Results 51 to 60 of about 1,076,866 (305)

Comparing bioinformatic pipelines for microbial 16S rRNA amplicon sequencing.

PLoS ONE, 2020
Microbial amplicon sequencing studies are an important tool in biological and biomedical research. Widespread 16S rRNA gene microbial surveys have shed light on the structure of many ecosystems inhabited by bacteria, including the human body.
Andrei Prodan, Valentina Tremaroli, Harald Brolin, Aeilko H Zwinderman, Max Nieuwdorp, Evgeni Levin   +5 more
doaj   +1 more source

Characterising the Canine Oral Microbiome by Direct Sequencing of Reverse-Transcribed rRNA Molecules. [PDF]

PLoS ONE, 2016
PCR amplification and sequencing of phylogenetic markers, primarily Small Sub-Unit ribosomal RNA (SSU rRNA) genes, has been the paradigm for defining the taxonomic composition of microbiomes.
James E McDonald, Niels Larsen, Andrea Pennington, John Connolly, Corrin Wallis, David J Rooks, Neil Hall, Alan J McCarthy, Heather E Allison   +8 more
doaj   +1 more source

Novel Anaplasmataceae agents Candidatus Ehrlichia hydrochoerus and Anaplasma spp. Infecting Capybaras, Brazil

Emerging Infectious Diseases, 2022
We amplified Ehrlichia and Anaplasma DNA from Amblyomma dubitatum tick–infested capybaras (Hydrochoerus hydrochaeris) in southern Brazil. Sequencing of 16S rRNA, sodB, and groEL indicated a novel Ehrlichia species, and sequencing of 16S rRNA from 2 ...
Thállitha S.W.J. Vieira, Flávia C.M. Collere, Larissa D.R. Ferrari, Rafael A. Baggio, Rogério R. Lange, Marcos V. Ferrari, Juan C.M. Duque, Gustavo S. Sanches, Nathália A. Pereira, Daniel M. Aguiar, Marcelo B. Labruna, Rafael F.C. Vieira   +11 more
doaj   +1 more source

Do we need a standardized 16S rRNA gene amplicon sequencing analysis protocol for poultry microbiota research?

Poultry Science
Bacteria are the major component of poultry gastrointestinal tract (GIT) microbiota and play an important role in host health, nutrition, physiology regulation, intestinal development, and growth.
Joshua M. Lyte, Mitiku M. Seyoum, Diana Ayala, Jannigje G. Kers, Valentina Caputi, Timothy Johnson, Li Zhang, Joshua Rehberger, Guolong Zhang, Sami Dridi, Brett Hale, Jean E. De Oliveira, Daniel Grum, Alexandra H. Smith, Michael Kogut, Steven C. Ricke, Anne Ballou, Bill Potter, Monika Proszkowiec-Weglarz   +18 more
doaj   +1 more source

Sequencing 16S rRNA gene fragments using the PacBio SMRT DNA sequencing system [PDF]

PeerJ, 2016
Over the past 10 years, microbial ecologists have largely abandoned sequencing 16S rRNA genes by the Sanger sequencing method and have instead adopted highly parallelized sequencing platforms.
Patrick D. Schloss, Matthew L. Jenior, Charles C. Koumpouras, Sarah L. Westcott, Sarah K. Highlander   +4 more
doaj   +2 more sources

16S-ITS-23S rRNA operon segment sequencing provides necessary and sufficient conditions for bacterial species-specific identification

Инфекция и иммунитет, 2022
Introduction. Sequencing of the 16S rRNA gene is the predominant method for assessing microbial communities and strain molecular identification. The short reads (2nd generation sequencing)-based technology does not allow analysis beyond the 16S rRNA gene.
O. B. Ogarkov, S. N. Zhdanova, E. A. Orlova, P. A. Khromova, N. L. Belkova, V. V. Sinkov, I. G. Kondratov   +6 more
doaj   +1 more source

Sequencing the 16S rRNA gene

, 2023
Sequencing the 16S rRNA gene from feces of mice from the following groups: non-diabetic (VH-PBS); unsupplemented diabetic (STZ-PBS); diabetic supplemented with Akkermansia muciniphila (STZ-Akk)
Fernandes Rodrigues, Vanessa, Fernandes Rodrigues, V (via Mendeley Data)   +1 more
core   +2 more sources

A Comparison of Methods for Clustering 16S rRNA Sequences into OTUs

PLoS ONE, 2013
Recent studies of 16S rRNA sequences through next-generation sequencing have revolutionized our understanding of the microbial community composition and structure. One common approach in using these data to explore the genetic diversity in a microbial community is to cluster the 16S rRNA sequences into Operational Taxonomic Units (OTUs) based on ...
Wei Chen, Clarence K Zhang, Yongmei Cheng, Shaowu Zhang, Hongyu Zhao   +4 more
openaire   +4 more sources

Microbiome‐blood–brain barrier interactions in aging — mechanisms and therapeutic potential

FEBS Letters, EarlyView.
Aging reshapes the gut microbiome (↓SCFA‐producing commensals; ↑pro‐inflammatory outputs), shifting circulating metabolites (↓SCFAs; ↑LPS, ↑TMAO, ↑PAA) that act at the BBB to increase nonspecific transcytosis, alter transport, and promote astrocyte reactivity, heightening brain vulnerability.
Daniel Cuervo‐Zanatta, Hari Baskar Balasubramanian, Amir Pasokh, Marietta Zille   +3 more
wiley   +1 more source

Amplicon Sequence Variants Artificially Split Bacterial Genomes into Separate Clusters

mSphere, 2021
16S rRNA gene sequencing has engendered significant interest in studying microbial communities. There has been tension between trying to classify 16S rRNA gene sequences to increasingly lower taxonomic levels and the reality that those levels were ...
Patrick D. Schloss
doaj   +1 more source