Multilocus sequence typing (MLST) is a technique in molecular biology for the typing of multiple loci, using DNA sequences of internal fragments of multiple housekeeping genes to characterize isolates of microbial species. (wikipedia.org)
The workflow of MLST involves: 1) data collection, 2) data analysis and 3) multilocus sequence analysis. (wikipedia.org)
Molecular analysis was undertaken using quantitative PCR, Sanger sequencing, Wolbachia multilocus sequence typing (MLST) and high-throughput amplicon sequencing of the bacterial 16S rRNA gene. (utmb.edu)
Application of multilocus sequence typing (MLST) to clinical C. glabrata isolates revealed an association of certain sequence types (STs) with drug resistance and mortality. (bvsalud.org)
ABSTRACT A robust high-throughput multilocus sequence typing (MLST) scheme for Clostridium difficile was developed and validated using a diverse collection of 50 reference isolates representing 45 different PCR ribotypes and 102 isolates from recent clinical samples. (ox.ac.uk)
The method was compared to the gold standard multilocus sequence typing (MLST) using a subset of these clinical isolates (n = 95) and found to be highly concordant, with at least as high a resolution but with considerably less hands-on time. (maastrichtuniversity.nl)
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)
Isolates10
In the final analysis step of MLST, the relatedness of isolates are made by comparing allelic profiles. (wikipedia.org)
Furthermore, only a few high-quality C. glabrata reference genomes are available, limiting rapid analysis of clinical isolates by whole genome sequencing. (bvsalud.org)
Specifically, a comparison of these genomes identified highly polymorphic loci (HPL) defined by frequent insertions and deletions (indels), two of which proved to be highly resolutive for ST. When challenged with 53 additional isolates, a combination of TRP1 (a component of the current MLST scheme) with either of the two HPL fully recapitulated ST identification. (bvsalud.org)
All isolates were typed by MLST and yielded 40 sequence types (STs). (ox.ac.uk)
We analyzed 170 isolates of by SELDI ProteinChip analysis and found four biomarkers which were significantly associated with PF299804 genogroups defined by MLST, and in particular for isolates from your invasive ST17 and for isolates belonging to closely related genotypes. (abt-888.net)
23]. The isolates were representative of the population and belong to the main clonal lineages defined by MLST [13]. (abt-888.net)
MLST was performed previously and data were not available for the 24 isolates from individuals with illness of the respiratory tract [14]. (abt-888.net)
High-throughput pyrosequencing of two L. monocytogenes isolates was used to rapidly provide the genome sequence of the primary outbreak strain and to investigate the extent of genetic diversity associated with a change of a single restriction enzyme fragment during PFGE. (biomedcentral.com)
Furthermore, we performed multi-locus sequence typing (MLST) for a subset of 291 isolates, which indicated that the dominant sequence types in the treated habitats were identical or related to the corresponding sprayed formulations. (biomedcentral.com)
I am involved in exploring human macrophage-Leishmania conflict through the analysis of host response modulation upon infection but also genomics and transcriptomics features of hyper-virulent and hypo-virulent isolates of Leishmania parasites using the high-throughput data generated from different experiments we are performing in our group. (leishield.org)
Genome9
Whole genome sequencing of Brucella melitensis isolated from 57 patients in Germany reveals high diversity in strains from Middle East. (cdc.gov)
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 pan-genome family tree is similar to the consensus tree, but with higher confidence. (biomedcentral.com)
High-throughput genome sequencing provided a more detailed real-time assessment of genetic traits characteristic of the outbreak strains than could be achieved with routine subtyping methods. (biomedcentral.com)
This study confirms that the latest generation of DNA sequencing technologies can be applied during high priority public health events, and laboratories need to prepare for this inevitability and assess how to properly analyze and interpret whole genome sequences in the context of molecular epidemiology. (biomedcentral.com)
The authors isolated a causative cyanobacterium ( Pseudanabaena yagii ) from the water supply source, analyzed its whole genome, and investigated the mechanism that induces a high concentration of 2-MIB odor at low water temperature. (mdpi.com)
