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Kunze G, Gaillardin C, Czernicka M, et al. The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest. Biotechnol Biofuels. 2014;7:66doi: 10.1186/1754-6834-7-66.
Kunze, G., Gaillardin, C., Czernicka, M., Durrens, P., Martin, T., Böer, E., Gabaldón, T., Cruz, J. A., Talla, E., Marck, C., Goffeau, A., Barbe, V., Baret, P., Baronian, K., Beier, S., Bleykasten, C., Bode, R., Casaregola, S., Despons, L., Fairhead, C., Giersberg, M., Gierski, P. P., Hähnel, U., Hartmann, A., Jankowska, D., Jubin, C., Jung, P., Lafontaine, I., Leh-Louis, V., Lemaire, M., Marcet-Houben, M., Mascher, M., Morel, G., Richard, G. F., Riechen, J., Sacerdot, C., Sarkar, A., Savel, G., Schacherer, J., Sherman, D. J., Stein, N., Straub, M. L., Thierry, A., Trautwein-Schult, A., Vacherie, B., Westhof, E., Worch, S., Dujon, B., Souciet, J. L., Wincker, P., Scholz, U., & Neuvéglise, C. (2014). The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest. Biotechnology for biofuels, 766. https://doi.org/10.1186/1754-6834-7-66
Kunze, Gotthard, et al. "The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest." Biotechnology for biofuels vol. 7 (2014): 66. doi: https://doi.org/10.1186/1754-6834-7-66
Kunze G, Gaillardin C, Czernicka M, Durrens P, Martin T, Böer E, Gabaldón T, Cruz JA, Talla E, Marck C, Goffeau A, Barbe V, Baret P, Baronian K, Beier S, Bleykasten C, Bode R, Casaregola S, Despons L, Fairhead C, Giersberg M, Gierski PP, Hähnel U, Hartmann A, Jankowska D, Jubin C, Jung P, Lafontaine I, Leh-Louis V, Lemaire M, Marcet-Houben M, Mascher M, Morel G, Richard GF, Riechen J, Sacerdot C, Sarkar A, Savel G, Schacherer J, Sherman DJ, Stein N, Straub ML, Thierry A, Trautwein-Schult A, Vacherie B, Westhof E, Worch S, Dujon B, Souciet JL, Wincker P, Scholz U, Neuvéglise C. The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest. Biotechnol Biofuels. 2014 Apr 24;7:66. doi: 10.1186/1754-6834-7-66. eCollection 2014. PMID: 24834124; PMCID: PMC4022394.
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Biotechnol Biofuels. 2014 Apr 24;7:66. doi: 10.1186/1754-6834-7-66. eCollection 2014.

The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest.

Biotechnology for biofuels

Gotthard Kunze, Claude Gaillardin, Małgorzata Czernicka, Pascal Durrens, Tiphaine Martin, Erik Böer, Toni Gabaldón, Jose A Cruz, Emmanuel Talla, Christian Marck, André Goffeau, Valérie Barbe, Philippe Baret, Keith Baronian, Sebastian Beier, Claudine Bleykasten, Rüdiger Bode, Serge Casaregola, Laurence Despons, Cécile Fairhead, Martin Giersberg, Przemysław Piotr Gierski, Urs Hähnel, Anja Hartmann, Dagmara Jankowska, Claire Jubin, Paul Jung, Ingrid Lafontaine, Véronique Leh-Louis, Marc Lemaire, Marina Marcet-Houben, Martin Mascher, Guillaume Morel, Guy-Franck Richard, Jan Riechen, Christine Sacerdot, Anasua Sarkar, Guilhem Savel, Joseph Schacherer, David J Sherman, Nils Stein, Marie-Laure Straub, Agnès Thierry, Anke Trautwein-Schult, Benoit Vacherie, Eric Westhof, Sebastian Worch, Bernard Dujon, Jean-Luc Souciet, Patrick Wincker, Uwe Scholz, Cécile Neuvéglise

