Using Random Amplified Polymorphic DNA (RAPD) Fingerprinting Technique to Analyze Genetic Variation in Staphylococcus Aureus Isolated from Different Sources in Babylon Province Hospitals

2019 ◽  
Vol 10 (9) ◽  
pp. 1300
Author(s):  
Shaima R. Banoon ◽  
Zahraa Kamil Kadhim ◽  
Zahid S. Aziz ◽  
Zahraa isam Jameel ◽  
Ruqaya M.J. EWadh
Keyword(s):  
Staphylococcus Aureus ◽  
Genetic Variation ◽  
Random Amplified Polymorphic Dna ◽  
Rapd Fingerprinting ◽  
Fingerprinting Technique ◽  
Different Sources

scholarly journals Application of the Random Amplified Polymorphic DNA (RAPD) Fingerprinting to Analyze Genetic Variation in Community Associated-Methicillin Resistant Staphylococcus Aureus (CA-MRSA) Isolates in Iran

2015 ◽  
Vol 8 (8) ◽  
pp. 185 ◽  
Author(s):  
Sina Mobasherizadeh ◽  
Hasan Shojaei ◽  
Seyed Asghar Havaei ◽  
Kamyar Mostafavizadeh ◽  
Fazollah Davoodabadi ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Laboratory Tests ◽  
Methicillin Resistant Staphylococcus Aureus ◽  
Genetic Relationships ◽  
Random Amplified Polymorphic Dna ◽  
Cost Effective ◽  
Agarose Gel ◽  
Healthy Children ◽  
Rapd Fingerprinting ◽  
Pcr Products

<p>The aim of this study was to apply RAPD technique to analyze the genetic variability among the Iranian CA-MRSA isolates.</p><p>The RAPD amplification was implemented on 25 strains isolated from the anterior nares of 410 healthy children using four randomly selected oligonucleotide primers from the stocks available in our laboratory, including the primers 1254, GE6, OLP6 and OLP13 from our stock. The amplified PCR products were detected on a 1.5% agarose gel and subjected to further analysis to establish the band profiles and genetic relationships using the Gel Compar® program.<strong></strong></p><p>The Iranian CA-MRSA isolates produced distinct RAPD patterns which varied based on the primer used, however, the primer 1254 revealed highly polymorphic patterns consisting 5 discernable RAPD types (RT), “RT1” (12, 48%), “RT2” (8, 32%), “RT3” (3, 12%), and “RT4 and RT5”, (a single RAPD type each, 4%). Phylogenetic analysis based on RAPD profiles divided most of the CA-MRSA isolates into 2 distinct but related RAPD clusters, a small group and two single unrelated RAPD types.</p><p>This study shows that the simple and cost-effective but rather difficult to optimize RAPD fingerprinting could be used to evaluate genetic and epidemiological relationships of CA-MRSA isolates on condition that the patterns are obtained from carefully optimized laboratory tests.</p>

scholarly journals Detection and analysis of genetic variation in Salicornieae (Chenopodiaceae) using random amplified polymorphic DNA (RAPD) markers

Taxon ◽  
1995 ◽  
Vol 44 (1) ◽  
pp. 53-63 ◽  
Author(s):  
T. Luque ◽  
C. Ruiz ◽  
J. Avalos ◽  
I. L. Calderón ◽  
M. E. Figueroa
Keyword(s):  
Genetic Variation ◽  
Rapd Markers ◽  
Random Amplified Polymorphic Dna

Direct comparison of levels of genetic variation in tomato detected by a GACA-containing microsatellite probe and by random amplified polymorphic DNA

Genome ◽  
1994 ◽  
Vol 37 (3) ◽  
pp. 375-381 ◽  
Author(s):  
W. Rus-Kortekaas ◽  
M. J. M. Smulders ◽  
P. Arens ◽  
B. Vosman
Keyword(s):  
Tissue Culture ◽  
Genetic Variation ◽  
Somaclonal Variation ◽  
Random Amplified Polymorphic Dna ◽  
Dna Fingerprint ◽  
Pairwise Comparisons ◽  
Lycopersicon Pennellii ◽  
Lycopersicon Species ◽  
Polymorphic Bands ◽  
Simple Sequence

