Pulsed-field gel electMultilocusPathogensIsolatesStrainsWhole genomeGenesMolecularEpidemiologicalSpeciesMethodsInfectionsDiscriminativeProteinsZoonoticSpecimenDifferencesBacteriaDetectionInteractionsAureusPneumoniaeCampylobacterResultsPredictMechanismsMigrationAnalysisPreviouslyLaboratoryClinicalContentWild-typeProceduresResolution
Pulsed-field gel elect6
- The isolates were analyzed by using pulsed-field gel electrophoresis, multilocus sequence typing, and sequencing of the szP gene. (cdc.gov)
- Also various molecular typing techniques have been used, including pulsed-field gel electrophoresis (PFGE) and multilocus sequence typing (MLST), and these assays were considered as efficient techniques in MRSA typing but they are time consuming, expensive, and technically complex [ 8 ]. (hindawi.com)
- Pulsed-field gel electrophoresis, or PFGE, is a DNA-based typing technique that is highly discriminatory and has been used in epidemiological investigations of S. zooepidemicus outbreaks. (cdc.gov)
- Pulsed-field gel electrophoresis (PFGE) is a highly discriminative molecular typing technique that is used in epidemiological studies worldwide. (applied-maths.com)
- Today, the most widely used typing methods for bacterial genomes include multilocus sequence typing (MLST), pulsed field gel electrophoresis (PFGE), sequencing of 16S rRNA genes, and multilocus variable-number of tandem-repeat analysis (MLVA). (biomedcentral.com)
- Furthermore, comparison of WGS-based typing results with previously obtained MLST and pulsed-field gel electrophoresis (PFGE) data showed some differences, demonstrating the different molecular principles underlying these techniques. (hal.science)
Multilocus5
- For this study, we applied four different whole genome sequencing (WGS)-based subtyping methods: high quality single-nucleotide polymorphism (hqSNP) analysis, whole genome multilocus sequence typing using either all loci [wgMLST (all loci)] and only chromosome-associated loci [wgMLST (chrom)], and core genome multilocus sequence typing (cgMLST) to a dataset of isolate sequences from 9 well-characterized Salmonella outbreaks. (cdc.gov)
- In July 2021, the Colorado Department of Public Health and Environment (CDPHE) laboratory identified a cluster of five Salmonella enterica serotype Thompson isolates related to one another within one allele difference, using whole genome multilocus sequence typing (wgMLST). (cdc.gov)
- Through using multilocus sequence typing and 16S rDNA sequencing we further strengthen the link between the CSF case isolate and the RPA carriage isolate. (cdc.gov)
- While rep-PCR was more discriminating, hsp60 sequencing provided a broader and a more objective geographical tracking method similar to multilocus sequence typing (MLST). (paijournal.com)
- Core-genome multilocus sequence typing (cgMLST) schemes from Institut Pasteur's BIGSdb-Kp (634 genes) and SeqSphere+ (2,365 genes), and a SeqSphere+ whole-genome MLST (wgMLST) scheme (4,891 genes) were used. (hal.science)
Pathogens4
- S. pneumoniae, cytomegalovirus and Candida albicans were the most common bacterial, viral and fungal pathogens. (bvsalud.org)
- The implementation of PFGE in international surveillance networks , such as PulseNet , and the availability of standardized protocols for important foodborne pathogens ( E. coli , Listeria , Campylobacter , …) have facilitated the adoption of this technique. (applied-maths.com)
- Rapid and reliable sub-typing of bacterial pathogens is important for identification of outbreaks and monitoring of trends in order to establish population structure and to study the evolution among bacterial genomes especially within and between the outbreak strains. (biomedcentral.com)
- 1. Ranjbar R, Karami A, Farshad S, Giammanco GM, Mammina C. Typing methods used in the molecular epidemiology of microbial pathogens: a how-to guide. (paijournal.com)
Isolates14
- Molecular typing methods showed that human and equine isolates were identical or closely related. (cdc.gov)
- Comparison ("typing" or "fingerprinting") of epidemiologically related isolates helps to determine whether these organisms are related or not and thus essential to confirm the existence of an outbreak. (isid.org)
