title: Development of molecular methods for the identification of aspergillus and emerging moulds in paraffin wax embedded tissue sections.
abstract: OBJECTIVE
  Invasive infection with emerging moulds is increasing in incidence and reliable methods for speciating these organisms in tissue sections need to be developed.
  
  
  METHODS
  Two methods for extracting fungal DNA from paraffin wax embedded tissue sections, based on the TaKaRa DEXPAT kit and QIAamp DNA mini kit, were optimised and compared. DNA was amplified by PCR using pan-fungal probes, and detected by Southern blot hybridisation using a high stringency method with a probe specific for Aspergillus fumigatus and A flavus.
  
  
  RESULTS
  The method based on the TaKaRa DEXPAT kit, with additional steps using lyticase and ethanol precipitation, was superior. Less than 10 conidia were detectable using spiked samples and a positive result was obtained with 100% of clinical samples known to be culture positive for A fumigatus. Other moulds could be identified by using species specific probes or by sequencing PCR products.
  
  
  CONCLUSIONS
  The method based on the TaKaRa DEXPAT kit could detect less than 10 conidia/sample. The method allowed accurate identification of A fumigatus and A flavus and other species could be identified using species specific probes or by DNA sequencing. These methods will provide a valuable diagnostic tool for both patient management and future antifungal and epidemiological studies.
authors.affiliation: Department of Medical Microbiology, Royal Free Hospital, Pond Street, London NW3 2QG, UK.
authors.forename: P J
authors.initials: PJ
authors.lastname: Paterson
authors.forename: S
authors.initials: S
authors.lastname: Seaton
authors.forename: J
authors.initials: J
authors.lastname: McLaughlin
authors.forename: C C
authors.initials: CC
authors.lastname: Kibbler
mesh_terms: D001230:Aspergillus / Q000235:genetics* / Q000302:isolation & purification*; D015139:Blotting, Southern / Q000379:methods; D004271:DNA, Fungal / Q000032:analysis*; D016612:Paraffin Embedding; D016133:Polymerase Chain Reaction / Q000379:methods
chemical_list: D004271:DNA, Fungal