scholarly journals Strain differentiation of Trichophyton rubrum by random amplification of polymorphic DNA (RAPD)

2004 ◽  
Vol 46 (6) ◽  
pp. 339-341 ◽  
Author(s):  
Lilian Cristiane Baeza ◽  
Maria José Soares Mendes Giannini
Keyword(s):  
Trichophyton Rubrum ◽  
Rapd Analysis ◽  
Epidemiological Studies ◽  
Strain Typing ◽  
Strain Differentiation ◽  
Random Amplification ◽  
Typing Methods

Trichophyton rubrum is an important cause of dermatomycoses. Molecular strain typing methods have recently been developed to address questions about epidemiology and source of relapse following treatment. This report describes the application of RAPD for molecular strain differentiation of this fungus utilizing the primers 1- (5'-d[GGTGCGGGAA]-3') and 6- (5'-d[CCCGTCAGCA]-3'). A total of five RAPD patterns were observed among 10 strains of T. rubrum, with each of the primers used. We conclude that RAPD analysis using primers 1 and 6 can be used in epidemiological studies.

scholarly journals Strain differentiation of Trichophyton rubrum by randomly amplified polymorphic DNA and analysis of rDNA nontranscribed spacer

2006 ◽  
Vol 55 (4) ◽  
pp. 429-436 ◽  
Author(s):  
Lilian Cristiane Baeza ◽  
Marcelo Teruyuki Matsumoto ◽  
Ana Marisa Fusco Almeida ◽  
Maria José Soares Mendes-Giannini
Keyword(s):  
Trichophyton Rubrum ◽  
Rapd Analysis ◽  
Epidemiological Studies ◽  
Randomly Amplified Polymorphic Dna ◽  
Element Analysis ◽  
Strain Characteristic ◽  
Nontranscribed Spacer ◽  
Typing Methods ◽  
Characteristic Banding ◽  
High Degree

Trichophyton rubrum is the most common pathogen causing dermatophytosis. Molecular strain-typing methods have recently been developed to tackle epidemiological questions and the problem of relapse following treatment. A total of 67 strains of T. rubrum were screened for genetic variation by randomly amplified polymorphic DNA (RAPD) analysis, with two primers, 5′-d[GGTGCGGGAA]-3′ and 5′-d[CCCGTCAGCA]-3′, as well as by subrepeat element analysis of the nontranscribed spacer of rDNA, using the repetitive subelements TRS-1 and TRS-2. A total of 12 individual patterns were recognized with the first primer and 11 with the second. Phylogenetic analysis of the RAPD products showed a high degree of similarity (>90 %) among the epidemiologically related clinical isolates, while the other strains possessed 60 % similarity. Specific amplification of TRS-1 produced three strain-characteristic banding patterns (PCR types); simple patterns representing one copy of TRS-1 and two copies of TRS-2 accounted for around 85 % of all isolates. It is concluded that molecular analysis has important implications for epidemiological studies, and RAPD analysis is especially suitable for molecular typing in T. rubrum.

scholarly journals Strain Typing of Trichosporon asahii Clinical Isolates by Random Amplification of Polymorphic DNA (RAPD) Analysis

2021 ◽  
Author(s):  
Thayanidhi Premamalini ◽  
Vijayaraman Rajyoganandh ◽  
Ramaraj Vijayakumar ◽  
Hemanth Veena ◽  
Anupma Jyoti Kindo ◽  
...  
Keyword(s):  
Genetic Relatedness ◽  
Rapd Analysis ◽  
Clinical Isolates ◽  
Clinical Samples ◽  
Strain Typing ◽  
Trichosporon Asahii ◽  
Pcr Fingerprinting ◽  
Specific Pcr ◽  
Rapd Primer ◽  
Random Amplification

Abstract Objective The aim of this study was to identify and isolate Trichosporon asahii (T. asahii) from clinical samples and to assess the genetic relatedness of the most frequently isolated strains of T. asahii using random amplification of polymorphic DNA (RAPD) primers GAC-1 and M13. Methods All the clinical samples that grew Trichosporon species, identified and confirmed by polymerase chain reaction (PCR) using Trichosporon genus-specific primers, were considered for the study. Confirmation of the species T. asahii was carried out by T. asahii-specific PCR. Fingerprinting of the most frequently isolated T. asahii isolates was carried out by RAPD using random primers GAC-1 and M13. Results Among the 72 clinical isolates of Trichosporon sp. confirmed by Trichosporon-specific PCR, 65 were found to be T. asahii as identified by T. asahii-specific PCR. Fingerprinting of the 65 isolates confirmed as T. asahii using GAC-1 RAPD primer yielded 11 different patterns, whereas that of M13 primer produced only 5 patterns. The pattern I was found to be the most predominant type (29.2%) followed by pattern III (16.9%) by GAC-1 primer. Conclusions This study being the first of its kind in India on strain typing of T. asahii isolates by adopting RAPD analysis throws light on genetic diversity among the T. asahii isolates from clinical samples. Fingerprinting by RAPD primer GAC-1 identified more heterogeneity among the T. asahii isolates than M13.

scholarly journals Strain differentiation ofCandida albicansby morphotyping

1987 ◽  
Vol 99 (2) ◽  
pp. 421-428 ◽  
Author(s):  
S. Phongpaichit ◽  
D. W. R. Mackenzie ◽  
C. Fraser
Keyword(s):  
Candida Albicans ◽  
Surface Topography ◽  
Epidemiological Studies ◽  
Morphological Features ◽  
Malt Agar ◽  
Strain Differentiation ◽  
Specialized Equipment