In this thesis, we reported on a 26-month surveillance study performed in an effort to identify and characterise persistent ST type(s), cultured from four PIF production facilities, using molecular strategies including target-specific polymerase chain reaction (PCR), pulsed-field gel electrophoresis (PFGE), multi-locus sequence typing (MLST) and multi-genome microarray. (ucd.ie)
During the last years, I attended several courses and workshops on High-throughput Next Generation Sequencing where I acquired more knowledge and expertise on common tools and workflows used in analyzing NGS data including sequence alignment tools, visualization tools, genome browsers and comparison tools, python and R. On the other hand, I have acquired experience in cell and parasitic culture and molecular biology techniques. (leishield.org)
Housekeeping genes5
MLST directly measures the DNA sequence variations in a set of housekeeping genes and characterizes strains by their unique allelic profiles. (wikipedia.org)
Quoting Staphylococcus aureus as an example, seven housekeeping genes are used in MLST typing. (wikipedia.org)
Thus both the number and type of housekeeping genes interrogated by MLST may differ from species to species. (wikipedia.org)
citation needed] Despite MLST providing high discriminatory power, the accumulation of nucleotide changes in housekeeping genes is a relatively slow process and the allelic profile of a bacterial isolate is sufficiently stable over time for the method to be ideal for global epidemiology. (wikipedia.org)
Briefly, PCR was used to amplify fragments of about 500 foundation pairs from seven housekeeping genes (and MLST site (http://pubmlst.org/sagalactiae/) [24]. (abt-888.net)
Scheme7
The first MLST scheme to be developed was for Neisseria meningitidis, the causative agent of meningococcal meningitis and septicaemia. (wikipedia.org)
The current C. glabrata MLST scheme is based on single nucleotide polymorphisms (SNPs) at six loci and is therefore relatively laborious and costly. (bvsalud.org)
In this study we provide long-read based assemblies for seven additional clinical strains belonging to three different STs and use this information to simplify the C. glabrata MLST scheme. (bvsalud.org)
Because typing tools are instrumental in addressing numerous clinical and biological questions, our new MLST scheme can be used for high throughput typing of C. glabrata in clinical and research settings. (bvsalud.org)
The MLST scheme was sufficiently robust to allow direct genotyping of C. difficile in total stool DNA extracts without isolate culture. (ox.ac.uk)
Such objectives require a high-resolution genotyping method with a fixed scheme that allows (1) long-term retrospective and prospective assessment, (2) objective result readout and (3) library storage for database development and exchangeable results. (maastrichtuniversity.nl)
Our results position this MLVA scheme as an appropriate, high-throughput and relatively low-cost tool for K. pneumoniae epidemiology. (maastrichtuniversity.nl)
Pathogens2
Since its introduction for the research of evolutionary history, MLST has been used not only for human pathogens but also for plant pathogens. (wikipedia.org)
However, high-throughput microfluidic methods enable for the concurrent detection of various pathogens. (mdpi.com)
Strains4
Novel Wolbachia strains (particularly high-density strains) are ideal candidate strains for transinfection to create stable infections in other Anopheles mosquito species, which could be used for population replacement or suppression control strategies. (utmb.edu)
WGS revealed that strains of each Salmonella serovar could be assigned to a single 7-gene MLST cluster, and strains within the clusters were identical strains and closely related as defined by the 0 and 10 cgSNPs and likely shared a common ancestor. (biomedcentral.com)
Therefore, the major contribution to the higher protein-to-lipid ratio in the A. oryzae strains comes from the significant increase of the area of both Amide I and Amide II. (pdgfrsignals.com)
Iro / iuc mobile genetic elements (MGEs) appear to be stably maintained at high frequency within known hypervirulent strains (ST23, ST86, etc.) but were also detected at low prevalence in others such as MDR strain ST258. (biomedcentral.com)
Nucleotide1
For the most variable core genes, the variance in amino acid sequences is higher than for the corresponding nucleotide sequences, suggesting that there is a positive selection towards mutations leading to amino acid changes. (biomedcentral.com)
