Subscribe

Subscribe to our Newsletter and get informed about new publication regulary and special discounts for subscribers!

ILNS > Volume 42 > RAPD-PCR as a Molecular Discriminative Technique...
< Back to Volume

RAPD-PCR as a Molecular Discriminative Technique for Human Pathogenic Bacteria - A Review

Full Text PDF

Abstract:

The application of random amplified polymorphic DNA- polymerase chain reaction (RAPD-PCR) was found to be a simple, cheap and rapid tool to discriminate human pathogenic bacterial isolates especially at intraspecific level. This molecular biological technique relies on the use of random oligonucleotide primers that arbitrarily amplifies specific regions of the genome which gives rise to a unique genomic fingerprint of the strains under investigations. With continued development of novel molecular-based technologies for rapid, high-throughput detection of food borne pathogenic bacteria, the future of conventional microbiological methods such as viable cell enumeration, selective isolation of bacteria on commercial media, and immunoassays seems tenuous. Approaches that enhance recovery of sub lethally injured bacteria, differentiation among species, differentiation among bacteria of interest using biochemical profiling, enumeration using impedance technology, techniques to confirm the presence of target pathogens using immunological methods, and bioluminescence applications for hygiene monitoring are of utmost need in identifying and combating the human pathogenic isolates. The aim of this study is to esti­mate the efficiency of RAPD-PCR technique in assessing the genetic diversity of diseases causing bacterial isolates. The use of RAPD-PCR in evaluating the genomic variability among the pathogenic strains belonging to different genus are also been discussed in the present report.

Info:

Periodical:
International Letters of Natural Sciences (Volume 42)
Pages:
13-17
Citation:
P. Pal, "RAPD-PCR as a Molecular Discriminative Technique for Human Pathogenic Bacteria - A Review", International Letters of Natural Sciences, Vol. 42, pp. 13-17, 2015
Online since:
July 2015
Authors:
Export:
Distribution:
References:

[1] N. Botteldoorn, L. Herman, N. Rijpens, et al.: Phenotypic and Molecular Typing of Salmonella Strains Reveal Different Contamination Source in Two Commercial Pig Slaughterhouses. Applied and Environmental Microbiology 70 (2004) 5305-5314.

DOI: https://doi.org/10.1128/aem.70.9.5305-5314.2004

[2] R. M. Weigel, B. Z. Qiaoa, B. Teferedegneb, D. K. Suh, D. A. Barber, et al.: Comparison of Pulsed Field Gel Electrophoresis and Repetitive Sequence Polymerase Chain Reaction as Genotyping Methods for Detection of Genetic Diversity and Inferring Transmission of Salmonella. Veterinary Microbiology 100 (2004).

DOI: https://doi.org/10.1016/j.vetmic.2004.02.009

[3] H. Y. Tsen and J. S. Lin: Analysis of Salmonella Enteritidis Strains Isolated from Food-Poisoning Cases in Taiwan by Pulsed Field Gel Electrophoresis, Plasmid Profile and Phage Typing. Journal of Applied Microbiology 91 (2001) 72-79.

DOI: https://doi.org/10.1046/j.1365-2672.2001.01343.x

[4] J. Garaizar, N. López-Molina, I. Laconcha, D. L. Baggesen, A. Rementeria, A. Vivanco, et al.: Suitability of PCR Fingerprinting, Infrequent-Restriction Site PCR, and Pulsed-Field Gel Electrophoresis, Combined with Computerized Gel Analysis, in Library Typing of Salmonella Enterica Serovar Enteriditis. Applied and Environmental Microbiology 66 (2000).

DOI: https://doi.org/10.1128/aem.66.12.5273-5281.2000

[5] B. Saran, Z. C. Karahan, H. Ağirbaşli, A. Tekeli, A. M. Aksoy: Comparison of different primers used for the genotyping of Candida albicans clinical isolates by randomly amplified polymorphic DNA method. Mikrobiyol Bul 42 (2008) 645–654.

[6] B. Krawczyk, J. Leibner-Ciszak, A. Mielech, M. Nowak, J. Kur: PCR melting profile (PCR MP) — a new tool for differentiation of Candida albicans strains. BMC Infect. Dis . 9 (2009) 177–189.

DOI: https://doi.org/10.1186/1471-2334-9-177

[7] K. L. Bacelo, K. R. da Costa, J. C. Ferreira, R. C. Candido: Biotype stability of Candida albicans isolates after culture storage determined by randomly amplified polymorphic DNA and phenotypical methods. Mycoses 53 (2010) 468–474.

DOI: https://doi.org/10.1111/j.1439-0507.2009.01741.x

[8] B. Gültekin, M. Eyigör, Y. Tiryaki, S. Kırdar, N. Aydın: Investigation of antifungal susceptibilities and some virulence factors of Candida strains isolated from blood cultures and genotyping by RAPD-PCR. Mikrobiyol Bul 45 (2011) 306–317.

[9] Y. H. Samaranayake, L. P. Samaranayake, R. S. Dassanayake, J. Y. Yau, W. K. Tsang, B. P. Cheung, Y. Shiren, S. Y. Issa, E. F. Badran, K. F. Akl, A. A Shebabi: Epidemiological characteristics of Candida species colonizing oral and rectal sites of Jordanian infants. BMC Pediatr. 11(2011).

DOI: https://doi.org/10.1186/1471-2431-11-79

[10] J. Xu, C. M. Boyd, E. Livingston, W. Meyer, J. F. Madden, T. G. Mitchell: Species and genotypic diversities and similarities of pathogenic yeasts colonizing women. J. Clin. Microbiol. 37 (1999) 3835–3843.

[11] P. P. Chong, Y. L. Lee, B. C. Tan, K. P. Ng: Genetic relatedness of Candida strains isolated from women with vaginal candidiasis in Malaysia. Journal of Medical Microbiology 52 (2003) 657–666.

