Bioinformatics predicts diverse Aspergillus hydrophobins with novel properties

Food Hydrocolloids

Volumn 27, Issue 2, 2012, Pages 503-516

  Littlejohn, Karen A ^a   Hooley, Paul ^b   Cox, Phil W ^a  

^a UNIVERSITY OF BIRMINGHAM   (United Kingdom)

^b UNIVERSITY OF WOLVERHAMPTON   (United Kingdom)

Author keywords

Aspergillus; Bioinformatics; Hydrophobin; Protein

Indexed keywords

AMINO ACIDS; BIOINFORMATICS; DATABASE SYSTEMS; OILS AND FATS; PROTEINS; SEARCH ENGINES;

AIR-WATER; AMINO-ACIDS; AMPHIPATHIC; ELASTIC LAYERS; FILAMENTOUS FUNGUS; HYDROPHOBINS; OIL-WATER INTERFACE; PROPERTY; TECHNOLOGICAL APPLICATIONS; WATER-WATER;

ASPERGILLUS;

ASPERGILLUS; ASPERGILLUS CLAVATUS; ASPERGILLUS NIGER; ASPERGILLUS ORYZAE; ASPERGILLUS TERREUS; EMERICELLA NIDULANS; FUNGI; NEOSARTORYA FISCHERI;

EID: 84855197279     PISSN: 0268005X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.foodhyd.2011.08.018     Document Type: Article

References (56)

