AndreasUniBi
Alle
Einrichtung
Centrum für Biotechnologie > Technologieplattformen > Bioinformatics Resource Facility
Centrum für Biotechnologie > Arbeitsgruppe A. Pühler
Technische Fakultät > Computational Genomics
Centrum für Biotechnologie > Arbeitsgruppe A. Tauch
Centrum für Biotechnologie > Graduate Center > Graduate Cluster Industrial Biotechnology
Abstract / Bemerkung
Wickerhamomyces ciferrii is a microorganism characterized by the production and secretion of large amounts of acetylated sphingoid bases, in particular tetraacetyl phytosphingosine. Here, we present the 15.90-Mbp draft genome sequence of W. ciferrii NRRL Y-1031 F-60-10 generated by pyrosequencing and de novo assembly. The draft genome sequence comprising 364 contigs in 150 scaffolds was annotated and covered 6,702 protein-coding sequences. This information will contribute to the metabolic engineering of this yeast to improve the yield and spectrum of acetylated sphingoid bases in biotechnological production.
Erscheinungsjahr
2012
Zeitschriftentitel
Eukaryotic Cell
Band
11
Ausgabe
12
Seite(n)
1582-1583
ISSN
1535-9778
eISSN
1535-9786
Page URI
https://pub.uni-bielefeld.de/record/2544774

Zitieren

Schneider J, Andrea H, Blom J, et al. Draft Genome Sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10. Eukaryotic Cell. 2012;11(12):1582-1583.
Schneider, J., Andrea, H., Blom, J., Jaenicke, S., Rückert, C., Schorsch, C., Szczepanowski, R., et al. (2012). Draft Genome Sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10. Eukaryotic Cell, 11(12), 1582-1583. doi:10.1128/EC.00258-12
Schneider, Jessica, Andrea, Heiko, Blom, Jochen, Jaenicke, Sebastian, Rückert, Christian, Schorsch, Christoph, Szczepanowski, Rafael, et al. 2012. “Draft Genome Sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10”. Eukaryotic Cell 11 (12): 1582-1583.
Schneider, J., Andrea, H., Blom, J., Jaenicke, S., Rückert, C., Schorsch, C., Szczepanowski, R., Farwick, M., Goesmann, A., Pühler, A., et al. (2012). Draft Genome Sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10. Eukaryotic Cell 11, 1582-1583.
Schneider, J., et al., 2012. Draft Genome Sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10. Eukaryotic Cell, 11(12), p 1582-1583.
J. Schneider, et al., “Draft Genome Sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10”, Eukaryotic Cell, vol. 11, 2012, pp. 1582-1583.
Schneider, J., Andrea, H., Blom, J., Jaenicke, S., Rückert, C., Schorsch, C., Szczepanowski, R., Farwick, M., Goesmann, A., Pühler, A., Schaffer, S., Tauch, A., Köhler, T., Brinkrolf, K.: Draft Genome Sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10. Eukaryotic Cell. 11, 1582-1583 (2012).
Schneider, Jessica, Andrea, Heiko, Blom, Jochen, Jaenicke, Sebastian, Rückert, Christian, Schorsch, Christoph, Szczepanowski, Rafael, Farwick, Mike, Goesmann, Alexander, Pühler, Alfred, Schaffer, Steffen, Tauch, Andreas, Köhler, Tim, and Brinkrolf, Karina. “Draft Genome Sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10”. Eukaryotic Cell 11.12 (2012): 1582-1583.

7 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Redundans: an assembly pipeline for highly heterozygous genomes.
Pryszcz LP, Gabaldón T., Nucleic Acids Res 44(12), 2016
PMID: 27131372
Clade- and species-specific features of genome evolution in the Saccharomycetaceae.
Wolfe KH, Armisén D, Proux-Wera E, ÓhÉigeartaigh SS, Azam H, Gordon JL, Byrne KP., FEMS Yeast Res 15(5), 2015
PMID: 26066552
Genomics and the making of yeast biodiversity.
Hittinger CT, Rokas A, Bai FY, Boekhout T, Gonçalves P, Jeffries TW, Kominek J, Lachance MA, Libkind D, Rosa CA, Sampaio JP, Kurtzman CP., Curr Opin Genet Dev 35(), 2015
PMID: 26649756
Genome Sequence of the Yeast Cyberlindnera fabianii (Hansenula fabianii).
Freel KC, Sarilar V, Neuvéglise C, Devillers H, Friedrich A, Schacherer J., Genome Announc 2(4), 2014
PMID: 25103752
Production of tetraacetyl phytosphingosine (TAPS) in Wickerhamomyces ciferrii is catalyzed by acetyltransferases Sli1p and Atf2p.
Ter Veld F, Wolff D, Schorsch C, Köhler T, Boles E, Poetsch A., Appl Microbiol Biotechnol 97(19), 2013
PMID: 23318835
Combined application of targeted and untargeted proteomics identifies distinct metabolic alterations in the tetraacetylphytosphingosine (TAPS) producing yeast Wickerhamomyces ciferrii.
Wolff D, ter Veld F, Köhler T, Poetsch A., J Proteomics 82(), 2013
PMID: 23500128
Biotechnological production of sphingoid bases and their applications.
Schorsch C, Boles E, Schaffer S., Appl Microbiol Biotechnol 97(10), 2013
PMID: 23579731

17 References

Daten bereitgestellt von Europe PubMed Central.

