Molecular methods for the identification of Aspergillus species

Medical Mycology

Volumn 43, Issue SUPPL.1, 2005, Pages

  Hinrikson, H P ^a,b   Hurst, S F ^a   de Aguirre, L ^a,c   Morrison, Christine J ^a  

^a CENTERS FOR DISEASE CONTROL AND PREVENTION   (United States)

^b LAUSANNE UNIVERSITY HOSPITAL   (Switzerland)

^c Inst de Investigations Veterinarias   (Venezuela)

Author keywords

Aspergillus species; DNA sequencing; Internal transcribed spacer; Molecular identification; PCR; rDNA; rRNA

Indexed keywords

AMPHOTERICIN B; INTERNAL TRANSCRIBED SPACER 1; INTERNAL TRANSCRIBED SPACER 2; NUCLEIC ACID; RIBOSOME RNA; RNA 28S;

AMPLICON; ARTICLE; ASPERGILLOSIS; ASPERGILLUS; ASPERGILLUS FUMIGATUS; CALORIMETRY; CONTROLLED STUDY; CULTURE MEDIUM; DNA PROBE; DNA SEQUENCE; DRUG SENSITIVITY; ELECTROIMMUNOASSAY; ENZYME IMMUNOASSAY; FUNGAL MORPHOLOGY; FUNGUS CULTURE; FUNGUS IDENTIFICATION; GENBANK; IMMUNE DEFICIENCY; MORBIDITY; MORTALITY; MOULD; NONHUMAN; PHENOTYPE; POLYMERASE CHAIN REACTION; RELIABILITY; RNA SEQUENCE; SENSITIVITY AND SPECIFICITY; SPECIES IDENTIFICATION; YEAST;

ASPERGILLOSIS; ASPERGILLUS; DNA PROBES; DNA, FUNGAL; DNA, RIBOSOMAL SPACER; HUMANS; IMMUNOENZYME TECHNIQUES; MYCOLOGICAL TYPING TECHNIQUES; POLYMERASE CHAIN REACTION; RNA, RIBOSOMAL, 28S; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY;

ASPERGILLUS; ASPERGILLUS FUMIGATUS;

EID: 22844431977     PISSN: 13693786     EISSN: None     Source Type: Journal    
DOI: 10.1080/13693780500064722     Document Type: Article

References (41)

