1887

Abstract

The published Aspergillus genome sequences (, , ) and further sequence data from , , , , and are the first from a group of related filamentous fungi. They indicate the gains possible from genomic approaches, but also problems that arise after the sequences are finished. Benefits include a greater understanding of genome structure and evolution, insights into gene regulation, predictions of new factors that may be relevant to pathogenicity and the discovery of novel enzymes with biotechnological value. Areas where further developments are needed include gene and structure–function predictions, methods for comparative genome analysis and the interfaces for access to genome information. In addition, strategies for continued maintenance and updating need to be developed at the start of the post-genomic era to increase the value of genome sequences into the future.

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2007-01-01
2020-08-05
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References

  1. Abe K., Gomi K., Hasegawa F., Machida M. 2006; Impact of Aspergillus oryzae genomics on industrial production of metabolites. Mycopathologia162:143–153[CrossRef]
    [Google Scholar]
  2. Askenazi M., Driggers E. M., Holtzman D. A., Norman T. C., Iverson S., Zimmer D. P., Boers M.-E., Blomquist P. R., Martinez E. J.. other authors 2003; Integrating transcriptional and metabolite profiles to direct the engineering of lovastatin-producing fungal strains. Nat Biotechnol21:150–156[CrossRef]
    [Google Scholar]
  3. Baker S. C. 2006; Aspergillus niger genomics: past, present and into the future. Med Mycol44:S17–S21[CrossRef]
    [Google Scholar]
  4. Bok J. W., Hoffmeister D., Maggio-Hall L. A., Murillo R., Glasner J. D., Keller N. P. 2006; Genomic mining for Aspergillus natural products. Chem Biol13:31–37[CrossRef]
    [Google Scholar]
  5. Caddick M. X. 2004; Nitrogen regulation in mycelial fungi. In The Mycota III, Biochemistry and Molecular Biology, 2nd edn. pp349–368 Edited by Brambl R., Marzluf G. A.. Berlin & Heidelberg: Springer;
    [Google Scholar]
  6. Edens L., Dekker P., Deen F., De Roos A., Floris R, Van der Hoeven R.. 2005; Extracellular prolyl endoprotease from Aspergillus niger and its use in the debittering of protein hydrolysates. J Agric Food Chem53:7950–7957[CrossRef]
    [Google Scholar]
  7. Ferreira M. E. D., Kress M. R. V. Z., Savoldi M., Goldman M. H. S., Hartl A., Heinekamp T., Brakhage A. A., Goldman G. H. 2006; The akuB (KU80) mutant deficient for nonhomologous end joining is a powerful tool for analyzing pathogenicity in Aspergillus fumigatus . Eukaryot Cell5:207–211[CrossRef]
    [Google Scholar]
  8. Fungal Genome Initiative Steering Committee 2003; A whitepaper for comparative fungal genomics. www.broad.mit.edu/annotation/fgi
    [Google Scholar]
  9. Galagan J. E., Calvo S. E., Cuomo C., Ma L. J., Wortman J., Batzoglou S., Lee S. I., Basturkmen M., Spevak C.. other authors 2005a; Sequence of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae . Nature438:1105–1115[CrossRef]
    [Google Scholar]
  10. Galagan J. E., Henn M. R., Ma L.-J., Cuomo C. A., Birren B. 2005b; Genomics of the fungal kingdom: insights into eukaryotic biology. Genome Res15:1620–1631[CrossRef]
    [Google Scholar]
  11. Gardiner D. M., Howlett B. J. 2005; Bioinformatic and expression analysis of the putative gliotoxin biosynthetic gene cluster of Aspergillus fumigatus . FEMS Microbiol Lett248:241–248[CrossRef]
    [Google Scholar]
  12. Hawksworth D. L. 1991; The fungal dimension of biodiversity: magnitude, significance and conservation. Mycol Res95:641–655[CrossRef]
    [Google Scholar]
  13. Kniemeyer O., Lessing F., Scheibner O., Hertweck C., Brakhage A. A. 2006; Optimisation of a 2-D gel electrophoresis protocol for the human-pathogenic fungus Aspergillus fumigatus . Curr Genet49:178–189[CrossRef]
    [Google Scholar]
  14. Krappmann S. 2006; Tools to study molecular mechanisms of Aspergillus pathogenicity. Trends Microbiol14:356–364[CrossRef]
    [Google Scholar]
  15. Lopez M., Edens L. 2005; Effective prevention of chill-haze in beer using an acid proline-specific endoprotease from Aspergillus niger . J Agric Food Chem53:7944–7949[CrossRef]
    [Google Scholar]
  16. Machida M., Asai K., Sano M., Tanaka T., Kumagai T., Terai G., Kusmoto K., Arima T., Akita O. other authors 2005; Genome sequencing and analysis of Aspergillus oryzae . Nature438:1157–1161[CrossRef]
    [Google Scholar]
  17. Maiya S., Grundmann A., Li S. M., Turner G. 2006; The fumitremorgin gene cluster of Aspergillus fumigatus : identification of a gene encoding brevianamide F synthetase. Chem Biochem7:1062–1069
    [Google Scholar]
  18. Mogensen J., Nielsen H. B., Hofmann G., Nielsen J. 2006; Transcription analysis using high-density micro-arrays of Aspergillus nidulans wild-type and creA mutant during growth on glucose or ethanol. Fungal Genet Biol43:593–603[CrossRef]
    [Google Scholar]
  19. Nayak T., Szewczyk E., Oakley C. E., Osmani A., Ukil L., Murray S. L., Hynes M. J., Osmani S. A., Oakley B. R. 2006; A versatile and efficient gene-targeting system for Aspergillus nidulans . Genetics172:1557–1566
    [Google Scholar]
  20. Nierman W. C., Pain A., Anderson M. J., Wortman J. R., Kim H. S., Arroyo J., Berriman M., Abe K., Archer D. B.. other authors 2005; Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus . Nature438:1151–1156[CrossRef]
    [Google Scholar]
  21. Payne G. A., Nierman W. C., Wortman J. R., Pritchard B. L., Brown D., Dean R. A., Bhatnagar D., Cleveland T. E., Machida M., Yu J. 2006; Whole genome comparison of Aspergillus flavus and A. oryzae . Med Mycol44:S9–S11[CrossRef]
    [Google Scholar]
  22. Pontecorvo G., Roper J. A., Hemmons L. M., Macdonald K. D., Bufton A. W. 1953; The genetics of Aspergillus nidulans . Adv Genet5:141–238
    [Google Scholar]
  23. Royal DSM N. V. 2005; Annual Report.
  24. Schuster E., Dunn-Coleman N., Frisvad J., van Dijck P. 2002; On the safety of Aspergillus niger – a review. Appl Microbiol Biotechnol59:426–435[CrossRef]
    [Google Scholar]
  25. Wortman J. R., Fedorova N., Crabtree J., Joardar V., Maiti R., Haas B. J., Amedeo P., Lee E., Angiuoli S. V.. other authors 2006; Whole genome comparison of the A. fumigatus family. Med Mycol44:S3–37[CrossRef]
    [Google Scholar]
  26. Yang L., Ukil L., Osmani A., Nahm F., Davies J., De Souza C. P. C., Dou X. W., Perez-Balaguer A., Osmani S. A. 2004; Rapid production of gene replacement constructs and generation of a green fluorescent protein-tagged centromeric marker in Aspergillus nidulans . Eukaryot Cell3:1359–1362[CrossRef]
    [Google Scholar]
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