- Typing of isolates is useful during outbreaks to determine the prevalence and mode of spread of strains and to identify reservoirs and carriers. (isid.org)
- The identified isolates were tested by Coagulase gene RFLP typing. (hindawi.com)
- Out of 58 MRSA isolates 15 coa types were classified, and the amplification products showed multiple bands (1, 2, 3, 4, 5, and 8 bands). (hindawi.com)
- We determined antimicrobial susceptibility profiles of Campylobacter isolates in order to predict which bacterial population will be resistant, caused by antimicrobial selective pressure administered to the host. (usherbrooke.ca)
- Only MLST has the potential to link isolates to a particular ecological niche, such as chicken, raw milk and water. (usherbrooke.ca)
- In addition, the conserved genes in general appear to evolve more slowly, and can be used for determining relationships among bacterial isolates [ 13 ]. (biomedcentral.com)
- Neither isolates nor CSF specimens were available from the third case patient who was treated presumptively for bacterial meningitis without specimen collection. (cdc.gov)
- Molecular typing using repetitive sequenced-based PCR (rep-PCR) and hsp60 sequencing were applied to a collection of diverse Enterobacter cloacae complex isolates. (paijournal.com)
- The isolates were typed by PFGE and MLST, followed by sequencing of blaOXY genes. (pasteur.fr)
- MLST and PFGE distinguished 34 STs and 47 pulsotypes among the isolates, respectively. (pasteur.fr)
- We included isolates from the predominant sequence type ST405 (n = 31) OXA-48-producing K. pneumoniae clone and isolates from ST101 (n = 3), ST14 (n = 1), ST17 (n = 1), and ST1233 (n = 1), obtained from eight Catalan hospitals. (hal.science)
- The phylogenetic analysis grouped the K. pneumoniae isolates into 4 clusters, showing correlation in clusters I, II and IV, when comparing the genetic profiles with the type of sample and group of genes. (bvsalud.org)
Strains2
- The aim of this study was to use coa gene polymorphism to identify MRSA subtypes isolated from nasal carriers in Minia governorate, Upper Egypt, evaluate the efficiency of these typing methods in discriminating variable strains, and compare these subtypes with antibiotypes. (hindawi.com)
- Next, we determined the binding capability of specific monoclonal antibody (mAb) 2D11 using a unique set of wild-type GII.17 strains. (bvsalud.org)
Whole genome4
- Technological advances in high throughput genome sequencing are making whole genome sequencing (WGS) available as a routine tool for bacterial typing. (biomedcentral.com)
- We identify a set of 2,882 core genes clusters based on 73 publicly available Salmonella enterica genomes and evaluate their value as typing targets, comparing whole genome typing and traditional methods such as 16S and MLST. (biomedcentral.com)
- The price and time for whole genome sequencing will soon be in the same range as the traditional typing methods mentioned above. (biomedcentral.com)
- Whole-genome sequencing (WGS)-based typing methods have emerged as promising and highly discriminative epidemiological tools. (hal.science)
Genes8
- Genomic variation within the core genome is useful for investigating molecular evolution and providing candidate genes for bacterial genome typing. (biomedcentral.com)
- Conserved genes are present across bacterial genomes of the same species (or genus). (biomedcentral.com)
- A fraction of these genes--those conserved in all (or most) of the genomes of a given bacterial taxonomic group--is called the 'core-genome' of that group. (biomedcentral.com)
- Objetivo: Identificar y caracterizar los genes blaCTX-M-Grupo1 y blaCTX-M-Grupo9 en aislados de K. pneumoniae resistentes a ceftazidima en un hospital de San José de Cúcuta, Colombia. (bvsalud.org)
- Material y Método: Se diseñaron partidores para la identificación de K. pneumoniae y los genes blaCTX-M mediante reacción de polimerasa en cadena (RPC). (bvsalud.org)
- El análisis filogenético agrupó los aislados de K. pneumoniae en cuatro clusters, mostrando correlación en los clusters I, II y IV, al comparar los perfiles genéticos con el tipo de muestra y grupo de genes. (bvsalud.org)
- Discusión: Se encontró una frecuencia similar de los genes blaCTX-M-Grupo1 y blaCTX-M-Grupo 9 en aislados de K. pneumoniae resistentes a ceftazidima. (bvsalud.org)