1. de Hoog GS, Guarro J, Gene J, Figueras MJ. Atlas of Clinical Fungi, 2nd edn. Utrecht: Centralbureau voor Schimmelcultures, 2000.
2. Baddley JW, Pappas PG, Smith AC, Moser SA. Epidemiology of Aspergillus terreus at a university hospital. J Clin Microbiol 2003; 41: 5525-5529.
3. Iwen PC, Rupp ME, Langnas AN, Reed EC, Hinrichs SH. Invasive pulmonary aspergillosis due to Aspergillus terreus: 12-year experience and review of the literature. Clin Infect Dis 1998; 26: 1092-1097.
4. Sutton DA, Sanche SE, Revankar SG, Fothergill AW, Rinaldi RG. In vitro amphotericin B resistance in clinical isolates of Aspergillus terreus, with head-to-head comparison to voriconazole. J Clin Microbiol 1999; 37: 2343-2345.
5. Kontoyiannis DP, Lewis RE, May GS, Osherov N, Rinaldi MG. Aspergillus nidulans is frequently resistant to amphotericin B. Mycoses 2002; 45: 406-407.
6. Iwen PC, Rupp ME, Bishop MR, et al. Disseminated aspergillosis caused by Aspergillus ustus in a patient following allogenic peripheral stem cell transplantation. J Clin Microbiol 1998; 36: 3713-3717.
7. Verweij PE, van den Bergh MFQ, Rath PM, et al. Invasive aspergillosis caused by Aspergillus ustus: case report and review. J Clin Microbiol 1999; 37: 1606-1609.
8. de Aguirre L, Hurst SF, Choi JS, et al. Rapid differentiation of Aspergillus species from other medically important opportunistic molds and yeasts by PCR-enzyme immunoassay. J Clin Microbiol 2004; 42: 3495-3504.
9. Hinrikson HP, Hurst SF, Lott TJ, Warnock DW, Morrison CJ. Assessment of ribosomal large-subunit D1-D2, internal transcribed spacer 1, and internal transcribed spacer 2 regions as targets for molecular identification of medically important Aspergillus species. J Clin Microbiol 2005; in press.
10. Einsele H, Hebart H, Roller G, et al. Detection and identification of fungal pathogens in blood by using molecular probes. J Clin Microbiol 1997; 35: 1353-1360.
11. Varga J, Rigo K, Molnar J, et al. Mycotoxin production and evolutionary relationships among species of Aspergillus section Clavati. Antonie van Leeuwenhoek 2003; 83: 191-200.
12. Geiser DM, Dorner JW, Horn BW, Taylor JW. The phylogenetics of mycotoxin and sclerotium production in Aspergillus flavus and Aspergillus oryzae. Fungal Genet Biol 2000; 31: 169-179.
13. Varga J, Toth B, Rigo K, Debets F, Kozakiewicz Z. Genetic variability within the Aspergillus viridinutans species. Folia Microbiol (Praha) 2000; 45: 423-428.
14. Wu Z, Tsumura Y, Blomquist G, Wang X-R. 18S rRNA gene variation among common airborne fungi and development of specific oligonucleotide probes for the detection of fungal isolates. Appl Envirn Microbiol 2003; 69: 5389-5397.
15. Chang J-M, Oyaizu H, Sugiyama J. Phylogenetic relationships among eleven selected species of Aspergillus and associated teleomorphic genera estimated from 18S ribosomal RNA partial sequences. J Gen Appl Microbiol 1991; 37: 289-308.
16. White TJ, Burns TD, Lee SB, Taylor JW. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis MA, Helfand DH, Sninsky JJ, White TJ (eds). PCR Protocols. San Diego, CA: Academic Press, Inc., 1990: 315-322.
17. Rigo K, Varga J, Toth B, et al. Evolutionary relationships within Aspergillus section Flavi based on sequences of the intergenic transcribed spacer regions and the 5.8S rRNA gene. J Gen Appl Microbiol 2002; 48: 9-16.
18. Peterson SW. Phylogenetic relationships in Aspergillus based on rDNA sequence analysis. In: Samson RA, Pitt JI (eds). Integration of modern taxonomic methods for Penicillium and Aspergillus classification. Amsterdam, the Netherlands: Harwood Academic Publishers, 2000: 323-355.
19. Varga J, Toth B, Rigo K, et al. Phylogenetic analysis of Aspergillus section Circumdati based on sequences of the internal transcribed spacer regions and the 5.8 S rRNA gene. Fungal Genet Biol 2000; 30: 71-80.
20. Turenne CY, Sanche SE, Hoban DJ, Karlowsky JA, Kabani AM. Rapid identification of fungi by using the ITS2 genetic region and an automated fluorescent capillary electrophoresis system. J Clin Microbiol 1999; 37: 1846-1851.
21. Henry T, Iwen PC, Hinrichs SH. Identification of Aspergillus species using internal transcribed spacer regions 1 and 2. J Clin Microbiol 2000; 38: 1510-1515.
22. Pryce TM, Pallidino S, Kay D, Coombs GW. Rapid identification of fungi by sequencing the ITS1 and ITS2 regions using an automated capillary electrophoresis system. Med Mycol 2003; 41: 369-381.
