Rapid detection of pathogenic fungi using loop-mediated isothermal amplification, exemplified by Fonsecaea agents of chromoblastomycosis

Journal of Microbiological Methods

Volumn 80, Issue 1, 2010, Pages 19-24

  Sun, Jiufeng ^a   Najafzadeh, M J ^b,c,d   Vicente, V ^e   Xi, Liyan ^a   de Hoog, G S ^a,b,f  

^a SUN YAT SEN UNIVERSITY   (China)

^b CBS KNAW FUNGAL BIODIVERSITY CENTRE   (Netherlands)

^c UNIVERSITY OF AMSTERDAM   (Netherlands)

^d MASHHAD UNIVERSITY OF MEDICAL SCIENCES   (Iran)

^e FEDERAL UNIVERSITY OF PARANÁ   (Brazil)

^f PEKING UNIVERSITY HEALTH SCIENCE CENTER   (China)

Author keywords

Chromoblastomycosis; Fonsecaea; LAMP; Microbial detection

Indexed keywords

RIBOSOME DNA; RIBOSOME RNA;

AGAR GEL ELECTROPHORESIS; ARTICLE; CHROMOMYCOSIS; CROSS REACTION; DNA DETERMINATION; DNA EXTRACTION; FONSECAEA; FUNGAL STRAIN; FUNGUS CULTURE; GENE AMPLIFICATION; INOCULATION; LOOP MEDIATED ISOTHERMAL AMPLIFICATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; UNINDEXED SEQUENCE;

ASCOMYCOTA; CHROMOBLASTOMYCOSIS; DNA PRIMERS; DNA, FUNGAL; DNA, RIBOSOMAL; HUMANS; MOLECULAR SEQUENCE DATA; NUCLEIC ACID AMPLIFICATION TECHNIQUES; RNA, RIBOSOMAL, 5.8S;

FONSECAEA; FUNGI;

EID: 71749118758     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mimet.2009.10.002     Document Type: Article

References (59)