1. Aimanianda V., Bayry J., Bozza S., Kniemeyer O., Perruccio K., Elluru S., et al. Surface hydrophobin prevents immune recognition of airborne fungal spores. Nature 2009, 460:1117-1121.
2. Akanbi M., Post E., Meter-Arkema A., Rink R., Robillard G., Wang X., et al. Use of hydrophobins in formulation of water insoluble drugs for oral administration. Colloids and Surfaces B: Biointerfaces 2010, 75:526-531.
3. Altschul S.F., Madden T.L., Schäffer A.A., Zhang J., Zhang Z., Miller W., et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research 1997, 25:3389-3402.
4. Arnaud M.B., Chibucos M., Costanzo M., Crabtree J., Inglis D., Lotia A., et al. The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community. Nucleic Acids Research 2010, 38:D420-D427.
5. Askolin S. Characterization of the Trichoderma reesei hydrophobins HFBI and HFBII. VTT Publications 2006, 601. 1455-0849.
6. Baker S.E. Aspergillus niger genomics: past, present and into the future. Medical Mycology 2006, 44:17-21.
7. Brachat S., Dietrich F.S., Voegeli S., Zhang Z., Stuart L., Lerch A., et al. Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii. Genome Biology 2003, 4:R45.
8. Braun B.R., van Het Hoog M., d'Enfert C., Martchenko M., Dungan J., Kuo A., et al. Ahuman-curated annotation of the Candida albicans genome. PLoS Genetics 2005, 1:e1. 10.1371/journal.pgen.0010001.
9. Broad Institute. (2010). Accessed March 2010. http://www.broadinstitute.org/annotation/genome/Aspergillus_group/MultiHome.html.
10. Bryson K., McGuffin L.J., Marsden R.L., Ward J.J., Sodhi J.S., Jones D.T. Protein structure prediction servers at University College London. Nucleic Acids Research 2005, 33(Web server issue):W36-W38.
11. Cox A., Aldred D., Russell A. Exceptional stability of food foams using class II hydrophobin HFBII. Food Hydrocolloids 2008, 23(2):366-376.
12. Cox A., Cagnol F., Russell A., Izzard M. Surface properties of class II hydrophobins from Trichoderma reesei and influences on bubble stability. Langmuir 2007, 23:7995-8002.
13. Cox P.W., Hooley P. Hydrophobins: new prospects for biotechnology. Fungal Biology Reviews 2009, 23(1-2):40-47.
14. de Groot P., Brandt B., Horiuchi H., Ram A., de Koster C., Klis F. Comprehensive genomic analysis of cell wall genes in Aspergillus nidulans. Fungal Genetics and Biology 2009, 46(1):S72-S81.
15. de Vocht M., Reviakine I., Ulrich W., Bergsma-Schutter W., Wosten H., Vogel H., et al. Self-assembly of the hydrophobin SC3 proceeds via two structural intermediates. Protein Science 2002, 11:1199-1205.
16. de Vries O.M., Moore S., Arntz C., Wessels J.G., Tudzynski P. Identification and characterization of a tri-partite hydrophobin from Claviceps fusiformis. European Journal of Biochemistry 1999, 262:377-385.
17. Expasy. Accessed August 2010. http://expasy.org/cgi-bin/protscale.pl.
18. Galagan J.E., Calvo S.E., Cuomo C., Ma L.J., Wortman J.R., Batzoglou S., et al. Sequencing of Aspergillus nidulans and comparative analysis with Aspergillus fumigatus and Aspergillus oryzae. Nature 2005, 438:1105-1115.
19. Finn R.D., Mistry J., Tate J., Coggill P., Heger A., Pollington J.E., et al. The Pfam protein families database. Nucleic Acids Research 2010, 38(Database issue):D211-D222.
20. Hakenpaa J., Linder M., Popov A., Schmidt A., Rowvine J. Hydrophobin HFBII in detail: ultra high resolution structure at 0.75A. Acta Crystallogr 2006, 62:356-367.
21. Hektor H., Scholtmeijer K. Hydrophobins: proteins with potential. Current Opinion in Biotechnology 2005, 16(4):434-439.
22. Jensen B.G., Anderson M.R., Pedersen M.H., Frisvad J.C., Søndergaard I. Hydrophobins from Aspergillus species cannot be clearly divided into two classes. BMC Research Notes 2010, 3:344.
23. Kershaw M., Talbot N. Hydrophobins and repellents: proteins with fundamental roles in fungal morphogenesis. Fungal Genetics and Biology 1998, 23:18-23.
24. Kubicek C.P., Baker S., Gamauf C., Kenerley C.M., Druzhina I.S. Purifying selection and birth and death evolution in the Class II hydrophobin gene families of the ascomycete Trichoderma/Hypocrea. BMC Evolutionary Biology 2008, 8:4. 10.1186/1471-2148-8-4.
25. Kwan A.H.Y., Winefield R.D., Sunde M., Mathews J.M., Haverkamp R.G., Templeton M.D., et al. Structural basis for rodlet assembly in hydrophobins. Proceedings of the National Academy of Sciences of the United States of America 2006, 103:3621-3626.
26. Linder M. Hydrophobins: proteins that self assemble at interfaces. Current Opinion in Colloid and Interface Science 2009, 14:356-363.