SUMMARYStrains ofCandida albicanscan be differentiated by the morphological features of streak colonies developed on malt agar. A morphotyping system is proposed, where numerical codes are assigned primarily on the basis of the nature and extent of marginal fringing and the surface topography of the streak colony. The system allows ready differentiation to be made of morphotypcs, requires no specialized equipment or expertise and provides a simple and reproducible means for epidemiological studies of candida and candidosis.

scholarly journals Genetic profiling of mistletoe (Viscum album L.) using RAPD-analysis

2020 ◽  
Vol 26 ◽  
pp. 82-86
Author(s):  
Yu. O. Bilonozhko ◽  
A. N. Rabokon ◽  
A. S. PostovoitovA ◽  
L. O. Kalafat ◽  
S. M. PrivAlikhin ◽  
...  
Keyword(s):  
Rapd Markers ◽  
Rapd Analysis ◽  
Molecular Genetic ◽  
Viscum Album ◽  
Dna Fragments ◽  
Coniferous Species ◽  
Genetic Profiling ◽  
Random Amplification ◽  
Polymerase Chain ◽  
Genetic Profiles

Aim. The aim of this research was genetic profiling and identification of genetic differences between V. album speciments, growing on deciduous and coniferous species of woody plants using RAPD markers. Methods. The method of polymerase chain reaction (PCR) with random primers (Random Amplification of Polymorphic DNA - RAPD) was used. Amplified DNA fragments were fractionated by electrophoresis in non-denaturing polyacrylamide gel. DNA bands were detected using the staining with silver nitrate. Results. All the studied mistletoe samples were differentiated from each other, and their unique molecular genetic profiles were obtained. 241 amplified DNA fragments were detected in the range from 200 to 2000 bp, 152 fragments (63%) were polymorphic. The samples were divided into two separate groups depending on the type of host plant. Conclusions. The fact that the samples formed two separate clades confirms the assumption that mistletoe, which grow on pine and grow on maple, represents two separate subspecies of V. album. Keywords: Viscum album L., molecular genetic markers, polymorphism, RAPD.

Association between CAI microsatellite, multilocus sequence typing, and clinical significance within Candida albicans isolates

2020 ◽  
Author(s):  
Yen-Mu Wu ◽  
Chih-Hua Lee ◽  
Yi-Chuan Cheng ◽  
Jang-Jih Lu ◽  
Shao-Hung Wang
Keyword(s):  
Risk Factors ◽  
Candida Albicans ◽  
Clinical Significance ◽  
Multilocus Sequence Typing ◽  
Molecular Phylogenetics ◽  
Good Alternative ◽  
Epidemiological Studies ◽  
Chang Gung Memorial Hospital ◽  
Strain Typing ◽  
Clinical Scenario

Abstract Candida albicans bloodstream infection (BSI) is epidemiologically important because of its increasing frequency and serious outcome. Strain typing and delineation of the species are essential for understanding the phylogenetic relationship and clinical significance. Microsatellite CAI genotyping and multilocus sequence typing (MLST) were performed on 285 C. albicans bloodstream isolates from patients in Chang Gung Memorial Hospital at Linkou (CGMHL), Taiwan from 2003 to 2011. Data regarding demographics, comorbidities, risk factors, and clinical outcomes were recorded within adult patients with C. albicans BSI. Both CAI genotyping and MLST yielded comparable discriminatory power for C. albicans characterization. Besides, the distribution of CAI repetition showed a satisfactory phylogenetic association, which could be a good alternative method in the molecular phylogenetics of C. albicans and epidemiological studies. As for the clinical scenario, clade 17 isolates with CAI alleles either possessing 29 or more repetitions were related to higher 14-day and 30-day mortality, and shorter median survival days.

scholarly journals Strain Typing and the Ecological Structure of Escherichia coli

2010 ◽  
Vol 93 (3) ◽  
pp. 974-984 ◽  
Author(s):  
David M Gordon
Keyword(s):  
Escherichia Coli ◽  
Intestinal Tract ◽  
Domestic Animals ◽  
Seasonal Patterns ◽  
Strain Typing ◽  
E Coli ◽  
Hospital Acquired Infections ◽  
Typing Methods ◽  
The Many ◽  
Hospital Acquired

Abstract Escherichia coli is a commonly encountered commensal of the lower intestinal tract of humans and other mammals. Strains of the species are responsible for a significant amount of human morbidity and mortality each year. Consequently, numerous efforts attempt to track the movement of hospital-acquired infections, determine the source of a foodborne disease outbreak, or investigate the seasonal patterns of pathogen abundance in domestic animals. All of these endeavors require that the isolates acquired be differentiated from each other in some manner. This review briefly describes some of the commonly used molecular typing methods for E. coli. However, the main aim of the review is to describe the many levels, from the species to individual strains, at which E. coli can be considered, and to contend that a hierarchical approach to strain typing may often reveal patterns that are not obvious when a typing scheme is simply designed to differentiate isolates.

Molecular strain typing of Trichophyton rubrum indicates multiple strain involvement in onychomycosis

2003 ◽  
Vol 148 (1) ◽  
pp. 51-54 ◽  
Author(s):  
A. Yazdanparast ◽  
C.J. Jackson ◽  
R.C. Barton ◽  
E.G.V. Evans
Keyword(s):  
Trichophyton Rubrum ◽  
Strain Typing
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