title: Comparative genomics of fungal allergens and epitopes shows widespread distribution of closely related allergen and epitope orthologues.
abstract: BACKGROUND
  Allergy is a common debilitating and occasionally life threatening condition. The fungal kingdom contains a number of species that produce a wide range of well defined protein allergens although the vast majority of fungal species have unknown allergenic potential. The recent genome sequencing of a variety of fungi provides the opportunity to assess the occurrence of allergen orthologues across the fungal kingdom. Here we use comparative genomics to survey the occurrence of allergen orthologues in fungi.
  
  
  RESULTS
  A database of 82 allergen sequences was compiled and used to search 22 fungal genomes. Additionally we were able to model allergen structure for representative members of several highly homologous allergen orthologue classes. We found that some allergen orthologue classes that had predicted structural congruence to allergens and allergen epitopes were ubiquitous in all fungi. Other allergen orthologues classes were less well conserved and may not possess conserved allergen epitope orthologues in all fungi. A final group of allergen orthologues, including the major allergens Asp f 1 and Alt a 1, appear to be present in only a limited number of species.
  
  
  CONCLUSIONS
  These results imply that most fungi may possess proteins that have potential to be allergens or to cross react with allergens. This, together with the observation that important allergens such as Asp f 1 are limited to genera or species, has significant implications for understating fungal sensitization, and interpreting diagnosis and management of fungal allergy.
authors.affiliation: Faculty of Medicine and Human Sciences, University of Manchester, Wythenshawe Hospital, Manchester, M23 9LT, UK. paul.bowyer@manchester.ac.uk
authors.forename: Paul
authors.initials: P
authors.lastname: Bowyer
authors.forename: Marcin
authors.initials: M
authors.lastname: Fraczek
authors.forename: David W
authors.initials: DW
authors.lastname: Denning
mesh_terms: D000485:Allergens / Q000737:chemistry / Q000235:genetics* / Q000276:immunology; D000595:Amino Acid Sequence; D016000:Cluster Analysis; D019295:Computational Biology / Q000379:methods; D003198:Computer Simulation; D017124:Conserved Sequence / Q000235:genetics / Q000276:immunology; D000939:Epitopes / Q000235:genetics* / Q000276:immunology; D005658:Fungi / Q000145:classification / Q000235:genetics* / Q000276:immunology; D016681:Genome, Fungal / Q000235:genetics*; D023281:Genomics / Q000379:methods*; D006801:Humans; D008958:Models, Molecular; D008969:Molecular Sequence Data; D010802:Phylogeny; D017434:Protein Structure, Tertiary; D016415:Sequence Alignment; D017386:Sequence Homology, Amino Acid
chemical_list: D000485:Allergens; D000939:Epitopes