Discriminatory1
MLST and PCR ribotyping were similar in discriminatory abilities, having indices of discrimination of 0.90 and 0.92, respectively. (ox.ac.uk)
Reference genomes1
A higher number of reference genomes makes the binning easier and more reliable. (biomedcentral.com)
Laboratories1
A web-accessible database was set up ( http://pubmlst.org/cdifficile/ ) to facilitate the dissemination and comparison of C. difficile MLST genotyping data among laboratories. (ox.ac.uk)
Diversity2
saturation curve was detected and the coverage index was higher (62.5%), indicating that the diversity was better screened. (pdgfrsignals.com)
The MLST analysis showed a high diversity, as reported in other previous studies. (pdgfrsignals.com)
Molecular1
The Functional Genomics Core (FGC) is integrated with the Arizona Center for Drug Discovery, providing resources for investigators conducting research in molecular biology to run live cell, biochemical and other assays.The FGC specializes in conducting high-throughput drug/compound screens. (netlify.app)
Species1
This may explain why the high-throughput in-silico ANI approach has identified an increasing number of B. cereus group species but struggled to detect congruences between the genomospecies definition and phenotype in this group. (biomedcentral.com)
Antibiotic2
A randomised trial was performed to resolve an issue of high controversy (antibiotic cycling vs. mixing). (europa.eu)
Antibiotic-mediated phage induction may result in high-frequency transfer and the unintended consequence of promoting the spread of virulence and/or antibiotic resistance determinants. (biomedcentral.com)
Approach1
The direct (nonculture) MLST approach may prove useful as a rapid genotyping method, potentially benefiting individual patients and informing hospital infection control. (ox.ac.uk)
Research3
Feature papers represent the most advanced research with significant potential for high impact in the field. (mdpi.com)
The journal is interested to publish high-quality original research articles dealing with all the aspects of multi-OMICS studies in Biology and Medicine. (edu.pk)
Microbiology Society journals contain high-quality research papers and topical review articles. (microbiologysociety.org)
Technology1
The Functional Genomics Core provides researchers with the expertise and technology to perform high-throughput cell biology. (netlify.app)
Single1
The latest advance in high throughput single-cell transcriptomics is the emergence of spatial transcriptomics technologies with single-molecule resolution. (gatech.edu)
Genetic2
showed higher levels of damaged cells, a higher genetic damage index, and a cumulative comet tail length as compared to others. (edu.pk)
Developing predictive models of multi-protein genetic systems to understand and optimize their behavior remains a combinatorial challenge, particularly when measurement throughput is limited. (omictools.com)
Drug1
The Functional Genomics Core (FGC) provides capacity for high-throughput chemical, RNAi, and deletion library-based screens for the purpose of network analysis, drug and target discovery. (netlify.app)
Include1
These genes include carbamate kinase (arcC), shikimate dehydrogenase (aroE), glycerol kinase (glpF), guanylate kinase (gmk), phosphate acetyltransferase (pta), triosephosphate isomerase (tpi) and acetyl coenzyme A acetyltransferase (yqiL) as specified by the MLST website. (wikipedia.org)
Cell1
The NovaSeq X and 25B flow cell make ultra-high depth multiomics more accessible. (illumina.com)
Study1
In this project, high-throughput transposon sequencing will be initiated to study putative virulence genes of the methicillin-resistant Staphylococcus aureus SABRC13, isolated from a Brazilian dairy. (fapesp.br)
Level1
For example, antral-predominant gastritis is often associated with a higher level of acid production and is more likely to evolve into duodenal ulcer or MALT lymphoma, whereas corpus-predominant atrophic gastritis is associated with a lower level of acid production and can lead to gastric ulcer or gastric cancer [ 10 ]. (biomedcentral.com)
Total1
showed a comparatively higher amount of total polyphenols (0.98 ± 0.073 mg/gdw). (edu.pk)
Candidate1
In conclusion, we recognized four candidate biomarkers of ST17 by SELDI for high-throughput testing. (abt-888.net)
Easy1
SurgeMail is an advanced secure easy to manage and install high performance email secure server using fast browser based administration tools. (netwinsite.com)