amplicon sequencing
16S rRNA Amplicon Sequencing for Epidemiological Surveys of Bacteria in Wildlife
... rRNA amplicon sequencing with the dual-index sequencing strategy of Kozich et ...MiSeq sequencing platform. The 16S rRNA amplicon sequencing tech- nique is based on the ...
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Bacterial Contamination of Plant in vitro Cultures in Commercial Production Detected by High‑Throughput Amplicon Sequencing
... Molecular methods using 16S rRNA gene have been applied for identification of bacteria in plant tissue cultures, e.g. in micropropagated Prunus avium (Quambusch et al., 2014), Vitis vinifera (Thomas, 2004), Echinacea ...
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Diagnosing and tracing the pathogens of infantile infectious diarrhea by amplicon sequencing
... gene sequencing in clinical bacterial ...the amplicon-sequencing-based detection of pathogens in individuals from an infantile infectious diarrhea ...
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High-resolution ISR amplicon sequencing reveals personalized oral microbiome
... Background: Sequencing of the 16S rRNA gene has been the standard for studying the composition of microbial ...shotgun sequencing has significant limitations that can make it unsuitable for large-scale ...
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Amplicon sequencing of bacterial microbiota in abortion material from cattle
... Although amplicon sequencing has been discussed as a diagnostic approach [60], the aim of our study was not the evaluation of NGS as a diagnostic tool but as a novel research approach to gain deeper insight ...
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Metagenomics (16S Amplicon Sequencing) and DGGE Analysis of Bacterial Diversity of Acid Mine Drainage
... 16S amplicon sequencing of diversity of acidophilic microorganisms have also been ...16S amplicon sequencing (Illumina Miseq platform; V3-V4 region amplification) of samples in AMD from ...
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Use of next generation amplicon sequencing to study Blastocystis genetic diversity in a rural human population from Mexico
... next-generation amplicon sequenc- ing is a powerful tool to investigate mixed infections and detect low abundance subtypes of Blastocystis ...next-generation amplicon sequencing to better ...
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PacBio Amplicon Sequencing Method To Measure Pilin Antigenic Variation Frequencies of Neisseria gonorrhoeae
... long-read amplicon sequencing experi- ...PacBio sequencing is higher than other methods of deep sequencing, we believe that through our successive filtering steps we have removed the sequences ...
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Amplicon sequencing for the quantification of spoilage microbiota in complex foods including bacterial spores
... Amplicon sequencing of a mixture from the individu- ally isolated DNAs, in which the amount of DNA for each species was equalized based on the quantitative PCR (qPCR) results (Additional file 9A) indicated ...
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Rapid Drug Susceptibility Testing of Drug Resistant Mycobacterium tuberculosis Isolates Directly from Clinical Samples by Use of Amplicon Sequencing: a Proof of Concept Study
... next-generation sequencing (NGS) to obtain drug resistance profiles directly from patient sputum samples has the potential to enable comprehensive evidence-based treatment plans to be implemented quickly, rather ...
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Parallel tagged amplicon sequencing of transcriptome-based genetic markers for Triturus newts with the Ion Torrent next-generation sequencing platform
... We obtain a set of markers, informative at the level of closely related species, for a nonmodel system with large, unknown genomes (Triturus newts). For marker design, we use transcriptome data as a reduced repre- ...
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Deep amplicon sequencing of preselected isolates of Parascaris equorum in β tubulin codons associated with benzimidazole resistance in other nematodes
... Each amplicon was sequenced to a minimum of 480 Mbp over Q30, yielding a coverage of at least of one mil- lion X per ...corresponding amplicon using bwa ...
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Amplicon Sequencing and Improved Detection of Human Rhinovirus in Respiratory Samples
... Improved knowledge of the genotypic characteristics of human rhinovirus (HRV) is required, as are nucleic detection assays with the capacity to overcome both the similarities between members of the family Picorna- ...
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The occurrence of potato common scab correlates with the community composition and function of the geocaulosphere soil microbiome
... metagenomic sequencing and bacterial 16S amplicon sequencing were performed to explore the GS microbiome in the present ...study. Amplicon sequencing can reveal microbial community ...
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Multiplicity and molecular epidemiology of Plasmodium vivax and Plasmodium falciparum infections in East Africa
... next-generation amplicon deep sequencing, the minority clone could be detected as low as ...deep sequencing [15], longer amplicon sequenc- ing, by capturing a greater number of polymorphisms, ...
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A Simple Microbiome in the European Common Cuttlefish, Sepia officinalis
... rRNA amplicon sequencing, quantita- tive PCR (qPCR), and fluorescence spectral ...imaging. Sequencing revealed a highly simplified microbiota consisting largely of two single bacterial amplicon ...
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Serratia marcescens Outbreak in a Neonatal Intensive Care Unit: New Insights from Next Generation Sequencing Applications
... of amplicon sequencing in clinical ...gyrB sequencing protocol allowed the identification of Serratia marcescens at the species level in environmental samples, further optimization will be required ...
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Spatial Variation in Soil Fungal Communities across Paddy Fields in Subtropical China
... MiSeq amplicon sequencing of the internal transcribed spacer (ITS) region, distance-decay relationships (DDRs), and ecological models, fungal assemblages and their spatial patterns were investigated from ...
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Examining the Evidence for an Adult Healthy Middle Ear Microbiome
... gene amplicon sequencing profiles from nasopharyngeal and ear canal samples were consistent with previous microbiological assessments of these contexts (14, ...as sequencing agent contaminants ...
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Vaccinating with conserved Escherichia coli antigens does not alter the mouse intestinal microbiome
... rRNA amplicon sequencing was per- formed using DNA extracted from feces collected prior to vaccination, from the mid-point of the vaccination regimen (after the second vaccination), and two weeks after the ...
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