23. Morgan J, Wannemuehler KA, Marr KA, et al. Incidence of invasive aspergillosis following hematopoietic stem cell and solid organ transplantation: interim results of a prospective multicenter surveillance program. Med Mycol 2005; 43(suppl 1): 49-58.
24. Anthony RM, Brown TJ, French GL. Rapid diagnosis of bacteremia by universal amplification of 23S ribosomal DNA followed by hybridization to an oligonucleotide array. J Clin Microbiol 2000; 38: 781-788.
25. Varnier OE, Bertolotti F, Ferrari D, et al. Rapid identification of Candida species using a non-fluorescent DNA-based biochip. In: Program Abstracts of the 44th Annual Interscience Conference on Antimicrobial Agents and Chemotherapy, Washington, D.C., October 30-November 2, 2004. Washington, DC: American Society for Microbiology, 2004: D-463.
26. Sandhu G, Kline BC, Stockman L, Roberts GD. Molecular probes for diagnosis of fungal infections. J Clin Microbiol 1995; 33: 2913-2919.
27. Martin C, Roberts D, van Der Weide M, et al. Development of a PCR-based line probe assay for identification of fungal pathogens. J Clin Microbiol 2000; 38: 3735-3742.
28. Raper KB, Fennell DI. The genus Aspergillus. Baltimore: Williams & Wilkins, 1965.
29. O'Donnell K, Cigelnik E. Two divergent intragenomic rDNA ITS2 types within a monophyletic lineage of the fungus Fusarium are nonorthologous. Mol Phylogenet Evol 1997; 7: 103-116.
30. Hall L, Wohlfiel S, Roberts GD. Experience with the MicroSeq D2 large-subunit ribosomal DNA sequencing kit for identification of filamentous fungi encountered in the clinical laboratory. J Clin Microbiol 2004; 42: 622-626.
31. Parenicova L, Skouboe P, Frisvad J, et al. Combined molecular and biochemical approach identifies Aspergillus japonicus and Aspergillus aculeatus as two species. Appl Environ Microbiol 2001; 67: 521-527.
32. Schmidt H, Adler A, Holst-Jensen A, et al. An integrated taxonomic study of Fusarium langsethiae, Fusarium poae and Fusarium sporotrichioides based on the use of composite datasets. Int J Food Microbiol 2004; 95: 341-349.
33. Hennequin C, Abachin E, Symoens F, et al. Identification of Fusarium species involved in human infections by 28S rRNA gene sequencing. J Clin Microbiol 1999; 37: 3586-3589.
34. Knutsen AK, Torp M, Holst-Jensen A. Phylogenetic analyses of the Fusarium poae, Fusarium sporotrichioides and Fusarium langsethiae species complex based on partial sequences of the translation elongation factor-1 alpha gene. Int J Food Microbiol 2004; 95: 287-295.
35. Healy M, Walton D, Reece K, et al. Identification and molecular typing of clinical Fusarium isolates by two DNA sequencing methods and automated rep-PCR. In: Program Abstracts of the 44th Annual Interscience Conference on Antimicrobial Agents and Chemotherapy, Washington, DC, October 30-November 2, 2004. Washington, DC: American Society for Microbiology, 2004: D-465.
36. Loeffler J, Schmidt K, Hebart H, Schumacher U, Einsele H. Automated extraction of genomic DNA from medically important yeast species and filamentous fungi by using the MagNA Pure LC system. J Clin Microbiol 2002; 40: 2240-2243.
37. Caliendo AM, Ingersoll J, Green AM, Nolte FS, Easley KA. Comparison of the sensitivities and viral load values of the amplicor HIV-1 monitor version 1.0 and 1.5 tests. J Clin Microbiol 2004; 42: 5392-5393.
38. Bianchi AB, Moret F, Desrues J-M, et al. PreservCyt transport medium used for the ThinPrep pap test is a suitable medium for detection of Chlamydia trachomatis by the COBAS Amplicor CT/NG test: results of a preliminary study and future implications. J Clin Microbiol 2002; 40: 1749-1754.
39. Rautakorpi H, Jalava J, Roth S, Nikkari S. Bacterial gyrB/pare PCR based microarray analysis from urine. In: Program Abstracts of the 44th Annual Interscience Conference on Antimicrobial Agents and Chemotherapy, Washington, DC, October 30-November 2, 2004. Washington, DC: American Society for Microbiology, 2004: D-482.
40. Roth SB, Jalava J, Lindfors M, Meurman O, Nikkari S. Identification of bacteria from positive blood cultures with an oligonucleotide array. In: Program Abstracts of the 44th Annual Interscience Conference on Antimicrobial Agents and Chemotherapy, Washington, DC, October 30-November 2, 2004. Washington, DC: American Society for Microbiology, 2004: D-481.
41. Shin J-H, Nolte FS, Morrison CJ. Rapid identification of Candida species in blood cultures by a clinically useful PCR method. J Clin Microbiol 1997; 35: 1454-1459.