Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus
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Aspergillus fumigatus is exceptional among microorganisms in being both a primary and opportunistic pathogen as well as a major allergen. Its conidia production is prolific, and so human respiratory tract exposure is almost constant. A. fumigatus is isolated from human habitats and vegetable compost heaps. In immunocompromised individuals, the incidence of invasive infection can be as high as 50% and the mortality rate is often about 50% (ref. 2). The interaction of A. fumigatus and other airborne fungi with the immune system is increasingly linked to severe asthma and sinusitis. Although the burden of invasive disease caused by A. fumigatus is substantial, the basic biology of the organism is mostly obscure. Here we show the complete 29.4-megabase genome sequence of the clinical isolate Af293, which consists of eight chromosomes containing 9,926 predicted genes. Microarray analysis revealed temperature-dependent expression of distinct sets of genes, as well as 700 A. fumigatus genes not present or significantly diverged in the closely related sexual species Neosartorya fischeri, many of which may have roles in the pathogenicity phenotype. The Af293 genome sequence provides an unparalleled resource for the future understanding of this remarkable fungus.
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The sequenced genome of A. fumigatus contains over 200 annotated genes associated with sexual reproduction.
“Examination of the sequenced genome of A. fumigatus revealed over 200 annotated genes associated with sexual reproduction (6).”
From Aspergillus fumigatus and Aspergillosis in 2019 (2019) · cites this paper as [6]
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- Marcel Margulies, Michael Egholm, William E. Altman, Said Attiya, Joel S. Bader, Lisa A. Bemben, Jan Berka, Michael S. Braverman, Yi-Ju Chen, Zhoutao Chen, Scott B. Dewell, Alex de Winter, James Drake, Lei Du, Joseph M. Fierro, Robin Forte, Xavier V. Gomes, Brian C. Goodwin, Wen He, Scott Helgesen, Chun He Ho, Steve Hutchinson, Gerard P. Irzyk, Szilveszter C. Jando, Maria L. I. Alenquer, Thomas P. Jarvie, Kshama B. Jirage, Jong-Bum Kim, James R. Knight, Janna R. Lanza, John H. Leamon, William L. Lee, Steven M. Lefkowitz, Ming Lei, Jing Li, Kenton L. Lohman, Hong Lu, Vinod B. Makhijani, Keith E. McDade, Michael P. McKenna, Eugene W. Myers, Elizabeth Nickerson, John R. Nobile, Ramona Plant, Bernard P. Puc, Michael Reifler, Michael T. Ronan, George T. Roth, Gary J. Sarkis, Jan Fredrik Simons, John W. Simpson, Maithreyan Srinivasan, Karrie R. Tartaro, Alexander Tomasz, Kari A. Vogt, Greg A. Volkmer, Shally H. Wang, Yong Wang, Michael P. Weiner, David A. Willoughby, Pengguang Yu, Richard F. Begley & Jonathan M. Rothberg Nature 437, 376-380 (2005) The following were omitted from the original author listing: Alex de Winter, James Drake, Robin Forte, Steve Hutchinson, William L. Lee, Michael Reifler and David A. Willoughby. These names are included in the revised authorship shown here and either were or are at 454 Life Sciences Corporation, Branford, Connecticut 06405, USA. CORRIGENDUM doi:10.1038/nature04572 Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus William C. Nierman, Arnab Pain, Michael J. Anderson, Jennifer R. Wortman, H. Stanley Kim, Javier Arroyo, Matthew Berriman, Keietsu Abe, David B. Archer, Clara Bermejo, Joan Bennett, Paul Bowyer, Dan Chen, Matthew Collins, Richard Coulsen, Robert Davies, Paul S. Dyer, Mark Farman, Nadia Fedorova, Natalie Fedorova, Tamara V. Feldblyum, Reinhard Fischer, Nigel Fosker, Audrey Fraser, Jose L. Garcı ´a, Maria J. Garcı ´a, Arlette Goble, Gustavo H. Goldman, Katsuya Gomi, Sam Griffith-Jones, Ryan Gwilliam, Brian Haas, Hubertus Haas, David Harris, H. Horiuchi, Jiaqi Huang, Sean