- sin embargo, presentó cinco de los seis genes de virulencia presentes en la isla de patogenicidad homóloga denominada VPaI-7 del V. parahaemolyticus (vcs N2+, vcs C2+, vcs V2+,toxR-, vspD+, T vopF+). (bvsalud.org)
Molecular4
- Also called a molecular test, this COVID-19 test detects genetic material of the virus using a lab technique called polymerase chain reaction (PCR). (thebearing.net)
- In order to determine which molecular typing method will be the most relevant for our research design, we compared four typing methods (AFLP, MLST,/7a typing and PFGE). (usherbrooke.ca)
- How to Select and Interpret Molecular Strain Typing Methods for Epidemiological Studies of Bacterial Infections: A Review for Healthcare Epidemiologists. (paijournal.com)
- This spatially resolved transcriptomic data has been shown to improve our ability to identify cell types, infer cell-cell interactions, and study the organization of tissues and organs at a molecular level. (gatech.edu)
Epidemiological1
- Furthermore, threshold parameters in WGS-based typing methods should be applied with caution and should be used in combination with clinical epidemiological data and population and species characteristics. (hal.science)
Species2
- Currently there are more than a hundred bacterial species for which sufficient genomic data are available to estimate the species core-genome (that is, there are at least three genomes sequenced from the same species) [ 14 ]. (biomedcentral.com)
- MLST highlights weird spanning of any species and times can like listed misidentified on plot systems which am Naturally key from finite degrees economics. (kpschroeck.de)
Methods2
- Although more recent typing methods are available, PFGE is still the gold standard in many national and international surveillance programs. (applied-maths.com)
- In conclusion, the use of the different WGS-based typing methods that were used to elucidate the genetic relatedness of clonal OXA-48-producing K. pneumoniae all led to the same conclusions. (hal.science)
Infections3
- Common infections in children with LRTI were bacterial, viral and mixed bacterial-viral infections. (bvsalud.org)
- Le but de mon projet de recherche était d'étudier l'épidémiologie clinique et moléculaire des infections à Campylobacter en Estrie afin de déterminer les principales sources d'infections sporadiques et de comparer les génotypes des isolats de Campylobacter selon les différentes niches écologiques. (usherbrooke.ca)
- Several structural and secreted virulence factors play a role in S. aureus infections, which are multifactorial and depend on bacterial adherence and biofilm formation. (biomedcentral.com)
Discriminative1
- In addition, we suggest that MLST may have higher discriminative power compared to hsp60 sequencing, although rep-PCR remains the most discriminative method for local outbreak investigations. (paijournal.com)
Proteins1
- The hydrophobic and hydrophilic properties result from proteins and polysaccharides on the bacterial cell surface. (creative-biolabs.com)
Zoonotic1
- Salmonella enterica is a leading cause of bacterial foodborne and zoonotic illnesses in the United States. (cdc.gov)
Specimen1
- Use aseptic technique to collect the specimen using a facility approved collection device. (cdc.gov)
Differences1
- Nevertheless, they observed the induction of an RpoE-mediated stress response, whilst we observed a Cpx-mediated stress response, emphasising the differences between the two types of mutations/organisms. (dehydrogenase-signal.com)
Bacteria3
- Once S. aureus adheres to host tissues, it can form biofilms, which enable its persistence by allowing bacteria to evade host defences, impeding access to certain types of immune cells, such as macrophages, which display incomplete penetration into the biofilm matrix and "frustrated phagocytosis" [ 7 ]. (biomedcentral.com)
- The physical and chemical characteristics of the cell surface could be assessed critically based on bacterial cell surface hydrophobicity (depends on surface components of bacteria and electrical mobility/charge (rate) of migration under an electric field due to bacterial surface charges). (creative-biolabs.com)
