This media is currently being used in a largescale epidemiological study to genotype. Use of rep repetitive extragenic palindromic and enterobacterial repetitive intergenic consensus sequences and the polymerase chain reaction to fingerprint the genomes of rhizobium meliloti. Repetitive extragenic palindromic reppcr and enterobacterial repetitive. Read specificity of enterobacterial repetitive intergenic consensus and repetitive extragenic palindromic polymerase chain reaction for the detection of clonality within the enterobacter cloacae complex, diagnostic microbiology and infectious disease on deepdyve, the largest online rental service for scholarly research with thousands of academic publications available at your fingertips. Typing of ochrobactrum anthropi clinical isolates using automated repetitive extragenic palindromicpolymerase chain reaction dna fingerprinting and matrixassisted laser desorptionionizationtimeofflight mass spectrometry, bmc microbiology, 2014, pp. Evaluation of repetitive extragenic palindromicpolymerase chain reaction and denatured gradient gel electrophoresis in identifying salmonella. Pcr in differentiating fecal escherichia coli isolates of human, domestic. Repetitive sequencebased pcr reppcr dna fingerprinting.
It is repetitive extragenic palindromic sequence polymerase chain reaction. Comparison of repetitive extragenic palindromic sequencebased pcr with pcr ribotyping and pulsedfield gel. Reppcr is defined as repetitive extragenic palindromic sequence polymerase chain reaction genetics very rarely. Polymerase chain reaction based techniques such as denaturing gradient gel electrophoresis dgge. Lanes m show dna reference marker sizes gibco brl in. Repetitive extragenic palindromicpolymerase chain reaction reppcr uses oligo primers with the conserved rep sequences originally found in escherichia coli. Several studies have shown that reppcr has the ability to fingerprint strains of escherichia coli and k. This media is currently being used in a largescale epidemiological study to genotype sm using repetitive extragenic palindromic pcr reppcr.
The function of rep elements is not completely determined but there are important processes in which rep sequences are involved. Synthetic repetitive extragenic palindromic rep sequence. Use of repetitive sequences and the polymerase chain reaction. Repetitive extragenic palindromic sequence polymerase chain. Repetitive extragenic palindromic pcr for study of. Utility of wholecell repetitive extragenic palindromic. Fingerprinting analyses by automated repetitive extragenic palindromic polymerase chain reaction reppcr and matrixassisted laser desorptionionizationtime of flight malditof mass spectrometry are also compared. Bacterial repetitive extragenic palindromic sequences are. Subtyping of clostridium difficile polymerase chain. To study the genetic diversity, we analysed molecular data from 79 singlespore isolates of the p. Bacterial repetitive extragenic palindromes reps compose a distinct group of genomic repeats.
To analyze the mechanism by which the pora deletion occurred, the regions upstream and downstream of pora from three meningococcal strains h4476, h355, and 860183. The three methods used were repetitive extragenic palindromic elements rep. Feb 01, 2011 read comparison of repetitive extragenic palindromic sequence. Molecular epidemiological analysis and risk factors for. Evaluation of repetitive extragenic palindromic polymerase chain reaction and denatured gradient gel electrophoresis in identifying salmonella serotypes isolated from processed turkeys.
Repetitive element palindromic pcr reppcr as a genetic. How is repetitive extragenic palindromic sequence polymerase chain reaction genetics abbreviated. Original article multilocus sequence typing mlst and. Reppcr is a wellknown fast and reproducible method to distinguish closely related organisms on the basis of dna diversity 17. Subtyping of clostridium difficile polymerase chain reaction pcr ribotype 001 by repetitive extragenic palindromic pcr genomic fingerprinting article in journal of hospital infection 601.
Thedistribution ofdispersed repetitive dna repetitive extragenic palindromic rep andenterobacterial repetitive intergenic consensus eric sequences in the genomes ofa numberofgramnegative soil bacteria was examined by using conserved primers corresponding to repand ericsequences and the polymerase chainreaction pcr. Detection of coliform bacteria in water by polymerase chain reaction and. Tajabadi ebrahimi 2 abstract tarkhineh is one of the traditional foods in iran and a rich source of probiotic bacteria. To compare repetitive sequencebased polymerase chain reaction. The three methods used were repetitive extragenic palindromic elements rep, conserved repetitive dna elements box, and. The distribution of dispersed repetitive dna repetitive extragenic palindromic rep. Pcr products generated from the second and the third set of reactions yielded. They usually occur in high abundance 100 copiesgenome and are often arranged in composite repetitive structures bacterial interspersed mosaic elements bimes. Pcr, as epidemiological tools with which to discriminate among genetically distinct strains within two bacterial fish pathogens, pseudomonas anguilliseptica and aeromonas salmonicida. Fifty isolates of the most common uk strain of clostridium difficile polymerase chain reaction pcr ribotype 001 were analysed by three pcrbased typing methods in order to determine genomic diversity within this strain that may form the basis of a subtyping method. In the present study, we compared an automated repetitive extragenic palindromic sequencebased pcr reppcr.