Humphray, Javier Jime ´nez, Nancy Keller, Hoda Khouri, Katsuhiko Kitamoto, Tetsuo Kobayashi, Sven Konzack, Resham Kulkarni, Toshitaka Kumagai, Anne Lafon, Jean-Paul Latge ´, Weixi Li, Angela Lord, Charles Lu, William H. Majoros, Gregory S. May, Bruce L. Miller, Yasmin Mohamoud, Maria Molina, Michel Monod, Isabelle Mouyna, Stephanie Mulligan, Lee Murphy, Susan O'Neil, Ian Paulsen, Miguel A. Pen ˜alva, Mihaela Pertea, Claire Price, Bethan L. Pritchard, Michael A. Quail, Ester Rabbinowitsch, Neil Rawlins, Marie-Adele Rajandream, Utz Reichard, Hubert Renauld, Geoffrey D. Robson, Santiago Rodriguez de Co ´rdoba, Jose M. Rodrı ´guez-Pen ˜a, Catherine M. Ronning, Simon Rutter, Steven L. Salzberg, Miguel Sanchez, Juan C. Sa ´nchez-Ferrero, David Saunders, Kathy Seeger, Rob Squares, Steven Squares, Michio Takeuchi, Fredj Tekaia, Geoffrey Turner, Carlos R. Vazquez de Aldana, Janice Weidman, Owen White, John Woodward, Jae-Hyuk Yu, Claire Fraser, James E. Galagan, Kiyoshi Asai, Masayuki Machida, Neil Hall, Bart Barrell & David W. Denning Nature 438, 1151-1156 (2005) There are two errors in the author listings for this Letter: the surname of Anne Lafon was misspelt as 'Lafton' and the affiliation of Hiroyuki Horiuchi should have been number 16 (and not 15, as was published). · DOI
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Phylogenomic analysis of non-ribosomal peptide synthetases in the genus Aspergillus
Cramer, R. A., Stajich, J. E., Yamanaka, Y., Dietrich, F. S., Steinbach, W. J., & Perfect, J. R. (2006) · Gene · doi:10.1016/j.gene.2006.07.008 · Cited by 66 · see citing works
Aspergillus fumigatus AcuM regulates both iron acquisition and gluconeogenesis: A. fumigatus AcuM
Liu, H., Gravelat, F. N., Chiang, L. Y., Chen, D., Vanier, G., Ejzykowicz, D. E., Ibrahim, A. S., Nierman, W. C., Sheppard, D. C., & Filler, S. G. (2010) · Molecular Microbiology · doi:10.1111/j.1365-2958.2010.07389.x · Cited by 61 · see citing works
Self-citationRole of Amino Acid Metabolism in the Virulence of Human Pathogenic Fungi
Garbe, E., & Vylkova, S. (2019) · Current Clinical Microbiology Reports · doi:10.1007/s40588-019-00124-5 · Cited by 59 · see citing works
Overcoming Fungal Echinocandin Resistance through Inhibition of the Non-essential Stress Kinase Yck2
Caplan, T., Lorente-Macías, Á., Stogios, P. J., Evdokimova, E., Hyde, S., Wellington, M. A., Liston, S., Iyer, K. R., Puumala, E., Shekhar-Guturja, T., et al. (2020) · Cell Chemical Biology · doi:10.1016/j.chembiol.2019.12.008 · Cited by 57 · see citing works
Desoubeaux, G., & Cray, C. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2017.00841 · Cited by 55 · see citing works
Shaping the fungal adaptome – Stress responses of Aspergillus fumigatus
Hartmann, T., Sasse, C., Schedler, A., Hasenberg, M., Gunzer, M., & Krappmann, S. (2011) · International Journal of Medical Microbiology · doi:10.1016/j.ijmm.2011.04.008 · Cited by 52 · see citing works
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Genomic Diversity of Azole-Resistant Aspergillus fumigatus in the United States
Etienne, K. A., Berkow, E. L., Gade, L., Nunnally, N., Lockhart, S. R., Beer, K., Jordan, I. K., Rishishwar, L., & Litvintseva, A. P. (2021) · mBio · doi:10.1128/mbio.01803-21 · Cited by 48 · see citing works
Baltussen, T. J. H., Coolen, J. P. M., Zoll, J., Verweij, P. E., & Melchers, W. J. G. (2018) · Fungal Genetics and Biology · doi:10.1016/j.fgb.2018.04.013 · Cited by 43 · see citing works
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Global gene expression reveals stress-responsive genes in Aspergillus fumigatus mycelia
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<i>Aspergillus fumigatus</i> Can Display Persistence to the Fungicidal Drug Voriconazole
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Self-citationEvolution of the carboxylate Jen transporters in fungi.
