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Molecular Typing Methods (molecular typing + methods)
Selected AbstractsMolecular typing and epidemiology of non-polio enteroviruses isolated from Yunnan Province, the People's Republic of ChinaJOURNAL OF MEDICAL VIROLOGY, Issue 4 2008Tian Bingjun Abstract This report presents an overview of human enteroviruses in Yunnan Province, the People's Republic of China. A total of 210 non-polioviruses isolated under acute flaccid paralysis (AFP) surveillance during a total study period of 5 years,1997 to 2000 and 2004,were examined. Of the 210 non-poliovirus isolates, 12 adenoviruses were serologically identified, and the remaining 198 isolates were used for molecular typing. The viral genomes of 195 non-polio enteroviruses (NPEVs) on VP1 partial region of virus capsid were translated to the corresponding amino acid sequences; these were compared with those of prototype strains. Based on molecular typing, 5 isolates were classified into 5 serotypes of the human enterovirus A species, 158 isolates, into 35 serotypes of the human enterovirus B species; and 32 isolates, into 6 serotypes of the human enterovirus C species. Viruses belonging to the human enterovirus D species were not isolated. Thus, under AFP surveillance, the human enterovirus B species accounted for 75.2% of the 210 isolates, and it was considered the predominant species. This was followed by human enterovirus C (12.2%), adenovirus (5.7%), and human enterovirus A (2.4%). Further, molecular analysis suggested that several serotypes of human enteroviruses B and C that exhibited genetic polymorphism were indigenous. Molecular typing methods may aid in understanding the epidemiology of NPEVs in Yunnan Province. J. Med. Virol. 80:670,679, 2008. © 2008 Wiley-Liss, Inc. [source] Tracing Salmonella in Alheira processing plantsJOURNAL OF APPLIED MICROBIOLOGY, Issue 1 2007A. Esteves Abstract Aims:, To investigate the sources of Salmonella spp. in Alheira and how to trace it, by studying the way that Salmonella spp. is distributed across production lines, by applying multifactorial correspondence analysis to occurrence data, and through the use of polymerase chain reaction (PCR) molecular typing methods. Methods and Results:, Four production lines, four batches of Alheira and 14 sampling sites were analysed over four sampling periods. Eighty-five Salmonella spp. isolates were obtained from the 896 microbial analyses performed. The basic occurrence analysis values, multiple correspondence analysis and PCR molecular typing methods confirmed that the presence of Salmonella spp. in Alheira was directly related to it being present in casings. Results obtained from PCR molecular typing added a measure of detail, highlighting potential cross-path contamination caused by contaminated surfaces. Conclusions:, The presence of Salmonella spp. in Alheira was a result of the use of contaminated casings, as well as cross-path contamination caused by contaminated surfaces. An analysis of the occurrence data indicated that these casings were the source of Salmonella spp. contamination in Alheira. PCR molecular typing methodology, which is known to have a greater discriminatory power and tracing capacity, indicated the presence of cross-path contamination. Significance and Impact of this Study:, Increased awareness of Salmonella spp. contamination sources and their spread across the production line helps shape the development of new strategies for controlling this pathogen. [source] Comparative genomic analysis of European and Middle Eastern community-associated methicillin-resistant Staphylococcus aureus (CC80:ST80-IV) isolates by high-density microarrayCLINICAL MICROBIOLOGY AND INFECTION, Issue 8 2009R. V. Goering Abstract Infections as a result of community-associated methicillin-resistant Staphylococcus aureus (CA-MRSA) are an issue of increasing global healthcare concern. In Europe, this principally involves strains of multi-locus sequence type clonal complex 80 sequence type 80 with methicillin resistance in a staphylococcal chromosomal cassette (SCCmec) type IV arrangement (CC80:ST80-IV). As with other CA-MRSA strains, CC80:ST80-IV isolates tend to appear uniform when analysed by common molecular typing methods (e.g. pulsed field gel electrophoresis, multi-locus sequence type, SCCmec). To explore whether DNA sequence-based differences exist, we compared the genetic composition of six CC80:ST80-IV isolates of diverse chronological and geographic origin (i.e. Denmark and the Middle East) using an Affymetrix high-density microarray that was previously used to analyse CA-MRSA USA300 isolates. The results revealed a high degree of homology despite the diversity in isolation date and origin, with isolate differences primarily in conserved hypothetical open reading frames and intergenic sequences, but also including regions of known function. This included the confirmed loss of SCCmec recombinase genes in two Danish isolates representing potentially new SCCmec types. Microarray analysis grouped the six isolates into three relatedness pairs, also identified by pulsed field gel electrophoresis, which were consistent with both the clinical and molecular data. [source] Laboratory tools and strategies for methicillin-resistant Staphylococcus aureus screening, surveillance and typing: state of the art and unmet needsCLINICAL MICROBIOLOGY AND INFECTION, Issue 2 2009M. J. Struelens Abstract The public health burden caused by methicillin-resistant Staphylococcus aureus (MRSA) infections is now widely recognized, and is a cause of public alarm. Effective MRSA risk management in the healthcare system as well as in the community should rely on accurate detection of reservoirs and sources of transmission, as well as on close monitoring of the impact of interventions on disease incidence and bacterial dissemination. MRSA carrier screening and disease surveillance, coupled with molecular typing, are key information tools for integrated MRSA control and individual risk assessment. These tools should be tailored to the distinct needs of local interventions and national prevention programmes. Surveillance schemes should primarily inform local staff and serve as quality assurance about MRSA risk management. New technologies, including the use of selective culture media and real-time PCR assays, allow faster detection of MRSA carriers upon admission or during stay in healthcare institutions. More research is needed to ascertain their cost-effectiveness for MRSA control. Likewise, tremendous progress has been made concerning molecular typing methods, with optimization and standardization of sequence-based technologies offering broad applicability and high throughput. However, no single S. aureus typing method is yet providing fully reliable information within the range of discrimination needed for public health action. Further refinement of genotyping methods and international harmonization of surveillance and typing schemes must be achieved to facilitate global MRSA control. [source] | ||||||||||