Whole‐genome sequencing of SARS‐CoV‐2: Comparison of target capture and amplicon single molecule real‐time sequencing protocols
Sign Up to like & getrecommendations! Published in 2022 at "Journal of Medical Virology"
DOI: 10.1002/jmv.28123
Abstract: Fast, accurate sequencing methods are needed to identify new variants and genetic mutations of the severe acute respiratory syndrome coronavirus 2 (SARS‐CoV‐2) genome. Single‐molecule real‐time (SMRT) Pacific Biosciences (PacBio) provides long, highly accurate sequences by… read more here.
Keywords: amplicon; target; target capture; protocol ... See more keywords
Distinct relationships between fluorescence in situ hybridization and 16S rRNA gene- and amplicon-based sequencing data of bacterioplankton lineages.
Sign Up to like & getrecommendations! Published in 2019 at "Systematic and applied microbiology"
DOI: 10.1016/j.syapm.2019.06.005
Abstract: Catalyzed reporter deposition fluorescence in situ hybridization (CARD-FISH) and amplicon sequencing of the total (16S rRNA gene) and potentially active (16S rRNA transcripts), community are the major state of the art approaches for assessing the… read more here.
Keywords: sequencing data; bacterioplankton; amplicon; amplicon sequencing ... See more keywords
MOCHI: a comprehensive cross-platform tool for amplicon-based microbiota analysis
Sign Up to like & getrecommendations! Published in 2022 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btac494
Abstract: Abstract Motivation Microbiota analyses have important implications for health and science. These analyses make use of 16S/18S rRNA gene sequencing to identify taxa and predict species diversity. However, most available tools for analyzing microbiota data… read more here.
Keywords: tool; amplicon; microbiota; analysis mochi ... See more keywords
Testing genotyping strategies for ultra‐deep sequencing of a co‐amplifying gene family: MHC class I in a passerine bird
Sign Up to like & getrecommendations! Published in 2017 at "Molecular Ecology Resources"
DOI: 10.1111/1755-0998.12612
Abstract: Characterization of highly duplicated genes, such as genes of the major histocompatibility complex (MHC), where multiple loci often co‐amplify, has until recently been hindered by insufficient read depths per amplicon. Here, we used ultra‐deep Illumina… read more here.
Keywords: ultra deep; per amplicon; amplicon; gene ... See more keywords
Equine sinusitis aetiology is linked to sinus microbiome by amplicon sequencing.
Sign Up to like & getrecommendations! Published in 2022 at "Equine veterinary journal"
DOI: 10.1111/evj.13884
Abstract: BACKGROUND Information regarding the microbiome in sinusitis using genetic sequencing is lacking and more-in-depth understanding of the microbiome could improve antimicrobial selection and treatment outcomes for cases of primary sinusitis. OBJECTIVES To describe sinus microbiota… read more here.
Keywords: amplicon; sinusitis aetiology; equine sinusitis; microbiome ... See more keywords
Comparative Fungal Community Analyses Using Metatranscriptomics and Internal Transcribed Spacer Amplicon Sequencing from Norway Spruce
Sign Up to like & getrecommendations! Published in 2021 at "mSystems"
DOI: 10.1128/msystems.00884-20
Abstract: A deeper understanding of microbial communities associated with plants is revealing their importance for plant health and productivity. RNA extracted from plant field samples represents the host and other organisms present. ABSTRACT The health, growth,… read more here.
Keywords: community; norway spruce; amplicon; amplicon sequencing ... See more keywords
A Sequel to Sanger: amplicon sequencing that scales
Sign Up to like & getrecommendations! Published in 2018 at "BMC Genomics"
DOI: 10.1186/s12864-018-4611-3
Abstract: BackgroundAlthough high-throughput sequencers (HTS) have largely displaced their Sanger counterparts, the short read lengths and high error rates of most platforms constrain their utility for amplicon sequencing. The present study tests the capacity of single… read more here.
Keywords: sanger amplicon; sequel sanger; smrt sequencing; amplicon ... See more keywords
Multiple approaches for massively parallel sequencing of SARS-CoV-2 genomes directly from clinical samples
Sign Up to like & getrecommendations! Published in 2020 at "Genome Medicine"
DOI: 10.1186/s13073-020-00751-4
Abstract: Background COVID-19 (coronavirus disease 2019) has caused a major epidemic worldwide; however, much is yet to be known about the epidemiology and evolution of the virus partly due to the scarcity of full-length SARS-CoV-2 (severe… read more here.
Keywords: directly clinical; sequencing sars; amplicon; sars cov ... See more keywords
Equivolumetric Protocol Generates Library Sizes Proportional to Total Microbial Load in 16S Amplicon Sequencing
Sign Up to like & getrecommendations! Published in 2021 at "Frontiers in Microbiology"
DOI: 10.3389/fmicb.2021.638231
Abstract: High-throughput sequencing of 16S rRNA amplicon has been extensively employed to perform microbiome characterization worldwide. As a culture-independent methodology, it has allowed high-level profiling of sample bacterial composition directly from samples. However, most studies are… read more here.
Keywords: microbial load; equivolumetric protocol; microbiology; total microbial ... See more keywords