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Functional characterization of the Aspergillus fumigatus PHO80 homologue
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Calcineurin Inhibitors Synergize with Manogepix to Kill Diverse Human Fungal Pathogens
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- Authors
- Nierman, W. C., Pain, A., Anderson, M. J., Wortman, J. R., Kim, H. S., Arroyo, J., Berriman, M., Abe, K., Archer, D. B., Bermejo, C., Bennett, J., Bowyer, P., Chen, D., Collins, M., Coulsen, R., Davies, R., Dyer, P. S., Farman, M., Fedorova, N., Fedorova, N., Feldblyum, T. V., Fischer, R., Fosker, N., Fraser, A., García, J. L., García, M. J., Goble, A., Goldman, G. H., Gomi, K., Griffith-Jones, S., Gwilliam, R., Haas, B., Haas, H., Harris, D., Horiuchi, H., Huang, J., Humphray, S., Jiménez, J., Keller, N., Khouri, H., Kitamoto, K., Kobayashi, T., Konzack, S., Kulkarni, R., Kumagai, T., Lafton, A., Latgé, J.-P., Li, W., Lord, A., Lu, C., Majoros, W. H., May, G. S., Miller, B. L., Mohamoud, Y., Molina, M., Monod, M., Mouyna, I., Mulligan, S., Murphy, L., O'Neil, S., Paulsen, I., Peñalva, M. A., Pertea, M., Price, C., Pritchard, B. L., Quail, M. A., Rabbinowitsch, E., Rawlins, N., Rajandream, M.-A., Reichard, U., Renauld, H., Robson, G. D., de Córdoba, S. R., Rodríguez-Peña, J. M., Ronning, C. M., Rutter, S., Salzberg, S. L., Sanchez, M., Sánchez-Ferrero, J. C., Saunders, D., Seeger, K., Squares, R., Squares, S., Takeuchi, M., Tekaia, F., Turner, G., de Aldana, C. R. V., Weidman, J., White, O., Woodward, J., Yu, J.-H., Fraser, C., Galagan, J. E., Asai, K., Machida, M., Hall, N., Barrell, B., & Denning, D. W.
- Affiliations
- George Washington University (US)
- Wellcome Sanger Institute (GB)
- University of Manchester (GB)
- Universidad Complutense de Madrid (ES)
- Tohoku University (JP)
- University of Nottingham (GB)
- Tulane University (US)
- European Bioinformatics Institute (GB)
- University of Kentucky (US)
- Universidad de Salamanca (ES)
- Universidade de São Paulo (BR)
- Innsbruck Medical University (AT)
- University of Wisconsin–Madison (US)
- The University of Tokyo (JP)
- Nagoya University (JP)
- Max Planck Institute for Terrestrial Microbiology (DE)
- National Institute of Advanced Industrial Science and Technology (JP)
- Institut Pasteur (FR)
- The University of Texas MD Anderson Cancer Center (US)
- University of Idaho (US)
- Centre Hospitalier Universitaire Vaudois (CH)
- Centro de Investigaciones Biológicas Margarita Salas (ES)
- University of Göttingen (DE)
- Tokyo University of Agriculture and Technology (JP)
- University of Sheffield (GB)
- Broad Institute (US)
- Corresponding author
- Nierman, William C.
- ORCID
- Nierman, William C.
