Pain, A. et al. Insight into the genome of Aspergillus fumigatus: analysis of a 922 kb region encompassing the nitrate assimilation gene cluster. Fungal Genet. Biol. 41, 443-453

The Pathogen Sequencing Unit, The Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge CB10 1SA, UK.
Fungal Genetics and Biology (Impact Factor: 3.26). 05/2004; 41(4):443-53. DOI: 10.1016/j.fgb.2003.12.003
Source: PubMed

ABSTRACT Aspergillus fumigatus is the most ubiquitous opportunistic filamentous fungal pathogen of human. As an initial step toward sequencing the entire genome of A. fumigatus, which is estimated to be approximately 30 Mb in size, we have sequenced a 922 kb region, contained within 16 overlapping bacterial artificial chromosome (BAC) clones. Fifty-four percent of the DNA is predicted to be coding with 341 putative protein coding genes. Functional classification of the proteins showed the presence of a higher proportion of enzymes and membrane transporters when compared to those of Saccharomyces cerevisiae. In addition to the nitrate assimilation gene cluster, the quinate utilisation gene cluster is also present on this 922 kb genomic sequence. We observed large scale synteny between A. fumigatus and Aspergillus nidulans by comparing this sequence to the A. nidulans genetic map of linkage group VIII.

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    • "The sequencing of A. fumigatus Af293 was initiated in 2001, and a commentary was published by Denning et al. (2002), describing the anticipation of how the project would fuel research in anti-fungal drugs. The annotation and analysis of a 922 kb large region was published by Pain et al. (2004), allowing the early identification of factors putatively involved in pathogenicity and anti-fungal targets . However, this study was superseded by the publication of the analysis of the full genome sequence by Nierman et al. (2005), where the genome was examined for allergens and features that may be involved in pathogenicity. "
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    • "Aft1 was amplified from an A. fumigatus BAC library (Pain et al., 2004) BAC No. AfB28 mq1_2h05 by PCR using a single primer specific for the Aft1 inverted repeat sequence with six base SacI linkers [AFTN1(SacI)—Table 1]. To ensure accurate amplification, PCR was performed using high fidelity KOD polymerase (Stratagene). "
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    • "• In other fungi, available sequencing projects provide two types of ORF numbering. First, in Aspergillus fumigatus (Pain et al., 2004), an ORF name contains the contig name followed by a dot and a serial number for the ORF. In A. fumigatus, this is preceded by the 'Af' letters for the species and the increment is variable according to the sequencing centre (increment 1 or 10). "
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