Results 1 to 10 of about 181,128 (118)

Primer, Pipelines, Parameters: Issues in 16S rRNA Gene Sequencing

mSphere, 2021
In 16S rRNA gene sequencing, certain bacterial genera were found to be underrepresented or even missing in taxonomic profiles when using unsuitable primer combinations, outdated reference databases, or inadequate pipeline settings.
Isabel Abellan-Schneyder, Monica S. Matchado, Sandra Reitmeier, Alina Sommer, Zeno Sewald, Jan Baumbach, Markus List, Klaus Neuhaus   +7 more
doaj   +3 more sources

Determining the Clinical Utility of 16S rRNA Sequencing in the Management of Culture-Negative Pediatric Infections

Antibiotics, 2022
The use of 16S rRNA sequencing in culture-negative infections has improved identification of bacterial pathogens in select scenarios, but its clinical impact requires further elucidation, especially in the pediatric population.
Peter Paul C. Lim, Lisa M. Stempak, Sindhoosha Malay, LeAnne N. Moore, Sree Sarah S. Cherian, Ankita P. Desai   +5 more
doaj   +3 more sources

16S-FASAS: an integrated pipeline for synthetic full-length 16S rRNA gene sequencing data analysis [PDF]

PeerJ, 2022
Background The full-length 16S rRNA sequencing can better improve the taxonomic and phylogenetic resolution compared to the partial 16S rRNA gene sequencing.
Ke Zhang, Rongnan Lin, Yujun Chang, Qing Zhou, Zhi Zhang   +4 more
doaj   +2 more sources

Diagnostic Yield and Impact on Antimicrobial Management of 16S rRNA Testing of Clinical Specimens

Microbiology Spectrum, 2022
16S rRNA gene sequencing is increasingly used in clinical practice for bacterial identification of clinical specimens. However, studies on its applicability to direct clinical specimens are limited. Here, we studied the diagnostic yield and impact of 16S
Pruke Eamsakulrat, Pitak Santanirand, Angsana Phuphuakrat   +2 more
doaj   +1 more source

Microbial communities in polychlorinated biphenyl (PCB)-contaminated wastewater lagoon sediments: PCB congener, quantitative PCR, and 16S rRNA gene amplicon sequencing datasets

Data in Brief, 2021
The potential for aerobic and anaerobic microbial natural attenuation of PCBs in freshwater sediments is described by PCB congener, quantitative PCR, and 16S rRNA gene amplicon sequencing datasets generated, in duplicate, from 27 sediment samples ...
Timothy E. Mattes, Jessica M. Ewald, Yi Liang, Andres Martinez, Andrew M. Awad, Keri C. Hornbuckle, Jerald L. Schnoor   +6 more
doaj   +1 more source

Choice of 16S Ribosomal RNA Primers Impacts Male Urinary Microbiota Profiling

Frontiers in Cellular and Infection Microbiology, 2022
Accessibility to next-generation sequencing (NGS) technologies has enabled the profiling of microbial communities living in distinct habitats. 16S ribosomal RNA (rRNA) gene sequencing is widely used for microbiota profiling with NGS technologies.
Vitor Heidrich, Vitor Heidrich, Lilian T. Inoue, Paula F. Asprino, Fabiana Bettoni, Antonio C. H. Mariotti, Diogo A. Bastos, Denis L. F. Jardim, Marco A. Arap, Anamaria A. Camargo   +9 more
doaj   +1 more source

OTU analysis using metagenomic shotgun sequencing data. [PDF]

PLoS ONE, 2012
Because of technological limitations, the primer and amplification biases in targeted sequencing of 16S rRNA genes have veiled the true microbial diversity underlying environmental samples. However, the protocol of metagenomic shotgun sequencing provides
Xiaolin Hao, Ting Chen
doaj   +1 more source

Long-read MinION™ sequencing of 16S and 16S-ITS-23S rRNA genes provides species-level resolution of Lactobacillaceae in mixed communities

Frontiers in Microbiology, 2023
The Lactobacillaceae are lactic acid bacteria harnessed to deliver important outcomes across numerous industries, and their unambiguous, species-level identification from mixed community environments is an important endeavor.
Sandra A. Olivier, Sandra A. Olivier, Michelle K. Bull, Michelle K. Bull, Mikael Lenz Strube, Robert Murphy, Tom Ross, John P. Bowman, Belinda Chapman, Belinda Chapman   +9 more
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 profiling of microbiota in vaginal swab samples using 16S rRNA gene sequencing and IS-pro analysis

BMC Microbiology, 2021
Background 16S rRNA gene sequencing is currently the most common way of determining the composition of microbiota. This technique has enabled many new discoveries to be made regarding the relevance of microbiota to the health and disease of the host ...
M. Singer, R. Koedooder, M. P. Bos, L. Poort, S. Schoenmakers, P. H. M. Savelkoul, J. S. E. Laven, J. D. de Jonge, S. A. Morré, A. E. Budding   +9 more
doaj   +1 more source