- Pain, Arnab
- Anderson, Michael J.
- Wortman, Jennifer R.
- Kim, H. Stanley
- Arroyo, Javier
- Berriman, Matthew
- Abe, Keietsu
- Bermejo, Clara
- Bennett, Joan
- Bowyer, Paul
- Chen, Dan
- Collins, Matthew
- Davies, Robert
- Dyer, Paul S.
- Farman, Mark
- Fedorova, Nadia
- Fosker, Nigel
- Goldman, Gustavo H.
- Gomi, Katsuya
- Gwilliam, Ryan
- Haas, Brian
- Haas, Hubertus
- Harris, David
- Horiuchi, H.
- Huang, Jiaqi
- Humphray, Sean
- Jiménez, Javier
- Keller, Nancy
- Kitamoto, Katsuhiko
- Kobayashi, Tetsuo
- Kumagai, Toshitaka
- Latgé, Jean-Paul
- Li, Weixi
- Lu, Charles
- Majoros, William H.
- Mohamoud, Yasmin
- Monod, Michel
- Mouyna, Isabelle
- Murphy, Lee
- Paulsen, Ian
- Peñalva, Miguel A.
- Pertea, Mihaela
- Price, Claire
- Quail, Michael A.
- Robson, Geoffrey D.
- Salzberg, Steven L.
- Saunders, David
- Tekaia, Fredj
- White, Owen
- Yu, Jae-Hyuk
- Fraser, Claire
- Galagan, James E.
- Asai, Kiyoshi
- Hall, Neil
- Denning, David W.
- Venue
- Nature
- Published
- 2005-12-22
- Volume
- 438
- Issue
- 7071
- Pages
- 1151-1156
- ISSN
- 0028-0836 (ISSN-L)
- 1476-4687
- OpenAlex
- W2108313755
- Cited by
- 1,391
- References
- 32
- Citations by year
- 2026: 20 · 2025: 22 · 2024: 30 · 2023: 37 · 2022: 50 · 2021: 76 · 2020: 56 · 2019: 54 · 2018: 58 · 2017: 61 · 2016: 53 · 2015: 72 · 2014: 98 · 2013: 66 · 2012: 83
- FWCI
- 36.02
- Type
- journal article
- Language
- en
- Update notices
- erratum (2006-01-26)
- Open access
- green
- pasteur.hal.science
- Locations
- Nature (publishedVersion)
- PubMed (publishedVersion)
- HAL (submittedVersion)
- Rutgers University Community Repository (Rutgers University) (submittedVersion)
- RePEc: Research Papers in Economics (submittedVersion)
- DIGITAL.CSIC (Spanish National Research Council (CSIC)) (submittedVersion)
- Max Planck Institute for Plasma Physics (submittedVersion)
- IRIS (submittedVersion)
- Research Explorer (The University of Manchester) (submittedVersion)
- MPG.PuRe (Max Planck Society) (submittedVersion)
- SERVAL (Université de Lausanne) (submittedVersion)
- Zenodo (CERN European Organization for Nuclear Research) (submittedVersion, cc-by)
- Funders
- University of Kentucky
- Wellcome Trust
- Biotechnology and Biological Sciences Research Council (CFB17726)
- National Institute of Allergy and Infectious Diseases
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Fungal and yeast genetics research
- Health Sciences › Medicine › Infectious Diseases › Antifungal resistance and susceptibility
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cell Biology › Plant Pathogens and Fungal Diseases
- Keywords
- Aspergillus fumigatus, genome sequence, fungal pathogens, fungal allergens, Aspergillus nidulans, Aspergillus oryzae, gene family expansion, temperature-dependent gene expression, Neosartorya fischeri, fungal pathogenicity, invasive aspergillosis
- MeSH terms
- Allergens, Aspergillus fumigatus, Genes, Fungal, Hypersensitivity, Molecular Sequence Data, Temperature, Virulence, Gene Expression Regulation, Fungal, Genome, Fungal, Sequence Analysis, DNA, Oligonucleotide Array Sequence Analysis, Gene Expression Profiling, Genomics
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