1. Abliz P., Fukushima K., Takizawa K., Miyaji M., and Nishimura K. Specific oligonucleotide primers for identification of Hortaea werneckii, a causative agent of tinea nigra. Diagn. Microbiol. Infect. Dis. 46 (2003) 89-93
2. Abliz P., Fukushima K., Takizawa K., Nieda N., Miyaji M., and Nishimura K. Rapid identification of the genus Fonsecaea by PCR with specific oligonucleotide primers. J. Clin. Microbiol. 41 (2003) 873-876
3. Abliz P., Fukushima K., Takizawa K., and Nishimura K. Specific oligonucleotide primers for identification of Cladophialophora carrionii, a causative agent of chromoblastomycosis. J. Clin. Microbiol. 42 (2004) 404-407
4. Abliz P., Fukushima K., Takizawa K., and Nishimura K. Identification of pathogenic dematiaceous fungi and related taxa based on large subunit ribosomal DNA D1/D2 domain sequence analysis. FEMS Immunol. Med. Microbiol. 40 (2004) 41-49
5. Aoi Y., Hosogai M., and Tsuneda S. Real-time quantitative LAMP (loop-mediated isothermal amplification of DNA) as a simple method for monitoring ammonia-oxidizing bacteria. J. Biotechnol. 125 (2006) 484-491
6. Badali H., Gueidan C., Najafzadeh M.J., Bonifaz A., Gerrits van den Ende A.H., and de Hoog G.S. Biodiversity of the genus Cladophialophora. Stud. Mycol. 61 (2008) 175-191
7. Badali, H.B., A. Barrón-Tapia, T. Vázquez-González, D. Estrada-Aguilar, L. Najafzadeh, M.J., De Hoog, G. S., in press. Rhinocladiella aquaspersa, a proven agent of human chromoblastomycosis and phaeohyphomycosis with novel clinical type. Med Mycol.
8. Barba-Gomez J.F., Mayorga J., McGinnis M.R., and Gonzalez-Mendoza A. Chromoblastomycosis caused by Exophiala spinifera. J. Am. Acad. Dermatol. 26 (1992) 367-370
9. Beezhold D.H., Green B.J., Blachere F.M., Schmechel D., Weissman D.N., Velickoff D., Hogan M.B., and Wilson N.W. Prevalence of allergic sensitization to indoor fungi in West Virginia. Allergy Asthma. Proc. 29 (2008) 29-34
10. Boehme C.C., Nabeta P., Henostroza G., Raqib R., Rahim Z., Gerhardt M., Sanga E., Hoelscher M., Notomi T., Hase T., and Perkins M.D. Operational feasibility of using loop-mediated isothermal amplification for diagnosis of pulmonary tuberculosis in microscopy centers of developing countries. J. Clin. Microbiol. 45 (2007) 1936-1940
11. Bougoure D.S., and Cairney J.W. Fungi associated with hair roots of Rhododendron lochiae (Ericaceae) in an Australian tropical cloud forest revealed by culturing and culture-independent molecular methods. Environ. Microbiol. 7 (2005) 1743-1754
12. Cai T., Lou G., Yang J., Xu D., and Meng Z. Development and evaluation of real-time loop-mediated isothermal amplification for hepatitis B virus DNA quantification: a new tool for HBV management. J. Clin. Virol. 41 (2008) 270-276
13. Caligiorne R.B., de Resende M.A., Dias-Neto E., Oliveira S.C., and Azevedo V. Dematiaceous fungal pathogens: analysis of ribosomal DNA gene polymorphism by polymerase chain reaction-restriction fragment length polymorphism. Mycoses. 42 (1999) 609-614
14. Carrión A.L., and Silva-Hutner M. Taxonomic criteria for the fungi of chromoblastomycosis with reference to Fonsecaea pedrosoi. Int. J. Dermatol. 10 (1971) 35-43
15. Chariyalertsak S., Sirisanthana T., Supparatpinyo K., Praparattanapan J., and Nelson K.E. Case-control study of risk factors for Penicillium marneffei infection in human immunodeficiency virus-infected patients in northern Thailand. Clin. Infect. Dis. 24 (1997) 1080-1086
16. Chen Y.C., Eisner J.D., Kattar M.M., Rassoulian-Barrett S.L., Lafe K., Bui U., Limaye A.P., and Cookson B.T. Polymorphic internal transcribed spacer region 1 DNA sequences identify medically important yeasts. J. Clin. Microbiol. 39 (2001) 4042-4051
17. da Silva J.P., Alviano D.S., Alviano C.S., de Souza W., Travassos L.R., Diniz J.A., and Rozental S. Comparison of Fonsecaea pedrosoi sclerotic cells obtained in vivo and in vitro: ultrastructure and antigenicity. FEMS Immunol. Med. Microbiol. 33 (2002) 63-69
18. Datta K., Bartlett K.H., and Marr K.A. Cryptococcus gattii: emergence in Western North America: exploitation of a novel ecological niche. Interdiscip. Perspect. Infect. Dis. 2009 (2009) 176532
19. De Andrade T.S., Cury A.E., de Castro L.G., Hirata M.H., and Hirata R.D. Rapid identification of Fonsecaea by duplex polymerase chain reaction in isolates from patients with chromoblastomycosis. Diagn. Microbiol. Infect. Dis. 57 (2007) 267-272
