Results 31 to 40 of about 253,664 (304)

Engineering CRISPR/Cas9 to mitigate abundant host contamination for 16S rRNA gene-based amplicon sequencing

Microbiome, 2020
Background High-throughput sequencing of bacterial 16S rRNA gene (16S-seq) is a useful and common method for studying bacterial community structures. However, contamination of the 16S rRNA genes from the mitochondrion and plastid hinders the sensitive ...
Luyang Song, Kabin Xie
doaj   +1 more source

Establishment and assessment of an amplicon sequencing method targeting the 16S-ITS-23S rRNA operon for analysis of the equine gut microbiome

Scientific Reports, 2021
Microbial communities are commonly studied by using amplicon sequencing of part of the 16S rRNA gene. Sequencing of the full-length 16S rRNA gene can provide higher taxonomic resolution and accuracy.
Yuta Kinoshita, Hidekazu Niwa, Eri Uchida-Fujii, Toshio Nukada   +3 more
doaj   +1 more source

The efficacy of partial 16S rRNA gene sequencing for precise determination of phylogenetic relatedness among Salmonellae

Scientific African, 2021
More than 2,600 Salmonella enterica serovars have been described based on the expression of the somatic and flagellar antigens. For epidemiological tracing, the use of Salmonellae serotyping is inefficient because strains within the same serovar could be
I.M.T. Fadlalla, M.E. Hamid, A.G. ARahim, M.A. Osman   +3 more
doaj   +1 more source

An improved dual-indexing approach for multiplexed 16S rRNA gene sequencing on the Illumina MiSeq platform

Microbiome, 2014
To take advantage of affordable high-throughput next-generation sequencing technologies to characterize microbial community composition often requires the development of improved methods to overcome technical limitations inherent to the sequencing ...
D. Fadrosh, Bing Ma, P. Gajer, Naomi A. Sengamalay, Sandra H Ott, R. Brotman, J. Ravel   +6 more
semanticscholar   +1 more source

16S rRNA gene sequencing of rectal swab in patients affected by COVID-19

PLoS ONE, 2021
COronaVIrus Disease-2019 (COVID-19) is a pandemic respiratory infection caused by a new betacoronavirus, the Severe Acute Respiratory Syndrome-CoronaVirus-2 (SARS-CoV-2). Few data are reported on the gut microbiota in COVID-19 patients.
A. Mazzarelli, M. L. Giancola, A. Farina, L. Marchioni, M. Rueca, C. Gruber, B. Bartolini, Tommaso Ascoli Bartoli, G. Maffongelli, M. Capobianchi, G. Ippolito, A. di Caro, E. Nicastri, V. Pazienza   +13 more
semanticscholar   +1 more source

Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies

International Journal of Systematic and Evolutionary Microbiology, 2017
The recent advent of DNA sequencing technologies facilitates the use of genome sequencing data that provide means for more informative and precise classification and identification of members of the Bacteria and Archaea.
Seok-Hwan Yoon, Sung-min Ha, Soonjae Kwon, Jeongmin Lim, Yeseul Kim, Hyung-Ho Seo, J. Chun   +6 more
semanticscholar   +1 more source

Alteration of the gut microbiota associated with childhood obesity by 16S rRNA gene sequencing

PeerJ, 2020
Background Obesity is a global epidemic in the industrialized and developing world, and many children suffer from obesity-related complications. Gut microbiota dysbiosis might have significant effect on the development of obesity.
Xiaowei Chen, Haixiang Sun, F. Jiang, Yan Shen, Xin Li, Xueju Hu, Xiao-bing Shen, P. Wei   +7 more
semanticscholar   +1 more source

Impact of Bead-Beating Intensity on the Genus- and Species-Level Characterization of the Gut Microbiome Using Amplicon and Complete 16S rRNA Gene Sequencing

Frontiers in Cellular and Infection Microbiology, 2021
Bead-beating within a DNA extraction protocol is critical for complete microbial cell lysis and accurate assessment of the abundance and composition of the microbiome. While the impact of bead-beating on the recovery of OTUs at the phylum and class level
Bo Zhang, M. Brock, C. Arana, Chaitanya Dende, N. V. van Oers, L. Hooper, P. Raj   +6 more
semanticscholar   +1 more source

De novo species identification using 16S rRNA gene nanopore sequencing [PDF]

PeerJ, 2020
Nanopore sequencing is rapidly becoming more popular for use in various microbiota-based applications. Major limitations of current approaches are that they do not enable de novo species identification and that they cannot be used to verify species ...
Inga Leena Angell, Morten Nilsen, Karin C. Lødrup Carlsen, Kai-Håkon Carlsen, Gunilla Hedlin, Christine M. Jonassen, Benjamin Marsland, Björn Nordlund, Eva Maria Rehbinder, Carina Saunders, Håvard Ove Skjerven, Anne Cathrine Staff, Cilla Söderhäll, Riyas Vettukattil, Knut Rudi   +14 more
doaj   +2 more sources

Comparison of Illumina versus Nanopore 16S rRNA Gene Sequencing of the Human Nasal Microbiota

Genes, 2020
Illumina and nanopore sequencing technologies are powerful tools that can be used to determine the bacterial composition of complex microbial communities. In this study, we compared nasal microbiota results at genus level using both Illumina and nanopore
A. Heikema, D. Horst-Kreft, S. A. Boers, Rick J Jansen, Saskia D. Hiltemann, W. de Koning, R. Kraaij, M. D. de Ridder, C. V. van Houten, L. Bont, Andrew P. Stubbs, J. Hays   +11 more
semanticscholar   +1 more source