Repetitive extragenic palindromic polymerase chain reaction reppcr dna was isolated with an ultraclean microbial dna isolation kit mobio, san diego, ca, usa and used for experiments with the enterobacter spp. Understand the principles of the polymerase chain reaction. Within the pcr ribotype 001 isolates, repetitive extragenic palindromic sequencebased pcr allows the identification of four subgroups sub. Molecular and epidemiological analysis of nosocomial. Evaluation of uvc induced changes in escherichia coli dna using repetitive extragenic palindromicpolymerase chain reaction reppcr. Evaluation of repetitive element sequencebased pcr as a. Comparison of pulsed field gel electrophoresis and repetitive sequence polymerase chain reaction as genotyping methods for detection of genetic diversity and. However, pora negative meningococci were isolated from patients, thereby potentially limiting the role of poramediated immunity. Repetitive extragenic palindromic polymerase chain reaction reppcr uses oligo primers with the conserved rep sequences originally found in escherichia coli. Dna fingerprinting of thermophilic lactic acid bacteria. Ercolini, 2004, repetitive extragenic palindromic pcr reppcr. Repetitive extragenic palindromicpcr reppcr pcr primer is designed complementary to interspersed palindromic repetitive sequences. The repetitive extragenic palindromic rep sequence, also known as the palindrome unit, is a potential regulatory sequence located in the untranslated operon region based on its palindromic properties and the fact that the transcribed rna can form a stable stem. Considering that there are a sufficient number of available genomes with described reps, and exploiting the advantage of.
Thus, reliable typing methods for epidemic control are needed. The term rep sequences encompasses repetitive and palindromic sequences with a length between 21 and 65 bases detected in the extragenic space of some bacterial genomes. Mitis salivarius with bacitracin msb, golds is a selective media commonly used for the isolation of streptococcus mutans sm, an organism associated with dental caries. Use of repetitive sequences and the polymerase chain reaction technique to. Primers directed at the repetitive extragenic palindromic element were used to characterize isolates of legioneula pneumophila. Typing of ochrobactrum anthropi clinical isolates using. Polymerase chain reaction amplification of repetitive. Repetitive extragenic palindromic pcr reppcr pcr primer is designed complementary to interspersed palindromic repetitive sequences. Rapd 6, 25, 30, and repetitive extragenomic palindromic elementspolymerase chain reaction reppcr, are used as reliable techniques compared to the highly inaccurate and timeconsuming. Use of repetitive sequences and the polymerase chain reaction to fingerprint the genomic dna of rhizobium galegae strains and to identify the dna obtained by sonicating the liquid cultures and root nodules.
Application of repetitive extragenic palindromic elements. Deletion of pora by recombination between clusters of. Detection of multiple strains of pasteurella multocida in. Primers directed at the repetitive extragenic palindromic element were used to characterize isolates of legioneula.
Comparison of repetitive extragenic palindromic sequence. The polymerase chain reaction pcr, first envisaged in 1984 by kary mullis, has revolutionized life sciences and has become an essential technique in many aspects of science, including clinical diagnostics, forensics and genetic engineering. Evaluation of repetitive extragenic palindromicpolymerase chain reaction and denatured gradient gel electrophoresis in identifying salmonella serotypes isolated from processed turkeys. The obtained results suggest high heterogeneity of soybean microsymbionts. Molecular typing of klebsiella pneumoniae isolates using. Reppcr repetitive extragenic palindromic sequence polymerase chain reaction. The distribution of dispersed repetitive dna repetitive extragenic palindromic rep and enterobacterial repetitive intergenic consensus eric sequences in the genomes of a number of gramnegative soil bacteria was examined by using conserved primers corresponding to rep and eric sequences and the polymerase chain reaction pcr. Reppcr has been successfully applied to strain typing both grampositive. Subtyping of clostridium difficile polymerase chain reaction. We have determined that repetitive repetitive extragenic palindromic rep and enterobacterial repetitive intergenic consensus eric sequences used in conjunction with the polymerase chain reaction technique rep and eric pcr provide an effective means of differentiating between and classifying genetically related bradyrhizobium japonicum serocluster 123 strains. Get a printable copy pdf file of the complete article 2. Pdf evaluation of uvc induced changes in escherichia coli.