Affiliations

  1. Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Corrensstr. 3, Gatersleben D-06466, Germany.
  2. Yeast Genetics, Leibniz Institute of Plant Research (IPK), Corrensstrasse 3, Gatersleben 06466, Germany.
  3. AgroParisTech, Micalis UMR 1319, CBAI, Thiverval-Grignon, F-78850, France.
  4. INRA French National Institute for Agricultural Research, Micalis UMR 1319, CBAI, Thiverval-Grignon F-78850, France.
  5. Institute of Plant Biology and Biotechnology, University of Agriculture in Krakow, Al. 29 Listopada 54, Krakow 31-425, Poland.
  6. LaBRI (UMR 5800 CNRS) and project-team Magnome INRIA Bordeaux Sud-Ouest, Talence F-33405, France.
  7. Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), Dr. Aiguader 88, Barcelona 08003, Spain.
  8. Universitat Pompeu Fabra (UPF), Barcelona 08003, Spain.
  9. Université de Strasbourg, Architecture et Réactivité de l'ARN, Institut de Biologie Moléculaire et Cellulaire du CNRS, F-67084 Strasbourg, France.
  10. Aix-Marseille Université, CNRS UMR 7283, Laboratoire de Chimie Bactérienne, F-13402 Marseille, Cedex 20, France.
  11. CEA, Saclay Biology and Technologies Institute (iBiTec-S), Gif-sur-Yvette F-91191, France.
  12. Université catholique de Louvain, Institut des Sciences de la Vie, Croix du Sud 5/15, Louvain-la-Neuve 1349, Belgium.
  13. CEA, Institut de Génomique, Genoscope, 2 Rue Gaston Crémieux, Évry F-91000, France.
  14. Université Catholique de Louvain, Earth and Life Institute (ELI), Louvain-la-Neuve 1348, Belgium.
  15. School of Biological Sciences, University of Canterbury, Private Bag 4800, Christchurch, New Zealand.
  16. Université de Strasbourg, CNRS UMR7156, Strasbourg F-67000, France.
  17. Institute of Biochemistry, University of Greifswald, Felix-Hausdorffstraße 4, Greifswald D-17487, Germany.
  18. Institut de Génétique et Microbiologie, Université Paris-Sud, UMR CNRS 8621, F- Orsay CEDEX 91405, France.
  19. Laboratory of Bioinformatics and Protein Engineering, International Institute of Molecular and Cell Biology in Warsaw, ul. Ks. Trojdena 4, Warsaw 02-109, Poland.
  20. CNRS UMR 8030, 2 Rue Gaston Crémieux, Évry F-91000, France.
  21. Université d'Evry, Bd François Mitterand, Evry F-91025, France.
  22. Institut Pasteur, Université Pierre et Marie Curie UFR927, CNRS UMR 3525, F-75724 Paris-CEDEX 15, France.
  23. Université Lyon 1, CNRS UMR 5240, Villeurbanne F-69621, France.
  24. Present address: École Normale Supérieure, Institut de Biologie de l'ENS (IBENS), 46 rue d'Ulm, Paris F-75005, France.
  25. INRA Institut Micalis UMR 1319, AgroParisTech, BIMLip, Avenue de Bretignières, Bât. CBAI, Thiverval-Grignon 78850, France.

PMID: 24834124 PMCID: PMC4022394 DOI: 10.1186/1754-6834-7-66

Abstract

BACKGROUND: The industrially important yeast Blastobotrys (Arxula) adeninivorans is an asexual hemiascomycete phylogenetically very distant from Saccharomyces cerevisiae. Its unusual metabolic flexibility allows it to use a wide range of carbon and nitrogen sources, while being thermotolerant, xerotolerant and osmotolerant.

RESULTS: The sequencing of strain LS3 revealed that the nuclear genome of A. adeninivorans is 11.8 Mb long and consists of four chromosomes with regional centromeres. Its closest sequenced relative is Yarrowia lipolytica, although mean conservation of orthologs is low. With 914 introns within 6116 genes, A. adeninivorans is one of the most intron-rich hemiascomycetes sequenced to date. Several large species-specific families appear to result from multiple rounds of segmental duplications of tandem gene arrays, a novel mechanism not yet described in yeasts. An analysis of the genome and its transcriptome revealed enzymes with biotechnological potential, such as two extracellular tannases (Atan1p and Atan2p) of the tannic-acid catabolic route, and a new pathway for the assimilation of n-butanol via butyric aldehyde and butyric acid.

CONCLUSIONS: The high-quality genome of this species that diverged early in Saccharomycotina will allow further fundamental studies on comparative genomics, evolution and phylogenetics. Protein components of different pathways for carbon and nitrogen source utilization were identified, which so far has remained unexplored in yeast, offering clues for further biotechnological developments. In the course of identifying alternative microorganisms for biotechnological interest, A. adeninivorans has already proved its strengthened competitiveness as a promising cell factory for many more applications.