In this study, a direct comparison was made of the ability of four selected random amplified polymorphic DNA (RAPD) primers and a GACA-containing microsatellite probe to detect genetic variation in Lycopersicon. Of the 89 RAPD primers initially tested, 85 showed differences between a representative of Lycopersicon pennellii and L. esculentum, but only 4 distinguished among three L. esculentum cultivars. These four primers were subsequently tested on representatives of six Lycopersicon species. In pairwise comparisons of species, all or 14 of the 15 combinations could be distinguished by single primers. When the primers were tested on 15 L. esculentum cultivars, 90 of the 105 combinations could be distinguished by the four primers together. Finally, none of 118 tested primers showed reproducible differences among calli or progeny of régénérants from tissue culture, although some of the plants had inherited morphological mutations. The probe pWVA16, which detects GACA-containing microsatellites, could distinguish in TaqI-digested DNA the representatives of Lycopersicon species as well as all the L. esculentum cultivars tested. The probe was unable to detect polymorphisms among calli and the progeny of regenerants from tissue culture. An analysis of the results showed that the four selected RAPD primers were able to detect polymorphic bands among species at a frequency of 80%, and among cultivars at a frequency of 44%. In contrast, the microsatellite probe detected polymorphic bands at a frequency of 100 and 95%, respectively. The GACA-containing probe did not detect any common bands among the representatives of the six species, while band sharing with RAPDs was 48%. These results indicate that the two methods detect two types of DNA that differ in their degree of variability.Key words: DNA fingerprint, RAPD, simple sequence, somaclonal variation, tissue culture.

scholarly journals Dissemination of Two Methicillin-Resistant Staphylococcus aureus Clones Exhibiting Negative Staphylase Reactions in Intensive Care Units

1999 ◽  
Vol 37 (3) ◽  
pp. 504-509 ◽  
Author(s):  
Po-Ren Hsueh ◽  
Lee-Jene Teng ◽  
Pan-Chyr Yang ◽  
Hui-Ju Pan ◽  
Yu-Chi Chen ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Intensive Care ◽  
Intensive Care Units ◽  
Random Amplified Polymorphic Dna ◽  
Cellular Fatty Acid ◽  
University Hospital ◽  
Methicillin Resistant ◽  
Type Iv ◽  
Routine Identification ◽  
Arbitrarily Primed Pcr

From December 1997 to March 1998, 25 methicillin-resistantStaphylococcus aureus (MRSA) isolates exhibiting negative Staphylase (Oxoid Ltd., Basingstoke, England) reactions were identified from various clinical specimens from 13 patients in six intensive care units (ICUs) or in wards following a stay in an ICU at the National Taiwan University Hospital. The characteristics of these isolates have not been previously noted in other MRSA isolates from this hospital. Colonies of all these isolates were grown on Trypticase soy agar supplemented with 5% sheep blood and were nonhemolytic and unpigmented. Seven isolates, initially reported as Staphylococcus haemolyticus (5 isolates) and Staphylococcus epidermidis (2 isolates) by the routine identification scheme and with the Vitek GPI system (bioMerieux Vitek, Inc., Hazelwood, Mo.), were subsequently identified as S. aureus by positive tube coagulase tests, standard biochemical reactions, and characteristic cellular fatty acid chromatograms. The antibiotypes obtained by the E test, coagulase types, restriction fragment length polymorphism profiles of the staphylococcal coagulase gene, and random amplified polymorphic DNA patterns generated by arbitrarily primed PCR of the isolates disclosed that two major clones disseminated in the ICUs. Clone 1 (16 isolates) was resistant to clindamycin and was susceptible to trimethoprim-sulfamethoxazole (TMP-SMZ) and was coagulase type II. Clone 2 (eight isolates) was resistant to clindamycin and TMP-SMZ and was coagulase type IV. These two epidemic clones from ICUs are unique and underline the need for caution in identifying MRSA strains with colonial morphologies not of the typical type and with negative Staphylase reactions.

