Insight into the genome of Aspergillus fumigatus: analysis of a 922 kb region encompassing the nitrate assimilation gene cluster.
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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ABSTRACT: In this review, we present a comprehensive overview of the current status of genomics, transcriptomics, proteomics, metabolomics, and metabolic modeling in Aspergillus species. Currently, 13 Aspergillus genomes divided across seven species have been sequenced with more to come, and many applications of this information on a systems level have been published. More than 30 studies on global transcription analysis have been published, and 21 different platforms are available for Aspergillus transcription studies. Additionally, the fields of proteomics and metabolomics have, while still in their infancy, produced intriguing results and novel applications. Finally, multiple levels of Aspergillus metabolism have been reconstructed and modelled. Systems-level research of Aspergilli have in a few years added to our knowledge on processes relevant to evolution, central and secondary metabolism, cellular organization, pathogenicity and biotechnology and future efforts may lead to much improved understanding of regulation of key cellular processes in this important family of filamentous fungi.Fungal Genetics and Biology 08/2008; 46 Suppl 1:S180-90. DOI:10.1016/j.fgb.2008.07.006 · 3.26 Impact Factor
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ABSTRACT: In recent years the filamentous fungus Aspergillus fumigatus has become a significant cause of infection in man and as such has become the focus of much study. It is thought to be the leading mould pathogen in leukaemia and transplant patients and is responsible for mortality in a large number of individuals with immunological disorders. In an attempt to develop molecular mutagenesis tools for assessment of this organism, the genome of A. fumigatus was analysed to identify possible functional transposable elements. An apparently intact Fot1/Pogo type transposon with 65% identity to the active Tan1 element of Aspergillus niger was identified and designated Aft1. Aft1 is a 1.9kb element present in multiple (>20) highly conserved copies. It encodes a 332 amino acid transposase which contains all the functional motifs required for transposition. In addition, the transposase was expressed in cultures grown at 37 degrees C in all three strains assessed and excision analysis suggests Aft1 may be active and of use in transposon tagging experiments. Southern hybridisation patterns indicate that Aft1 is widely distributed amongst clinical isolates of A. fumigatus with considerable variation in genomic localisation. A comprehensive analysis of the genomic localisation of Aft1 in the sequenced strain AF293 show that one insertion is 30 bases upstream of a predicted gene encoding a G-protein coupled receptor. Expression analysis indicates that this gene has been inactivated by the insertion.Fungal Genetics and Biology 02/2008; 45(2):117-26. DOI:10.1016/j.fgb.2007.10.009 · 3.26 Impact Factor
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ABSTRACT: We present a compact, stable, unambiguous and extensible nomenclature for unique chromosomal elements from genomic DNA, developed to meet the increasing need created by the increasing number of yeast sequencing projects. Our proposal, adopted for use in the Génolevures project, is specifically designed to facilitate basic tasks in comparative genomics.Yeast 04/2005; 22(5):337-42. DOI:10.1002/yea.1214 · 1.74 Impact Factor