Keywords: Biotechnology; Genome; Metabolism; Tannic acid; Yeast; n-butanol

References

  1. Fungal Genet Biol. 2011 Aug;48(8):840-8 - PubMed
  2. J Mol Biol. 2004 Jul 16;340(4):783-95 - PubMed
  3. FEMS Yeast Res. 2005 Nov;5(11):1079-96 - PubMed
  4. Antonie Van Leeuwenhoek. 1993 Feb;63(2):125-44 - PubMed
  5. Yeast. 2009 Jun;26(6):323-37 - PubMed
  6. Yeast. 2009 Feb;26(2):83-93 - PubMed
  7. Bioinformatics. 2009 Jul 15;25(14):1754-60 - PubMed
  8. J Appl Microbiol. 2010 Mar;108(3):789-799 - PubMed
  9. FEMS Yeast Res. 2007 Jan;7(1):141-51 - PubMed
  10. Biotechnol Bioeng. 1991 Feb 5;37(3):247-55 - PubMed
  11. No To Hattatsu. 1992 Mar;24(2):127-33 - PubMed
  12. J Appl Microbiol. 2013 Nov;115(5):1134-46 - PubMed
  13. Biochem J. 1997 Jan 15;321 ( Pt 2):397-403 - PubMed
  14. Curr Opin Microbiol. 2009 Dec;12(6):616-22 - PubMed
  15. Antonie Van Leeuwenhoek. 1991 Feb;59(2):129-37 - PubMed
  16. BMC Bioinformatics. 2010 Jan 13;11:24 - PubMed
  17. Yeast. 2005 Sep;22(12):979-91 - PubMed
  18. Mol Biol Evol. 2007 Jun;24(6):1380-3 - PubMed
  19. Genome Biol. 2004;5(2):R12 - PubMed
  20. Biosens Bioelectron. 2011 May 15;26(9):3742-7 - PubMed
  21. Biosens Bioelectron. 2006 May 15;21(11):2078-85 - PubMed
  22. C R Biol. 2011 Aug-Sep;334(8-9):662-70 - PubMed
  23. Bioinformatics. 2011 Jan 1;27(1):38-45 - PubMed
  24. Zentralbl Mikrobiol. 1990;145(1):3-12 - PubMed
  25. Mol Biol Evol. 1997 Jul;14(7):685-95 - PubMed
  26. Adv Appl Microbiol. 1997;44:215-60 - PubMed
  27. Yeast. 1996 Sep 30;12(12):1201-8 - PubMed
  28. J Ind Microbiol Biotechnol. 2012 Sep;39(9):1385-96 - PubMed
  29. Yeast. 2005 May;22(7):523-35 - PubMed
  30. Antonie Van Leeuwenhoek. 1990 Jan;57(1):59-61 - PubMed
  31. Nucleic Acids Res. 2006 Mar 23;34(6):1692-9 - PubMed
  32. BMC Genomics. 2013 Nov 27;14:837 - PubMed
  33. Trends Plant Sci. 2011 Jul;16(7):381-7 - PubMed
  34. Antonie Van Leeuwenhoek. 1994;65(1):29-34 - PubMed
  35. Genome Res. 2009 Sep;19(9):1639-45 - PubMed
  36. Genome Res. 2009 Oct;19(10):1696-709 - PubMed
  37. Appl Microbiol Biotechnol. 2011 Oct;92(1):105-14 - PubMed
  38. PLoS Genet. 2011 Jul;7(7):e1002190 - PubMed
  39. Genome Res. 2003 Sep;13(9):2178-89 - PubMed
  40. PLoS One. 2009 Aug 05;4(8):e6515 - PubMed
  41. Algorithms Mol Biol. 2008 May 27;3:6 - PubMed
  42. Antonie Van Leeuwenhoek. 1984;50(4):369-78 - PubMed
  43. PLoS One. 2012;7(3):e33840 - PubMed
  44. Nucleic Acids Res. 2009 Jan;37(Database issue):D550-4 - PubMed
  45. J Appl Microbiol. 2013 Sep;115(3):796-807 - PubMed
  46. Trends Genet. 2010 Jan;26(1):5-8 - PubMed
  47. Biodegradation. 1998;9(5):343-57 - PubMed
  48. Genome Biol Evol. 2013;5(12):2524-39 - PubMed
  49. C R Biol. 2011 Aug-Sep;334(8-9):671-8 - PubMed
  50. Nature. 2009 Jun 4;459(7247):657-62 - PubMed
  51. Bioinformatics. 2012 Aug 1;28(15):2064-6 - PubMed
  52. Nucleic Acids Res. 2011 Jan;39(Database issue):D556-60 - PubMed
  53. BMC Bioinformatics. 2004 Aug 19;5:113 - PubMed
  54. Bioinformatics. 2009 Aug 1;25(15):1972-3 - PubMed
  55. Bioinformatics. 2008 Jul 1;24(13):1540-1 - PubMed
  56. Sci Total Environ. 2010 Nov 1;408(23):6017-26 - PubMed
  57. Genetics. 1990 Dec;126(4):837-50 - PubMed
  58. Int J Food Microbiol. 2012 Jul 2;157(2):202-9 - PubMed
  59. Appl Microbiol Biotechnol. 2007 Aug;76(1):47-59 - PubMed
  60. G3 (Bethesda). 2012 Feb;2(2):299-311 - PubMed
  61. Nat Rev Genet. 2010 Jul;11(7):512-24 - PubMed
  62. Bioinformatics. 2009 Aug 15;25(16):2078-9 - PubMed
  63. Antonie Van Leeuwenhoek. 1992 Oct;62(3):181-7 - PubMed
  64. Stat Appl Genet Mol Biol. 2004;3:Article3 - PubMed
  65. Nucleic Acids Res. 2006 Apr 05;34(6):1816-35 - PubMed
  66. Nucleic Acids Res. 2005 Jan 20;33(2):511-8 - PubMed
  67. Syst Biol. 2010 May;59(3):307-21 - PubMed
  68. Genome Biol. 2008 Oct 30;9(10):235 - PubMed

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