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ., Nucleic Acids Res. 25(17), 1997
PMID: 9254694
Cloning and functional characterization of the SUR2/SYR2 gene encoding sphinganine hydroxylase in Pichia ciferrii.
Bae JH, Sohn JH, Park CS, Rhee JS, Choi ES., Yeast 21(5), 2004
PMID: 15116344
Topical sphingolipids in antisepsis and antifungal therapy.
Bibel DJ, Aly R, Shinefield HR., Clin. Exp. Dermatol. 20(5), 1995
PMID: 8593716
Metabolic engineering of the non-conventional yeast Pichia ciferrii for production of rare sphingoid bases.
Borgel D, van den Berg M, Huller T, Andrea H, Liebisch G, Boles E, Schorsch C, van der Pol R, Arink A, Boogers I, van der Hoeven R, Korevaar K, Farwick M, Kohler T, Schaffer S., Metab. Eng. 14(4), 2012
PMID: 22449569
Ceramide-dominant barrier repair lipids alleviate childhood atopic dermatitis: changes in barrier function provide a sensitive indicator of disease activity.
Chamlin SL, Kao J, Frieden IJ, Sheu MY, Fowler AJ, Fluhr JW, Williams ML, Elias PM., J. Am. Acad. Dermatol. 47(2), 2002
PMID: 12140465
Genome evolution in yeasts.
Dujon B, Sherman D, Fischer G, Durrens P, Casaregola S, Lafontaine I, De Montigny J, Marck C, Neuveglise C, Talla E, Goffard N, Frangeul L, Aigle M, Anthouard V, Babour A, Barbe V, Barnay S, Blanchin S, Beckerich JM, Beyne E, Bleykasten C, Boisrame A, Boyer J, Cattolico L, Confanioleri F, De Daruvar A, Despons L, Fabre E, Fairhead C, Ferry-Dumazet H, Groppi A, Hantraye F, Hennequin C, Jauniaux N, Joyet P, Kachouri R, Kerrest A, Koszul R, Lemaire M, Lesur I, Ma L, Muller H, Nicaud JM, Nikolski M, Oztas S, Ozier-Kalogeropoulos O, Pellenz S, Potier S, Richard GF, Straub ML, Suleau A, Swennen D, Tekaia F, Wesolowski-Louvel M, Westhof E, Wirth B, Zeniou-Meyer M, Zivanovic I, Bolotin-Fukuhara M, Thierry A, Bouchier C, Caudron B, Scarpelli C, Gaillardin C, Weissenbach J, Wincker P, Souciet JL., Nature 430(6995), 2004
PMID: 15229592
Phytosphingosine: a nature-inspired sphingoid base with multiple skin benefits
Farwick M, Rawlings AV., 2011
The outer frontier: the importance of lipid metabolism in the skin.
Feingold KR., J. Lipid Res. 50 Suppl(), 2008
PMID: 18980941
Epidermal sphingolipids: metabolism, function, and roles in skin disorders.
Holleran WM, Takagi Y, Uchida Y., FEBS Lett. 580(23), 2006
PMID: 16962101
Identification and characterization of a Saccharomyces cerevisiae gene, RSB1, involved in sphingoid long-chain base release.
Kihara A, Igarashi Y., J. Biol. Chem. 277(33), 2002
PMID: 12034738
Formation of Extracellular Sphingolipids by Microorganisms: IV. Pilot-Plant Production of Tetraacetylphytosphingosine by Hansenula ciferrii.
Maister HG, Rogovin SP, Stodola FH, Wickerham LJ., Appl Microbiol 10(5), 1962
PMID: 16349621
Novel sphingolipid derivatives promote keratinocyte differentiation.
Paragh G, Schling P, Ugocsai P, Kel AE, Liebisch G, Heimerl S, Moehle C, Schiemann Y, Wegmann M, Farwick M, Wikonkal NM, Mandl J, Langmann T, Schmitz G., Exp. Dermatol. 17(12), 2008
PMID: 18631249
Anti-microbial and -inflammatory activity and efficacy of phytosphingosine: an in vitro and in vivo study addressing acne vulgaris.
Pavicic T, Wollenweber U, Farwick M, Korting HC., Int J Cosmet Sci 29(3), 2007
PMID: 18489348
RAPYD--rapid annotation platform for yeast data.
Schneider J, Blom J, Jaenicke S, Linke B, Brinkrolf K, Neuweger H, Tauch A, Goesmann A., J. Biotechnol. 155(1), 2010
PMID: 21040748
High-level production of tetraacetyl phytosphingosine (TAPS) by combined genetic engineering of sphingoid base biosynthesis and L-serine availability in the non-conventional yeast Pichia ciferrii.
Schorsch C, Kohler T, Andrea H, Boles E., Metab. Eng. 14(2), 2011
PMID: 22178746
Knockout of the DNA ligase IV homolog gene in the sphingoid base producing yeast Pichia ciferrii significantly increases gene targeting efficiency.
Schorsch C, Kohler T, Boles E., Curr. Genet. 55(4), 2009
PMID: 19468735
Gene prediction with a hidden Markov model and a new intron submodel.
Stanke M, Waack S., Bioinformatics 19 Suppl 2(), 2003
PMID: 14534192
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