Repetitive extragenic palindromic pcr reppcr is less timeconsuming and more suitable for analyzing large numbers of bacterial strains in human populations. Pdf application of repetitive extragenic palindromic elements. Pulsedfield gel electrophoresis pfge is considered the gold standard for molecular epidemiological study. Repetitive extragenic palindromic reppcr and enterobacterial repetitive intergenic consensus ericpcr analysis was applied to the identification and. Repetitive extragenic palindromic sequence polymerase. Pora is an important component in a vaccine against infection with neisseria meningitidis. All study isolates belonging to genetic clusters iii and vi were selected to evaluate the specificity of the enterobacterial repetitive intergenic consensus eric and repetitive extragenic palindromic rep polymerase chain reaction pcr for the identification of clonal isolates belonging to the e. Evaluation of repetitive element sequencebased pcr as a molecular typing method for clostridium difficile. Use of repetitive sequences and the polymerase chain. The reppcr repetitive element palindromicpolymerase chain reaction.
Evaluation of repetitive extragenic palindromicpolymerase. It has been established that all studied strains are able to form active symbiotic relationships with soybean. African journal of biotechnology dna fingerprinting of. The aim of this study was to evaluate the use of two molecular techniques, repetitive extragenic palindromic polymerase chain reaction rep. The study used the repetitive extragenic palindromic elementspolymerase chain reaction protocol to fingerprinting dna sequence diversity. Fingerprinting analyses by automated repetitive extragenic palindromicpolymerase chain reaction rep.
Thedistribution ofdispersed repetitive dnarepetitive extragenic palindromic rep andenterobacterial repetitive intergenic consensus eric sequences in the genomes ofa numberofgramnegative soil bacteria was examined by using conserved primers corresponding to repand ericsequences and the polymerase chainreaction pcr. The objective of this study was to investigate the potential of repetitive extragenic palindromic anchored polymerase chain reaction rep. Mobile elements are involved in genomic rearrangements and virulence acquisition, and hence, are important elements in bacterial genome evolution. This study was conducted to determine the esbl production and prevalence of blactxm1, blashv and blatem and ampc genes and repetitive extragenic palindromic polymerase chain reaction reppcr pattern among klebsiella pneumoniae isolates in. Osf repetitive extragenic palindromic pcr reppcr of oral. Application of repetitive extragenic palindromic reppcr and. Repetitive element pcr journal of clinical microbiology asm. Use of repetitive repetitive extragenic palindromic and enterobacterial repetitive intergeneric consensus sequences and the polymerase chain reaction to fingerprint the genomes of rhizobium meliloti isolates and other soil bacteria. Emergence of a new antibiotic resistance mechanism in india, pakistan, and the.
For example, the repetitive extragenic palindromic rep elements are 38bp. Pdf use of rep repetitive extragenic palindromic and. Sep 01, 2005 read specificity of enterobacterial repetitive intergenic consensus and repetitive extragenic palindromic polymerase chain reaction for the detection of clonality within the enterobacter cloacae complex, diagnostic microbiology and infectious disease on deepdyve, the largest online rental service for scholarly research with thousands of academic publications available at your fingertips. Pdf evaluation of uvc induced changes in escherichia. Pfge and reppcr provide comparable genotyping results for investigating streptococcus mutans diversity and transmission. Bacterial repetitive extragenic palindromic sequences are dna. Utility of wholecell repetitive extragenic palindromic sequencebased pcr. In the present study, we compared an automated repetitive extragenic palindromic sequencebased pcr reppcr method diversilab. Pcr, as epidemiological tools with which to discriminate among genetically distinct strains within two bacterial fish pathogens, pseudomonas.
Typing of listeria monocytogenes strains by repetitive. The initial discovery of repetitive extragenic palindromic rep elements occurred in. Use of repetitive repetitive extragenic palindromic and. Diversity of pseudomonas strains isolated with kings b and. Read comparison of repetitive extragenic palindromic sequence. Repetitive sequence based polymerase chain reaction reppcr technique has been devised for characterization of bacteria and is widely employed to distinguish species, strains, serotypes, among others. Reppcr stands for repetitive extragenic palindromic sequence polymerase chain reaction genetics. Utility of wholecell repetitive extragenic palindromic sequence. This study was conducted to determine the esbl production and prevalence of blactxm1, blashv and blatem and ampc genes and repetitive extragenic palindromic polymerase chain reaction reppcr pattern among klebsiella. Diversity of pseudomonas strains isolated with kings b.
Repetitive extragenic palindromic sequencebased reppcr profiles of the pcr ribotype 001 isolates. Request pdf use of repetitive element palindromic pcr reppcr for the. Listeria monocytogenes strains possess short repetitive extragenic palindromic rep elements and enterobacterial repetitive intergenic consensus eric sequences. We used repetitive element sequencebased pcr reppcr to evaluate the potential of rep and eric elements for typing l. Specificity of enterobacterial repetitive intergenic. Infections with carbapenemresistant enterobacteria are an emerging threat. Repetitive sequencebased pcr reppcr dna fingerprinting of. Osf repetitive extragenic palindromic pcr reppcr of. Multilocus sequence typing mlst and repetitive extragenic palindromic polymerase chain reaction reppcr, characterization of shigella spp. In bimes, regularly spaced reps are present in alternating orientations.
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