Use of PCR targeting of internal transcribed spacer regions and single-stranded conformation polymorphism analysis of sequence variation in different regions of rRNA genes in fungi for rapid diagnosis of mycotic keratitis

Journal of Clinical Microbiology

Volumn 43, Issue 2, 2005, Pages 662-668

  Kumar, Manish ^a   Shukla, P K ^a  

^a CENTRAL DRUG RESEARCH INSTITUTE   (India)

Author keywords

[No Author keywords available]

Indexed keywords

ANTIFUNGAL AGENT; GENE PRODUCT; INTERNAL TRANSCRIBED SPACER; RIBOSOME RNA;

ACQUIRED IMMUNE DEFICIENCY SYNDROME; ANIMAL EXPERIMENT; ANIMAL MODEL; ANIMAL TISSUE; ARTICLE; ASPERGILLUS FUMIGATUS; CONTROLLED STUDY; CORNEA ULCER; DIAGNOSTIC PROCEDURE; EARLY DIAGNOSIS; FUNGAL GENE; FUNGUS IDENTIFICATION; GENE AMPLIFICATION; GENETIC VARIABILITY; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS INFECTION; INCIDENCE; KERATITIS; KERATOMYCOSIS; MYCOSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RABBIT; RNA SEQUENCE; SEQUENCE ANALYSIS; SINGLE STRAND CONFORMATION POLYMORPHISM;

ANIMALS; BASE SEQUENCE; CORNEA; DNA PRIMERS; DNA, RIBOSOMAL SPACER; EYE INFECTIONS, FUNGAL; GENES, RRNA; HUMANS; KERATITIS; MOLECULAR SEQUENCE DATA; MYCOSES; POLYMERASE CHAIN REACTION; POLYMORPHISM, SINGLE-STRANDED CONFORMATIONAL; RABBITS; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY; VARIATION (GENETICS);

ANIMALIA; ASPERGILLUS FUMIGATUS; FUNGI; HUMAN IMMUNODEFICIENCY VIRUS; ORYCTOLAGUS CUNICULUS;

EID: 13844276553     PISSN: 00951137     EISSN: None     Source Type: Journal    
DOI: 10.1128/JCM.43.2.662-668.2005     Document Type: Article

References (26)