27. Linder M., Szilvay G., Nakari-Setala T., Penttila M. Hydrophobins: the protein-amphiphiles of filamentous fungi. Microbiology Review 2005, 29:877-896.
28. MacKenzie D.A., Jeenes D.J., Gou X., Archer D.B. Molecular basis of glucoamylase overproduction by a mutagenised industrial strain of Aspergillus niger. Enzyme and Microbial Technology 2000, 26:193-200.
29. McCabe W., Smith J., Harriott P. Chemical engineering unit operations 2004, McGraw Hill, (Originally published 1956). 7thed.
30. Notre Dame C., Higgins D.G., Heringa J. T-Coffee: a novel method for fast and accurate multiple sequence alignment. Journal of Molecular Biology 2000, 302(1):205-217.
31. Page R.M.D. Treeview. An application to display phylogenetic trees on personal computers. Computer Applications in Biosciences 1996, 12:357-358.
32. Pfam. Accessed August 2010. http://pfam.sanger.ac.uk/.
33. PHYR. Accessed November 2010. http://www.sbg.bio.ic.ac.uk/%7ephyre/.
34. Poptsova M.S., Gogarten J.P. Using comparative genome analysis to identify problems in annotated genomes. Microbiology 2010, 156:1909-1917.
35. PSIPRED. Accessed March 2010. http://bioinf4.cs.ucl.ac.uk:3000/psipred/.
36. Schmoll M., Seibl C., Kotlowski C., Wollet G.V.F., Leibman B., Kubicek C.P. Recombinant production of an Aspergillus nidulans class I hydrophobin (DewA) in Hypocrea jecorina (Trichoderma reesei) is promoter dependent. Applied Microbiology and Biotechnology 2010, 88(1):95-103.
37. Scholtmeijer K., Janssen M.I., Gerssen B., de Vocht M.L., van Leeuwen B.M., van Kooten T.G., et al. Surface modifications created by using engineered hydrophobins. Applied and Environmental Microbiology 2002, 68:1367-1373.
38. Scholtmeijer K., Janssen M.I., van Leeuwen M.B.M., van Kooten T.G., Hektor H., Wosten H.A.B. The use of hydrophobins to functionalize surfaces. Bio-Medical Materials and Engineering 2004, 14(4):447-454.
39. SignalP 3.0 server. Accessed March 2010. http://www.cbs.dtu.dk/services/SignalP/.
40. Stajich J.E., Wilke S.K., Ahren D., Au C.H., Birren B.W., Borodovsky M., et al. Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea (Coprinus cinereus). Proceedings of the National Academy of Sciences of the United States of America 2010, 107(26):11889-11894.
41. Sunde M., Kwan A., Templeton M., Beever R., Mackay J. Structural analysis of hydrophobins. Micron 2008, 39:773-784.
42. Szilvay G., Nakari-Setala T., Linder M. Behaviour of Trichoderma reesei hydrophobins in solution: interactions, dynamics and multimer formation. Biochemistry 2006, 45:8590-8598.
43. Tcheunbou-Magaia F., Norton I., Cox P. Hydrophobins: stabilised air filled emulsions for the food industry. Food Hydrocolloids 2009, 23(7):1877-1885.
44. TCoffee. Accessed March 2010. http://igs-server.cnrs-mrs.fr/Tcoffee/tcoffee_cgi/index.cgi.
45. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., Higgins D.G. The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 1997, 25:4876-4882.
46. Wang Z., Lienemann M., Qiau M., Linder M. Mechanisms of protein adhesion on surface films of hydrophobin. Langmuir 2010, 26(11):8491-8496.
47. Wessels J.G.H. Developmental regulation of fungal cell wall formation. Annual Review of Phytopathology 1994, 32:413-437.
48. Wessels J.G.H. Hydrophobins: proteins that change the nature of fungal surfaces. Advances in Microbial Physiology 1997, 38:1-45.
49. Whiteford J., Spanu P. Hydrophobins and the interactions between fungi and plants. Molecular Plant Pathology 2002, 3(5):391-400.
50. Winefield R.D., Hilario E., Beever R.E., Haverkamp R.G., Templeton M.D. Hydrophobin genes and their expression in conidial and aconidial Neurospora species. Fungal Genetics and Biology 2007, 44:250-257.
51. Wohlleben W., Subkowski T., Bollschweiler C., von Vacano B., Liu Y., Schrepp W., et al. Recombinantly produced hydrophobins from fungal analogues as highly surface-active performance proteins. European Biophysical Journal 2010, 39:457-468.
52. Wong K.M., Suchard M.A., Huelsenbeck Alignment uncertainty and genomic analysis. Science 2008, 319:473-476.
53. Wösten H. Hydrophobins: multipurpose proteins. Annual Review of Microbiology 2001, 55:625-646.
54. Wösten H., Wessels J. Hydrophobins, from molecular structure to multiple function in fungal development. Mycoscience 1997, 38:363-374.
55. Wösten H.A.B., de Vocht M.L. Hydrophobins, the fungal coat unravelled. Biochimica et Biophysica Acta 2000, 1469:70-86.
56. Yang K., Deng Y., Zhang C., Elasri M. Identification of new members of hydrophobin family using primary structure analysis. BMC Bioinformatics 2006, 7(Suppl. 4):S16. 10.1186/1471-2105-7-S4-S16.