20. De Hoog G.S., Queiroz-Telles F., Haase G., Fernandez-Zeppenfeldt G., Attili Angelis D., Gerrits van den Ende A.H., Matos T., Peltroche-Llacsahuanga H., Pizzirani-Kleiner A.A., Rainer J., Richard-Yegres N., Vicente V., and Yegres F. Black fungi: clinical and pathogenic approaches. Med. Mycol. 38 Suppl 1 (2000) 243-250
21. De Hoog G.S., Attili-Angelis D., Vicente V.A., Gerrits van den Ende A.H., and Queiroz-Telles F. Molecular ecology and pathogenic potential of Fonsecaea species. Med. Mycol. 42 (2004) 405-416
22. De Hoog G.S., Nishikaku A.S., Fernández-Zeppenfeldt G., Padin-Gonzalez C., Burger E., Badali H., Richard-Yegres N., and van den Ende A.H. Molecular analysis and pathogenicity of the Cladophialophora carrionii complex, with the description of a novel species. Stud. Mycol. 58 (2007) 219-234
23. Elliott S., Sandler A.D., Meehan J.J., and Lawrence J.P. Surgical treatment of a gastric diverticulum in an adolescent. J. Pediatr. Surg. 41 (2006) 1467-1469
24. Endo S., Komori T., Ricci G., Sano A., Yokoyama K., Ohori A., Kamei K., Franco M., Miyaji M., and Nishimura K. Detection of gp43 of Paracoccidioides brasiliensis by the loop-mediated isothermal amplification (LAMP) method. FEMS Microbiol. Lett. 234 (2004) 93-97
25. Enosawa M., Kageyama S., Sawai K., Watanabe K., Notomi T., Onoe S., Mori Y., and Yokomizo Y. Use of loop-mediated isothermal amplification of the IS900 sequence for rapid detection of cultured Mycobacterium avium subsp. paratuberculosis. J. Clin. Microbiol. 41 (2003) 4359-4365
26. Fader R.C., and McGinnis M.R. Infections caused by dematiaceous fungi: chromoblastomycosis and phaeohyphomycosis. Infect. Dis. Clin. North. Am. 2 (1988) 925-938
27. Fernández-Zeppenfeldt G.R.-Y.N., Yegres F., and Hernández R. Cladosporium carrionii: hongo dimórfico en cactáceas de la zona endémica para la cromomicosis en Venezuela. Revista Iberoamericana de Micologia 11 (1994) 61-63
28. Guerriero C., De Simone C., and Tulli A. A case of chromoblastomycosis due to Phialophora verrucosa responding to treatment with fluconazole. Eur. J. Dermatol. 8 (1998) 167-168
29. Hagiwara M., Sasaki H., Matsuo K., Honda M., Kawase M., and Nakagawa H. Loop-mediated isothermal amplification method for detection of human papillomavirus type 6, 11, 16, and 18. J. Med. Virol. 79 (2007) 605-615
30. Hilmarsdottir I., Haraldsson H., Sigurdardottir A., and Sigurgeirsson B. Dermatophytes in a swimming pool facility: difference in dermatophyte load in men's and women's dressing rooms. Acta Derm. Venereol. 85 (2005) 267-268
31. Ikadai H., Tanaka H., Shibahara N., Matsuu A., Uechi M., Itoh N., Oshiro S., Kudo N., Igarashi I., and Oyamada T. Molecular evidence of infections with Babesia gibsoni parasites in Japan and evaluation of the diagnostic potential of a loop-mediated isothermal amplification method. J. Clin. Microbiol. 42 (2004) 2465-2469
32. Inacio J., Flores O., and Spencer-Martins I. Efficient identification of clinically relevant Candida yeast species by use of an assay combining panfungal loop-mediated isothermal DNA amplification with hybridization to species-specific oligonucleotide probes. J. Clin. Microbiol. 46 (2008) 713-720
33. Iseki H., Alhassan A., Ohta N., Thekisoe O.M., Yokoyama N., Inoue N., Nambota A., Yasuda J., and Igarashi I. Development of a multiplex loop-mediated isothermal amplification (mLAMP) method for the simultaneous detection of bovine Babesia parasites. J. Microbiol. Methods 71 (2007) 281-287
34. Iwamoto T., Sonobe T., and Hayashi K. Loop-mediated isothermal amplification for direct detection of Mycobacterium tuberculosis complex, M. avium, and M. intracellulare in sputum samples. J. Clin. Microbiol. 41 (2003) 2616-2622
35. Iwatsu T., Miyaji M., Taguchi H., and Okamoto S. Evaluation of skin test for chromoblastomycosis using antigens prepared from culture filtrates of Fonsecaea pedrosoi, Phialophora verrucosa, Wangiella dermatitidis and Exophiala jeanselmei. Mycopathologia 77 (1982) 59-64
36. Iwen P.C., Hinrichs S.H., and Rupp M.E. Utilization of the internal transcribed spacer regions as molecular targets to detect and identify human fungal pathogens. Med. Mycol. 40 (2002) 87-109
37. Karuppayil S.M., Peng M., Mendoza L., Levins T.A., and Szaniszlo P.J. Identification of the conserved coding sequences of three chitin synthase genes in Fonsecaea pedrosoi. J. Med. Vet. Mycol. 34 (1996) 117-125
38. Kuhn D.M., and Ghannoum M.A. Indoor mold, toxigenic fungi, and Stachybotrys chartarum: infectious disease perspective. Clin. Microbiol. Rev. 16 (2003) 144-172