1. Agrawal, P. K., B. Lal, P. K. Shukla, Z. A. Khan, and O. P. Srivastava. 1982. Clinical and experimental keratitis due to Curvularia lunata Wakker Boedijn var. aeria (Batista, Lima and Vasconcelos) Ellis. Sabouraudia 20:225-232.
2. Ahmad, S., Z. Khan, A. S. Mustafa, and Z. U. Khan. 2002. Seminested PCR for diagnosis of candidemia: comparison with culture, antigen detection, and biochemical methods for species identification. J. Clin. Microbiol. 40:2483-2489.
3. Bassam, B. J., G. C. Anolles, and P. M. Gresshoff. 1991. Fast and sensitive silver staining of DNA in polyacrylamide gels. Anal. Biochem. 196:80-83.
4. Dunlop, A. A., E. D. Write, S. A. Howlader, I. Nazrul, R. Husain, K. McClellan, and F. A. Billson. 1994. Suppurative corneal ulceration in Bangladesh. A study of 142 cases examining the microbiological diagnosis, clinical and epidemiological feature of bacterial and fungal keratitis. Aust. N. Z. J. Ophthalmol. 22:105-110.
5. Ferrer, C., F. Colom, S. Frases, E. Mulet J. L. Abad, and J. L. Alio. 2001. Detection and identification of fungal pathogens by PCR and by ITS2 and 5.8S ribosomal DNA typing in ocular infections. J. Clin. Microbiol. 39:2873-2879.
6. Ferrer, C., G. Munoz, J. L. Alio, and F. Colom. 2002. Polymerase chain reaction diagnosis in fungal keratitis caused by Alternaria alternata. Am. J. Ophthalmol. 133:398-399.
7. Fujita, S., B. A. Lasker, T. J. Lott, E. Reiss, and C. J. Morrison. 1995. Microtitration plate enzyme immunoassay to detect PCR amplified DNA from Candida species in blood. J. Clin. Miciobiol. 33:962-967.
8. Garg, P., G. Gopinath, K. Choudbary, and G. N. Rao. 2000. Keratomycosis: clinical and microbiological experience with dematiaceous fungi. Ophthalmology 107:574-580.
9. Gillman, L. M., J. Gunton, C. Y. Turenne, J. Wolfe, and A. M. Kabani. 2001. Identification of Mycobacterium species by multiple-fluorescence PCR-single-strand conformation polymorphism analysis of the 16S rRNA gene. J. Clin. Microbiol. 39:3085-3091.
10. Holmberd, K., and F. Feroze. 1996. Evaluation of an optimized system for random amplified polymorphic DNA (RAPD)-analysis for genotypic mapping of Candida albicans strains. J. Clin. Lab. Anal. 10:59-69.
11. Hui, M., M. Ip, P. K. Chan, M. L. Chin, and A. F. Cheng. 2000. Rapid identification of medically important Candida to species level by polymerase chain reaction and single-strand conformational polymorphism. Diagn. Microbiol. Infect. Dis. 38:95-99.
12. Humphreis, S. E., V. Gudnason, R. Whittall, and I. N. M. Day. 1997. Single stranded conformation polymorphism analysis with high throughput modifications and its use in mutation detection in familial hypercholesterolemia. Clin. Chem. 43:427-435.
13. Iwastu, T. M., M. Miyaji, H. Taguchi, and S. Okamoto. 1982. Evaluation of skin test for chromoblastomycosis using antigen prepared from cultural filtrates of Fonsecaea pedrosoi, Phlalophora verrucosa, Wangiella dermatitidis and Exophiala jeanselmei. Mycopathologia 77:59-64.
14. Iwen, P. C., S. H. Hinrichs, and M. E. Rupp. 2002. Utilization of the internal transcribed spacer region as molecular targets to detect and identify human fungal pathogens. Med. Mycol. 40:87-109.
15. Kumeda, Y., and T. Asao. 1996. Single-strand conformation polymorphism analysis of PCR-amplified ribosomal DNA internal transcribed spacers to differentiate species of Aspergillus section Flavi. Appl. Environ. Microbiol. 62:2947-2952.
16. Mora, D., G. Ricci, S. Gugliemetti, D. Daffonchio, and M. G. Fortina. 2003. 16S-23S rRNA intergenic spacer region sequence variation in Streptococcus thermophilus and related dairy streptococci and development of a multiplex ITS-SSSP analysis for their identification. Microbiology 149:807-813.
17. Rath, P. M., and R. Ansorg. 2000. Identification of medically important Aspergillus species by single stranded conformational polymorphism (SSCP) of the PCR-amplified intergenic spacer region. Mycoses 43:381-386.
18. Shukla, P. K., Z. A. Khan, B. Lal, P. K. Agrawal, and O. P. Srivastava. 1983. Clinical and experimental keratitis caused by the Colletotrichum state of Glomerella cingulata and Acrophialophora fusispora. Sabouraudia 21:137-147.
19. Thomas, P. A. 1994. Mycotic keratitis - an underestimated mycosis. J. Med. Vet. Mycol. 32:235-256.
20. Thomas, P. A. 2003. Fungal infection of the cornea. Eye 17:852-862.
21. Toth, I. K., A. O. Avrova, and L. J. Hyman. 2001. Rapid identification and differentiation of soft rot erwinias by 16S-23S internal transcribed spacer-PCR and restriction fragment length polymorphism analysis. Appl. Environ. Microbiol. 67:4070-4076.
22. Tullari, G., C. Mangone, J. Freyle, D. Shirazian, H. Lehmen, and G. L. Wise. 1998. Polymerase chain reaction used to detect candidemia in patients with candiduria. Urology 51:501-505.
23. Vilgalys, R., J. S. Hopple, Jr., and D. S. Hibbett. 1994. Phylogenetic implications of generic concepts in fungal taxonomy: the impact of molecular systematic studies. Mycol. Helv. 6:73-91.
24. White, T. J., T. Bruns, S. Lee, and J. W. Taylor. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics, p. 315-322. In M. A. Innis, D. H. Gelfand, J. J. Sninsky, and T. J. White (ed.), PCR protocols: a guide to methods and applications. Academic Press, Inc., New York, N.Y.
25. Wu, Z., Y. Tsumura, G. Blomquist, and X. Wang. 2003. 18S rRNA gene variation among common airborne fungi, and development of specific oligonucleotide probes for the detection of fungal isolate. Appl. Environ. Microbiol. 69:5389-5397.
26. Yao, Y. F., Y. M. Zhang, P. Zhou, B. Zhang, W. Y. Qiu, and S. C. G. Tseng. 2003. Therapeutic penetrating keratoplasty in severe fungal keratitis using cryopreserved donor corneas. Br. J. Ophthalmol. 87:543-547.