Results 11 to 20 of about 192,718 (318)

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   +2 more sources

Reading canonical and modified nucleobases in 16S ribosomal RNA using nanopore native RNA sequencing.

PLoS ONE, 2019
The ribosome small subunit is expressed in all living cells. It performs numerous essential functions during translation, including formation of the initiation complex and proofreading of base-pairs between mRNA codons and tRNA anticodons.
Andrew M Smith, Miten Jain, Logan Mulroney, Daniel R Garalde, Mark Akeson   +4 more
doaj   +2 more sources

Choice of 16S ribosomal RNA primers affects the microbiome analysis in chicken ceca

Scientific Reports, 2021
We evaluated the effect of applying different sets of 16S rRNA primers on bacterial composition, diversity, and predicted function in chicken ceca. Cecal contents from Ross 708 birds at 1, 3, and 5 weeks of age were collected for DNA isolation.
Nadia Darwish, Jonathan Shao, Lori L. Schreier, Monika Proszkowiec-Weglarz   +3 more
doaj   +2 more sources

Next-generation Sequencing of 16S Ribosomal RNA Gene Amplicons [PDF]

Journal of Visualized Experiments, 2014
One of the major questions in microbial ecology is "who is there?" This question can be answered using various tools, but one of the long-lasting gold standards is to sequence 16S ribosomal RNA (rRNA) gene amplicons generated by domain-level PCR reactions amplifying from genomic DNA.
Sanschagrin, Sylvie, Yergeau, Étienne
openaire   +3 more sources

Updating the 97% identity threshold for 16S ribosomal RNA OTUs [PDF]

Bioinformatics, 2017
AbstractThe 16S ribosomal RNA (rRNA) gene is widely used to survey microbial communities. Sequences are often clustered into Operational Taxonomic Units (OTUs) as proxies for species. The canonical clustering threshold is 97% identity, which was proposed in 1994 when few 16S rRNA sequences were available, motivating a reassessment on current data ...
Robert C. Edgar
openaire   +3 more sources

Selection of Peptides Targeting Helix 31 of Bacterial 16S Ribosomal RNA by Screening M13 Phage-Display Libraries

Molecules, 2011
Ribosomal RNA is the catalytic portion of ribosomes, and undergoes a variety of conformational changes during translation. Structural changes in ribosomal RNA can be facilitated by the presence of modified nucleotides. Helix 31 of bacterial 16S ribosomal
Christine S. Chow, Anne-Cécile E. Duc, Philip R. Cunningham, Tek N. Lamichhane, N. Dinuka Abeydeera   +4 more
doaj   +2 more sources

Considerations and best practices in animal science 16S ribosomal RNA gene sequencing microbiome studies

Journal of Animal Science, 2022
Microbiome studies in animal science using 16S rRNA gene sequencing have become increasingly common in recent years as sequencing costs continue to fall and bioinformatic tools become more powerful and user-friendly. The combination of molecular biology,
M. Weinroth, A. Belk, C. Dean, N. Noyes, D. K. Dittoe, M. Rothrock, S. Ricke, P. Myer, M. Henniger, G. A. Ramírez, B. Oakley, K. Summers, A. M. Miles, Taylor B. Ault-Seay, Zhongtang Yu, J. Metcalf, J. Wells   +16 more
semanticscholar   +1 more source

Diagnostic Value of 16S Ribosomal RNA Gene Polymerase Chain Reaction/Sanger Sequencing in Clinical Practice.

Clinical Infectious Diseases, 2021
BACKGROUND Accurate microbiologic diagnosis is important for appropriate management of infectious diseases. Sequencing-based molecular diagnostics are increasingly used for precision diagnosis of infections.
M. Fida, Sarwat Khalil, O. A. Abu Saleh, D. Challener, M. Sohail, Joshua N Yang, B. Pritt, A. Schuetz, Robin Patel   +8 more
semanticscholar   +1 more source

Selection of reference genes for expression analysis using quantitative real-time PCR in the pea aphid, Acyrthosiphon pisum (Harris) (Hemiptera, Aphidiae). [PDF]

PLoS ONE, 2014
To facilitate gene expression study and obtain accurate qRT-PCR analysis, normalization relative to stable expressed housekeeping genes is required. In this study, expression profiles of 11 candidate reference genes, including actin (Actin), elongation ...
Chunxiao Yang, Huipeng Pan, Yong Liu, Xuguo Zhou   +3 more
doaj   +1 more source

Mutations in 16S ribosomal RNA disrupt antibiotic-RNA interactions. [PDF]

The EMBO Journal, 1989
Two of six mutations at a base-paired site in Escherichia coli 16S rRNA confer resistance to nine different aminoglycoside antibiotics in vivo. Chemical probing of mutant and wild-type ribosomes in the presence of paromomycin indicates that interactions between the antibiotic and 16S rRNA in mutant ribosomes are disrupted.
E A, De Stasio, D, Moazed, H F, Noller, A E, Dahlberg   +3 more
openaire   +2 more sources