Cargando…

Impact of 16S rRNA Gene Redundancy and Primer Pair Selection on the Quantification and Classification of Oral Microbiota in Next-Generation Sequencing

This study aimed to evaluate the number of 16S rRNA genes in the complete genomes of the bacterial and archaeal species inhabiting the human mouth and to assess how the use of different primer pairs would affect the detection and classification of redundant amplicons and matching amplicons (MAs) fro...

Descripción completa

Detalles Bibliográficos
Autores principales:	Regueira-Iglesias, Alba, Vázquez-González, Lara, Balsa-Castro, Carlos, Blanco-Pintos, Triana, Vila-Blanco, Nicolás, Carreira, Maria José, Tomás, Inmaculada
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	American Society for Microbiology 2023
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10101033/ https://www.ncbi.nlm.nih.gov/pubmed/36779795 http://dx.doi.org/10.1128/spectrum.04398-22

Ejemplares similares

In silico evaluation and selection of the best 16S rRNA gene primers for use in next-generation sequencing to detect oral bacteria and archaea
por: Regueira-Iglesias, Alba, et al.
Publicado: (2023)

In-Silico Detection of Oral Prokaryotic Species With Highly Similar 16S rRNA Sequence Segments Using Different Primer Pairs
por: Regueira-Iglesias, Alba, et al.
Publicado: (2022)

Short-term anti-plaque effect of a cymenol mouthwash analysed using the DenTiUS Deep Plaque software: a randomised clinical trial
por: Suárez-Rodríguez, B, et al.
Publicado: (2023)

DenTiUS Plaque, a Web-Based Application for the Quantification of Bacterial Plaque: Development and Usability Study
por: Vila-Blanco, Nicolás, et al.
Publicado: (2020)

Quantification by qPCR of Pathobionts in Chronic Periodontitis: Development of Predictive Models of Disease Severity at Site-Specific Level
por: Tomás, Inmaculada, et al.
Publicado: (2017)

Comparative Evaluation of Four Bacteria-Specific Primer Pairs for 16S rRNA Gene Surveys
por: Thijs, Sofie, et al.
Publicado: (2017)

Primer and platform effects on 16S rRNA tag sequencing
por: Tremblay, Julien, et al.
Publicado: (2015)

Comparison of 16S rRNA Gene Based Microbial Profiling Using Five Next-Generation Sequencers and Various Primers
por: Park, Changwoo, et al.
Publicado: (2021)

Evaluation of 16S rRNA Gene Primer Pairs for Monitoring Microbial Community Structures Showed High Reproducibility within and Low Comparability between Datasets Generated with Multiple Archaeal and Bacterial Primer Pairs
por: Fischer, Martin A., et al.
Publicado: (2016)

PrimerBank: a resource of human and mouse PCR primer pairs for gene expression detection and quantification
por: Spandidos, Athanasia, et al.
Publicado: (2010)

Primer, Pipelines, Parameters: Issues in 16S rRNA Gene Sequencing
por: Abellan-Schneyder, Isabel, et al.
Publicado: (2021)

Mismatches in 16S rRNA Gene Primers: An Area Worth Further Exploring
por: Ren, Wenting, et al.
Publicado: (2022)

Evaluation of Established Methods for DNA Extraction and Primer Pairs Targeting 16S rRNA Gene for Bacterial Microbiota Profiling of Olive Xylem Sap
por: Haro, Carmen, et al.
Publicado: (2021)

Selection of primers for optimal taxonomic classification of environmental 16S rRNA gene sequences
por: Soergel, David A W, et al.
Publicado: (2012)

A systematic overview of dental methods for age assessment in living individuals: from traditional to artificial intelligence-based approaches
por: Vila-Blanco, Nicolás, et al.
Publicado: (2023)

Fine-scale evaluation of two standard 16S rRNA gene amplicon primer pairs for analysis of total prokaryotes and archaeal nitrifiers in differently managed soils
por: Zhao, Jun, et al.
Publicado: (2023)

A novel metabarcoding primer pair for environmental DNA analysis of Cephalopoda (Mollusca) targeting the nuclear 18S rRNA region
por: de Jonge, Daniëlle S. W., et al.
Publicado: (2021)

