Improved RAPD Method for <i>Candida parapsilosis</i> Fingerprinting
Recently, methods based on the analysis of arbitrarily amplified target sites of genome microorganisms have been extensively applied in microbiological studies, and especially in epidemiological studies. The range of their application is limited by problems with discrimination and reproducibility re...
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| Format: | Article |
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MDPI AG
2023-04-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/14/4/868 |
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| author | Iwona Wojciechowska-Koszko Magdalena Mnichowska-Polanowska Paulina Roszkowska Michał Sławiński Stefania Giedrys-Kalemba Barbara Dołęgowska Monika Sienkiewicz Beata Hukowska-Szematowicz Paweł Kwiatkowski |
| author_facet | Iwona Wojciechowska-Koszko Magdalena Mnichowska-Polanowska Paulina Roszkowska Michał Sławiński Stefania Giedrys-Kalemba Barbara Dołęgowska Monika Sienkiewicz Beata Hukowska-Szematowicz Paweł Kwiatkowski |
| author_sort | Iwona Wojciechowska-Koszko |
| collection | DOAJ |
| description | Recently, methods based on the analysis of arbitrarily amplified target sites of genome microorganisms have been extensively applied in microbiological studies, and especially in epidemiological studies. The range of their application is limited by problems with discrimination and reproducibility resulting from a lack of standardized and reliable methods of optimization. The aim of this study was to obtain optimal parameters of the Random Amplified Polymorphic DNA (RAPD) reaction by using an orthogonal array as per the Taguchi and Wu protocol, modified by Cobb and Clark for <i>Candida parapsilosis</i> isolates. High Simpson’s index values and low Dice coefficients obtained in this study indicated a high level of interspecies DNA polymorphism between <i>C. parapsilosis</i> strains, and the optimized RAPD method proved useful in the microbiological and epidemiological study. |
| first_indexed | 2024-03-11T04:59:22Z |
| format | Article |
| id | doaj.art-c16686267c76415da0ee8d8d77e41244 |
| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-11T04:59:22Z |
| publishDate | 2023-04-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Genes |
| spelling | doaj.art-c16686267c76415da0ee8d8d77e412442023-11-17T19:23:40ZengMDPI AGGenes2073-44252023-04-0114486810.3390/genes14040868Improved RAPD Method for <i>Candida parapsilosis</i> FingerprintingIwona Wojciechowska-Koszko0Magdalena Mnichowska-Polanowska1Paulina Roszkowska2Michał Sławiński3Stefania Giedrys-Kalemba4Barbara Dołęgowska5Monika Sienkiewicz6Beata Hukowska-Szematowicz7Paweł Kwiatkowski8Department of Diagnostic Immunology, Pomeranian Medical University in Szczecin, 70-111 Szczecin, PolandDepartment of Medical Microbiology, Pomeranian Medical University in Szczecin, 70-111 Szczecin, PolandDepartment of Diagnostic Immunology, Pomeranian Medical University in Szczecin, 70-111 Szczecin, PolandDepartment of Laboratory Diagnostics, Public Clinical Hospital No. 2 in Szczecin, 70-111 Szczecin, PolandDepartment of Medical Microbiology, Pomeranian Medical University in Szczecin, 70-111 Szczecin, PolandDepartment of Laboratory Medicine, Pomeranian Medical University in Szczecin, 70-111 Szczecin, PolandDepartment of Pharmaceutical Microbiology and Microbiological Diagnostic, Medical University of Lodz, 90-151 Lodz, PolandInstitute of Biology, University of Szczecin, 71-412 Szczecin, PolandDepartment of Diagnostic Immunology, Pomeranian Medical University in Szczecin, 70-111 Szczecin, PolandRecently, methods based on the analysis of arbitrarily amplified target sites of genome microorganisms have been extensively applied in microbiological studies, and especially in epidemiological studies. The range of their application is limited by problems with discrimination and reproducibility resulting from a lack of standardized and reliable methods of optimization. The aim of this study was to obtain optimal parameters of the Random Amplified Polymorphic DNA (RAPD) reaction by using an orthogonal array as per the Taguchi and Wu protocol, modified by Cobb and Clark for <i>Candida parapsilosis</i> isolates. High Simpson’s index values and low Dice coefficients obtained in this study indicated a high level of interspecies DNA polymorphism between <i>C. parapsilosis</i> strains, and the optimized RAPD method proved useful in the microbiological and epidemiological study.https://www.mdpi.com/2073-4425/14/4/868RAPD-PCRoptimizationorthogonal arraygenetic diversityepidemiology<i>Candida parapsilosis</i> |
| spellingShingle | Iwona Wojciechowska-Koszko Magdalena Mnichowska-Polanowska Paulina Roszkowska Michał Sławiński Stefania Giedrys-Kalemba Barbara Dołęgowska Monika Sienkiewicz Beata Hukowska-Szematowicz Paweł Kwiatkowski Improved RAPD Method for <i>Candida parapsilosis</i> Fingerprinting Genes RAPD-PCR optimization orthogonal array genetic diversity epidemiology <i>Candida parapsilosis</i> |
| title | Improved RAPD Method for <i>Candida parapsilosis</i> Fingerprinting |
| title_full | Improved RAPD Method for <i>Candida parapsilosis</i> Fingerprinting |
| title_fullStr | Improved RAPD Method for <i>Candida parapsilosis</i> Fingerprinting |
| title_full_unstemmed | Improved RAPD Method for <i>Candida parapsilosis</i> Fingerprinting |
| title_short | Improved RAPD Method for <i>Candida parapsilosis</i> Fingerprinting |
| title_sort | improved rapd method for i candida parapsilosis i fingerprinting |
| topic | RAPD-PCR optimization orthogonal array genetic diversity epidemiology <i>Candida parapsilosis</i> |
| url | https://www.mdpi.com/2073-4425/14/4/868 |
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