- The type 6 protein secretion system (T6SS) is prevalently utilized by Gram-negative bacteria to compete for resources and space. (preprints.org)
Detection1
- The counterpart to the improvement of laboratory performances (detection and typing) is the extra investment needed. (isid.org)
Interactions3
- While much has been reported on T6SS-mediated prokaryotic competition, very little is understood about the mechanisms of bacterial interactions with eukaryotic hosts. (preprints.org)
- We, therefore, summarize the impacts of the T6SS effectors with a special focus on bacterial interactions with animals, plants, and fungi. (preprints.org)
- The brand of PCR capitalised techniques takes micro-finance and enable commercial and corresponding interactions of managers in the PCR stories can turn to receptor and N8 intervals. (kpschroeck.de)
Aureus1
- This occurs when multiple different types of S. aureus cause an infection within a host. (wikipedia.org)
Pneumoniae1
- Resumen Introducción: La expresión de β-lactamasas CTX-M pertenecientes a los grupos 1 y 9 en Klebsiella pneumoniae produce grados altos de resistencia a ceftazidima, y presentan una amplia distribución mundial. (bvsalud.org)
Campylobacter1
- Nous avons entrepris par la suite une étude cas-cas et un vaste projet d'isolement et de caractérisation moléculaire de souches de Campylobacter en Estrie, afin de véritablement cerner les mécanismes de transmission de la bactérie et de comparer les sources d'infections sporadiques chez les cas acquis en régions rurales vs urbaines. (usherbrooke.ca)
Results2
- PFGE and MLVA have major benefits, but are time consuming and the results are difficult to standardize [ 3 ]. (biomedcentral.com)
- InSTAnT was used to discover several novel cell type-specific gene pair co-localizations in the brain, and its promising results demonstrate potential for future research. (gatech.edu)
Predict1
- Receiver operating characteristic (ROC) curve analysis was performed to predict the relationship between inflammation indicators and the type of pathogen infection. (bvsalud.org)
Mechanisms1
- currently at the UN, we were the Global Concessional Financing Facility, for individual motivations, which will retrieve about US billion in techniques over the familar 5 fundamentals especially for Jordan and Lebanon, and an shallow US0 million in clients to handle multi-agent characteristics allow second theory equations wherever they do, using in evident stew mechanisms. (ligaya-technologies.com)
Migration1
- PFGE is based upon the variable migration of large DNA restriction fragments in an electrical field of alternating polarity. (applied-maths.com)
Analysis2
- Then, bacterial cells are lysed and large fragments of the bacterial chromosome are generated by macro-restriction analysis. (applied-maths.com)
- The BIONUMERICS software offers an integrated platform for the analysis of PFGE fingerprints. (applied-maths.com)
Previously1
- Three of these, with OXY-1/-5, OXY-2 types and OXY-4, corresponded to previously described phylogroups KoI, KoII and KoIV, respectively. (pasteur.fr)
Laboratory1
- The identification was made by the MALDI-TOF mass spectrometry technique and subsequently the non-toxigenic non-O1 / non-139 strain was confirmed in the national reference laboratory. (bvsalud.org)
Clinical1
- Important progress made in the fields of instruments, reagents and techniques have make it easier to adapt to the important changes of the clinical microbiology context e.g. increasing use of microbiology tests, shortage of qualified personnel. (isid.org)
Content1
- These types of benefits show that this variances regarding serotonin content material along with 5-HT2 term are usually outcomes of locust cycle modify. (hif-signals.com)
Wild-type1
- Mpn wild type cells were cultured in the find more presence of [3H]-dT and different concentrations of TFT. (bcl-2protein.com)
Procedures1
- We recently investigated three cases of bacterial meningitis that were reported from a midwestern radiology clinic where facemasks were not worn during spinal injection of contrast agent during myelography procedures. (cdc.gov)
Resolution1
- Convenient wizards help you to define new fingerprint types, choose the optimal settings for normalization, resolution, background subtraction, smoothing, and band finding. (applied-maths.com)