Targeted High-Throughput Sequencing Enables the Detection of Single Nucleotide Variations in CRISPR/Cas9 Gene-Edited Organisms [PDF]
Foods, 2023 Similar to genetically modified organisms (GMOs) produced by classical genetic engineering, gene-edited (GE) organisms and their derived food/feed products commercialized on the European Union market fall within the scope of European Union Directive 2001/18/EC.
Marie‐Alice Fraiture +9 more
openalex +7 more sources
A Systematic Evaluation of High-Throughput Sequencing Approaches to Identify Low-Frequency Single Nucleotide Variants in Viral Populations [PDF]
Viruses, 2020 High-throughput sequencing such as those provided by Illumina are an efficient way to understand sequence variation within viral populations. However, challenges exist in distinguishing process-introduced error from biological variance, which significantly impacts our ability to identify sub-consensus single-nucleotide variants (SNVs).
David J. King +7 more
openalex +7 more sources
Large scale single nucleotide polymorphism discovery in unsequenced genomes using second generation high throughput sequencing technology: applied to turkey [PDF]
BMC Genomics, 2009 AbstractBackgroundThe development of second generation sequencing methods has enabled large scale DNA variation studies at moderate cost. For the high throughput discovery of single nucleotide polymorphisms (SNPs) in species lacking a sequenced reference genome, we set-up an analysis pipeline based on a short read de novo sequence assembler and a ...
Hindrik H. D. Kerstens +6 more
openalex +7 more sources
High, clustered, nucleotide diversity in the genome of Anopheles gambiae revealed through pooled-template sequencing: implications for high-throughput genotyping protocols [PDF]
BMC Genomics, 2009 Association mapping approaches are dependent upon discovery and validation of single nucleotide polymorphisms (SNPs). To further association studies in Anopheles gambiae we conducted a major resequencing programme, primarily targeting regions within or close to candidate genes for insecticide resistance.Using two pools of mosquito template DNA we ...
Craig S. Wilding +3 more
openalex +7 more sources
PeerJ, 2023 Recent developments in high-throughput sequencing (HTS) technologies and bioinformatics have drastically changed research in virology, especially for virus discovery. Indeed, proper monitoring of the viral population requires information on the different isolates circulating in the studied area.
Johan Rollin +21 more
openalex +10 more sources
Targeted Amplicon Sequencing for Single-Nucleotide-Polymorphism Genotyping of Attaching and Effacing Escherichia coli O26:H11 Cattle Strains via a High-Throughput Library Preparation Technique [PDF]
Applied and Environmental Microbiology, 2015 ABSTRACT Enterohemorrhagic Escherichia coli (EHEC) O26:H11, a serotype within Shiga toxin-producing E. coli (STEC) that causes severe human disease, has been considered to have evolved from attaching and effacing E. coli (AEEC) O26:H11 through the acquisition
Sarah A. Ison +8 more
openalex +5 more sources
Journal of Medical Signals and Sensors, 2021 Background: Careful design in the primary steps of a next-generation sequencing study is critical for obtaining successful results in downstream analysis.
Hannane Mohammadi Nodehi +2 more
doaj +1 more source
Analytical Tools and Databases for Metagenomics in the Next-Generation Sequencing Era [PDF]
Genomics & Informatics, 2013 Metagenomics has become one of the indispensable tools in microbial ecology for the last few decades, and a new revolution in metagenomic studies is now about to begin, with the help of recent advances of sequencing techniques.
Mincheol Kim +5 more
doaj +1 more source
Nucleic Acids Res., 2022 Antimicrobial resistance (AMR) is considered a critical threat to public health, and genomic/metagenomic investigations featuring high-throughput analysis of sequence data are increasingly common and important.
N. Bonin +10 more
semanticscholar +1 more source
Optimization of conditions for in vitro modeling of subgingival normobiosis and dysbiosis
Frontiers in Microbiology, 2022 Modeling subgingival microbiome in health and disease is key to identifying the drivers of dysbiosis and to studying microbiome modulation. Here, we optimize growth conditions of our previously described in vitro subgingival microbiome model. Subgingival
Divyashri Baraniya +7 more
doaj +1 more source