Comparative Analysis of Primers Used for 16S rRNA Gene Sequencing in Oral Microbiome Studies
por: Na, Hee Sam, et al.
Publicado: (2023)

Application of 16S rRNA next generation sequencing in ticks in Greece
por: Papa, Anna, et al.
Publicado: (2020)

Emerging frontiers in human milk microbiome research and suggested primers for 16S rRNA gene analysis
por: Lopez Leyva, Lilian, et al.
Publicado: (2020)

Evaluation of 16S rRNA primer sets for characterisation of microbiota in paediatric patients with autism spectrum disorder
por: Palkova, L., et al.
Publicado: (2021)

Conservative Fragments in Bacterial 16S rRNA Genes and Primer Design for 16S Ribosomal DNA Amplicons in Metagenomic Studies
por: Wang, Yong, et al.
Publicado: (2009)

Automated description of the mandible shape by deep learning
por: Vila-Blanco, Nicolás, et al.
Publicado: (2021)

Al primer canto del gallo /
por: Mono blanco (grupo musical)

Assessing mycoplasma contamination of cell cultures by qPCR using a set of universal primer pairs targeting a 1.5 kb fragment of 16S rRNA genes
por: Jean, Audrey, et al.
Publicado: (2017)

The Effect of Primer Choice and Short Read Sequences on the Outcome of 16S rRNA Gene Based Diversity Studies
por: Ghyselinck, Jonas, et al.
Publicado: (2013)

Newly designed 16S rRNA metabarcoding primers amplify diverse and novel archaeal taxa from the environment
por: Bahram, Mohammad, et al.
Publicado: (2018)

Evaluation of the Bacterial Diversity in the Human Tongue Coating Based on Genus-Specific Primers for 16S rRNA Sequencing
por: Sun, Beili, et al.
Publicado: (2017)

Tax4Fun2: prediction of habitat-specific functional profiles and functional redundancy based on 16S rRNA gene sequences
por: Wemheuer, Franziska, et al.
Publicado: (2020)

Quantification of variation and the impact of biomass in targeted 16S rRNA gene sequencing studies
por: Bender, Jeffrey M., et al.
Publicado: (2018)

Characterization of the 18S rRNA Gene for Designing Universal Eukaryote Specific Primers
por: Hadziavdic, Kenan, et al.
Publicado: (2014)

A primer on deep learning and convolutional neural networks for clinicians
por: Iglesias, Lara Lloret, et al.
Publicado: (2021)

A primer on rhythm quantification for fish sounds: a Mediterranean case study
por: Burchardt, Lara S., et al.
Publicado: (2021)

High-Throughput Sequencing of 16S rRNA Gene Amplicons: Effects of Extraction Procedure, Primer Length and Annealing Temperature
por: Sergeant, Martin J., et al.
Publicado: (2012)

Novel PCR Primers for the Archaeal Phylum Thaumarchaeota Designed Based on the Comparative Analysis of 16S rRNA Gene Sequences
por: Hong, Jin-Kyung, et al.
Publicado: (2014)

Assessment of 16S rRNA gene primers for studying bacterial community structure and function of aging flue-cured tobaccos
por: Wang, Fan, et al.
Publicado: (2018)

Detection of bacterial endosymbionts in freshwater crustaceans: the applicability of non-degenerate primers to amplify the bacterial 16S rRNA gene
por: Mioduchowska, Monika, et al.
Publicado: (2018)

Selecting 16S rRNA Primers for Microbiome Analysis in a Host–Microbe System: The Case of the Jellyfish Rhopilema nomadica
por: Barak, Noga, et al.
Publicado: (2023)

The Influence of DNA Extraction Procedure and Primer Set on the Bacterial Community Analysis by Pyrosequencing of Barcoded 16S rRNA Gene Amplicons
por: Starke, Ingo C., et al.
Publicado: (2014)

16S rRNA gene sequencing of mock microbial populations- impact of DNA extraction method, primer choice and sequencing platform
por: Fouhy, Fiona, et al.
Publicado: (2016)

Cannot write session to /tmp/vufind_sessions/sess_uflt6acgq9dmjuf59sa76hk4qc