DOI: https://doi.org/10.1099/jmm.0.04973-0

[12] T. M. Diaz-Guerra, E. Mellado, M. Cuenca-Estrella, L. Gaztelurrutia, J. I. Navarro, J. L. Tudela: Genetic Similarity among one Aspergillus flavus Strain Isolated from a Patient Who Underwent Heart Surgery and Two Environmental Strains Obtained from the Operating Room. Journal of Clinical Microbiology 38 (2000).

[13] Y. Hara Kudo, K. Sugiyama, M. Nishibuchi, et al.: Prevalence of Pandemic Thermostable Direct Hemolysin Producing Vibrio parahaemolyticus O3: K6 in Seafood and the Coastal Environment in Japan. Applied and Environmental Microbiology 69 (2003).

DOI: https://doi.org/10.1128/aem.69.7.3883-3891.2003

[14] N. C. Leal, S. C. da Silva, V. O. Cavalcanti, et al.: Vibrio parahaemolyticus Serovar O3: K6 Gastroenteritis in Northeast Brazil. Journal of Applied Microbiology 105 (2008) 691-697.

DOI: https://doi.org/10.1111/j.1365-2672.2008.03782.x

[15] Y. Cetinkaya, S. Kocagoz, M. Hayran, et al.: Analysis of Minioutbreak of Methicillin-Resistant Staphylococcus aureus in a Surgical Ward by Using Arbitrarily Primed Polymerase Chain Reaction. Journal of Chemotherapy 12 (2000)138-144.

DOI: https://doi.org/10.1179/joc.2000.12.2.138

[16] D. J. Sullivan, T. J. Westerneng, K. A. Haynes, D. E. Bennett, D. C. Coleman: Candida dubliniensis sp. nov.: phenotypic and molecular characterization of a novel species associated with oral candidosis in HIV-infected individuals. Microbiology 141 (1995).

DOI: https://doi.org/10.1099/13500872-141-7-1507

[17] D. Sullivan, D. Bennett, M. Henman, et al.: Oligonucleotide fingerprinting of isolates of Candida species other than C. albicans and of atypical Candida species from human immunodeficiency virus-positive and AIDS patients. J. Clin. Micmbiol. 31 (1993).

[18] P. F. Lehmann, D. Lin, B. A. Lasker: Genotypic identification and characterization of species and strains within the genus Candida by using random amplified polymorphic DNA. J. Clin. Micmbiol. 30 (1992) 3249-3254.

[19] A. Bostock, M. N. Khattak, R. Matthews, J. Burnie: Comparison of PCR fingerprinting, by random amplification of polymorphic DNA, with other molecular typing methods for Candida albicans. J. Gen. Micmbiol. 139 (1993) 2179-2184.

DOI: https://doi.org/10.1099/00221287-139-9-2179

[20] H. L. C. Coutinho, H. E. Handley BAY Kay, L. Stevenson, J. E. Beringer: The effect of colony age on PCR fingerprinting. Lett. Appl. Micmbiol. 17 (1993) 282-284.

DOI: https://doi.org/10.1111/j.1472-765x.1993.tb01467.x

[21] G. Venugopal, S. Mohapatra, D. Salo, S. Mohapatra: Multiple mismatch annealing: basis for random amplified polymorphic DNA fingerprinting. Biochem Biophys. Res. Commun. 197 (1993) 1382-1387.

DOI: https://doi.org/10.1006/bbrc.1993.2630

[22] B. D. Cobb, J. M. Clarkson: A simple procedure for optimising the polymerase chain reaction (PCR) using modified Taguchi methods. Nucleic Acids Res. 22 (1994) 3801-3805.

DOI: https://doi.org/10.1093/nar/22.18.3801

[23] D. J. Sullivan, M. C. Henman, G. P. Moran, L. C. O'NEILL, D. E. Bennett, D. B. Shanley, D. C. Coleman: Molecular genetic approaches to identification, epidemiology and taxonomy of non-albicans Candida species. J. Med. Microbiol. 44 (1996).

DOI: https://doi.org/10.1099/00222615-44-6-399

[24] M. C. Ploy, F. Denis, P. Courvalin, T. Lambert: Molecular characterization of integrons in Acinetobacter baumanii: Description of an hybrid class 2 integron. Antimicrob. Agents Chemother. 44 (2000) 2684-88.

DOI: https://doi.org/10.1128/aac.44.10.2684-2688.2000

[25] A. Gassama-Sow, A. Aïdara-Kane, O. Barraud, M. Gatet, F. Denis, Marie-Cécile Ploy: High prevalence of trimethoprim-resistance cassettes in class 1 and 2 integrons in Senegalese Shigella spp isolates. J. Infect. Dev. Ctries. 4(4) (2010) 207-212.

DOI: https://doi.org/10.3855/jidc.583

[26] E. M. Nielsen, J. Engberg, V. Fussing, L. Petersen, C. H. Brogren, S. L. On: Evaluation of Phenotypic and Genotypic Methods for Subtyping Campylobacter jejuni Isolates from Humans, Poultry, and Cattle. Journal of Clinical Microbiology 38(2000).

[27] D. Lin, P. F. Lehmann, B. H. Hamory, A. A. Padhye, E. Durry, R. W. Pinner, B. A. Lasker: Comparison of Three Typing Methods for Clinical and Environmental Isolates of Aspergillus fumigatus. Journal of Clinical Microbiology 33(1995) 1596-1601.

[28] T. Lin, L. Lin, F. Zhang: Review on Molecular Typing Methods of Pathogens. Open Journal of Medical Microbiology 4 (2014)147-152.

Show More Hide
Cited By:
This article has no citations.