39. Lee M.F., Chen Y.H., and Peng C.F. Evaluation of reverse transcription loop-mediated isothermal amplification in conjunction with ELISA-hybridization assay for molecular detection of Mycobacterium tuberculosis. J. Microbiol. Methods 76 (2009) 174-180
40. Marciniak J., Kummel A., Esener S., Heller M., and Messmer B. Coupled rolling circle amplification loop-mediated amplification for rapid detection of short DNA sequences. Biotechniques 45 (2008) 275-280
41. Nagamine K., Hase T., and Notomi T. Accelerated reaction by loop-mediated isothermal amplification using loop primers. Mol. Cell Probes. 16 (2002) 223-229
42. Najafzadeh M.J., Gueidan C., Badali H., Gerrits van den Ende A.H., Xi L., and De Hoog G.S. Genetic diversity and species delimitation in the opportunistic genus Fonsecaea. Med. Mycol. 47 (2009) 17-25
43. Najafzadeh, M.J., Rezusta, A., Cameo, M.I., Zubiri, M.L., Yus, M.C., Badali, H., Revillo, M.J., De Hoog, G.S., in press-a. Successful treatment of chromoblastomycosis of 36 years duration caused by Fonsecaea monophora. Med Mycol, 1-4. doi:10.1080/13693780903008813.
44. Najafzadeh, M.J.B., H. Sun, J. Xi, L., Gerrits van den Ende, A.H., De Hoog, G.S., in press-b. Fonsecaea nubica, a new species of agent of human chromoblastomycosis revealed using molecular data. Med Mycol.
45. Notomi T., Okayama H., Masubuchi H., Yonekawa T., Watanabe K., Amino N., and Hase T. Loop-mediated isothermal amplification of DNA. Nucleic Acids Res. 28 (2000) E63
46. Ohori A., Endo S., Sano A., Yokoyama K., Yarita K., Yamaguchi M., Kamei K., Miyaji M., and Nishimura K. Rapid identification of Ochroconis gallopava by a loop-mediated isothermal amplification (LAMP) method. Vet. Microbiol. 114 (2006) 359-365
47. Padhye A.A., Hampton A.A., Hampton M.T., Hutton N.W., Prevost-Smith E., and Davis M.S. Chromoblastomycosis caused by Exophiala spinifera. Clin. Infect. Dis. 22 (1996) 331-335
48. Poon L.L., Wong B.W., Chan K.H., Ng S.S., Yuen K.Y., Guan Y., and Peiris J.S. Evaluation of real-time reverse transcriptase PCR and real-time loop-mediated amplification assays for severe acute respiratory syndrome coronavirus detection. J. Clin. Microbiol. 43 (2005) 3457-3459
49. Queiroz-Telles F., Esterre P., Perez-Blanco M., Vitale R.G., Salgado C.G., and Bonifaz A. Chromoblastomycosis: an overview of clinical manifestations, diagnosis and treatment. Med. Mycol. 47 (2009) 3-15
50. Rubin H.A., Bruce S., Rosen T., and McBride M.E. Evidence for percutaneous inoculation as the mode of transmission for chromoblastomycosis. J. Am. Acad. Dermatol. 25 (1991) 951-954
51. Salgado C.G., da Silva J.P., Diniz J.A., da Silva M.B., da Costa P.F., Teixeira C., and Salgado U.I. Isolation of Fonsecaea pedrosoi from thorns of Mimosa pudica, a probable natural source of chromoblastomycosis. Rev. Inst. Med. Trop. Sao Paulo 46 (2004) 33-36
52. Spatafora J.W., Mitchell T.G., and Vilgalys R. Analysis of genes coding for small-subunit rRNA sequences in studying phylogenetics of dematiaceous fungal pathogens. J. Clin. Microbiol. 33 (1995) 1322-1326
53. Sudhadham M., Prakitsin S., Sivichai S., Chaiyarat R., Dorrestein G.M., Menken S.B.J., and De Hoog G.S. The neurotropic black yeast Exophiala dermatitidis has a possible origin in the tropical rain forest. Stud. Mycol. 61 (2008) 145-155
54. Surash S., Tyagi A., De Hoog G.S., Zeng J.S., Barton R.C., and Hobson R.P. Cerebral phaeohyphomycosis caused by Fonsecaea monophora. Med. Mycol. 43 (2005) 465-472
55. Vicente V.A., Attili-Angelis D., Pie M.R., Queiroz-Telles F., Cruz L.M., Najafzadeh M.J., De Hoog G.S., Zhao J., and Pizzirani-Kleiner A. Environmental isolation of black yeast-like fungi involved in human infection. Stud. Mycol. 61 (2008) 137-144
56. Vidal M.S., Castro L.G., Cavalcante S.C., and Lacaz C.S. Highly specific and sensitive, immunoblot-detected 54 kDa antigen from Fonsecaea pedrosoi. Med. Mycol. 42 (2004) 511-515
57. Xi L., Lu C., Sun J., Li X., Liu H., Zhang J., Xie Z., and De Hoog G.S. Chromoblastomycosis caused by a meristematic mutant of Fonsecaea monophora. Med. Mycol. 47 (2009) 77-80
58. Yoshida A., Nagashima S., Ansai T., Tachibana M., Kato H., Watari H., Notomi T., and Takehara T. Loop-mediated isothermal amplification method for rapid detection of the periodontopathic bacteria Porphyromonas gingivalis, Tannerella forsythia, and Treponema denticola. J. Clin. Microbiol. 43 (2005) 2418-2424
59. Zeng J.S., and De Hoog G.S. Exophiala spinifera and its allies: diagnostics from morphology to DNA barcoding. Med Mycol. 46 (2008) 193-208