scholarly journals Isolation of Enterococcus Species from Food Sources and Its Antibacterial Activity against Staphylococcus Aureus

2020 ◽  
pp. 3164-3171
Author(s):  
Andalus S. Atiyah ◽  
Marwa H. Alkhafaji
Keyword(s):  
Staphylococcus Aureus ◽  
Antibacterial Activity ◽  
Dairy Products ◽  
Food Samples ◽  
Food Sources ◽  
Enterococcus Spp ◽  
Microbial Defense ◽  
Prevalent Species ◽  
Different Sources ◽  
By Products

The microbial production of substances that have the ability to inhibit the growth of other microorganisms is possibly the most common defense strategy developed in nature. Microorganisms produce a variable collection of microbial defense systems, which include antibiotics, metabolic by-products, lytic agents, bacteriocins and others. The aim of the present study was to isolate and identify Enterococcus spp. and  its most prevalent species from food samples and determine its antibacterial activity against Staphylococcus aureus isolates. A total of 50 food samples from different sources (dairy products (20 samples) and vegetables and fish (15 samples each)) were collected from different local markets in Baghdad and cultured. Enterococcus spp were isolated from only 32 food samples. E. faecium was the most predominant species which was recovered from 20 samples (62.5 %), 10 dairies, 7 vegetables, and 2 fish. E. faecalis was found in 8 samples (25 %), 5 vegetables and 3 fish.  E. avium was recovered 6.25% as well as E. gallinarium (2 samples for each) Enterococcus avium were all isolated from dairy products but Enterococcus gallinarium one sample isolated from dairies and the other from fish. This study indicates the presence of Enterococcus spp. in the food samples and the ability of these bacteria to produce antibacterial substances which are active against closely related clinical isolates.

scholarly journals Human genetic variation in GLS2 is associated with development of complicated Staphylococcus aureus bacteremia

PLoS Genetics ◽  
2018 ◽  
Vol 14 (10) ◽  
pp. e1007667 ◽  
Author(s):  
William K. Scott ◽  
Felix Mba Medie ◽  
Felicia Ruffin ◽  
Batu K. Sharma-Kuinkel ◽  
Derek D. Cyr ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Genetic Variation ◽  
Human Genetic Variation ◽  
Staphylococcus Aureus Bacteremia

scholarly journals Clonality Analysis ofHelicobacter pyloriin Patients Isolated from Several Biopsy Specimens and Gastric Juice in a Japanese Urban Population by Random Amplified Polymorphic DNA Fingerprinting

2013 ◽  
Vol 2013 ◽  
pp. 1-6 ◽  
Author(s):  
Nariaki Toita ◽  
Shin-ichi Yokota ◽  
Nobuhiro Fujii ◽  
Mutsuko Konno
Keyword(s):  
Gastric Juice ◽  
Urban Population ◽  
Random Amplified Polymorphic Dna ◽  
Clonal Diversity ◽  
Japanese Patients ◽  
Upper Gastrointestinal Endoscopy ◽  
Rapd Fingerprinting ◽  
Biopsy Specimens ◽  
Single Host ◽  
H Pylori

Background. The number ofHelicobacter pyloriclones infecting a single host has been discussed in numerous reports. The number has been suggested to vary depending on the regions in the world.Aim. The purpose of this study was to examine the number of clones infecting a single host in a Japanese urban population.Materials and Methods. Thirty-one Japanese patients undergoing upper gastrointestinal endoscopy were enrolled in this study.H. pyloriisolates (total 104 strains) were obtained from biopsy specimens (antrum, corpus, and duodenum) and gastric juice. Clonal diversity was examined by the random amplified polymorphic DNA (RAPD) fingerprinting method.Results. The RAPD fingerprinting patterns of isolates from each patient were identical or very similar. And the isolates obtained from several patients with 5- to 9-year intervals showed identical or very similar RAPD patterns.Conclusion. Each Japanese individual of an urban population is predominantly infected with a singleH. pyloriclone.

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