Please use this identifier to cite or link to this item: http://hdl.handle.net/10668/4402
Title: Influence of 16S rRNA target region on the outcome of microbiome studies in soil and saliva samples
Authors: Soriano-Lerma, Ana
Pérez-Carrasco, Virginia
Sánchez-Marañón, Manuel
Ortiz-González, Matilde
Sánchez-Martín, Victoria
Gijón, Juan
Navarro-Mari, José María
García-Salcedo, José Antonio
Soriano, Miguel
metadata.dc.contributor.authoraffiliation: [Soriano-Lerma,A] Department of Physiology (Faculty of Pharmacy, Campus Universitario de Cartuja), Institute of Nutrition and Food Technology “José Mataix”, University of Granada, Granada, Spain. [Soriano-Lerma,A; Pérez-Carrasco,V; Ortiz-González,M; Sánchez-Martín,V; García-Salcedo,JA; Soriano,M] GENYO. Centre for Genomics and Oncological Research: Pfzer/University of Granada/Andalusian Regional Government, PTS Granada, Granada, Spain. [Pérez-Carrasco,V; Sánchez-Martín,V; Navarro-Mari,JM; García-Salcedo,JA] Microbiology Unit, Biosanitary Research Institute IBS.Granada, University Hospital Virgen de las Nieves, Granada, Spain. [Sánchez-Marañón,M] Department of Soil Science and Agricultural Chemistry, University of Granada, Granada, Spain. [Ortiz-González,M; Soriano,M] Center for Intensive Mediterranean Agrosystems and Agri‑Food Biotechnology (CIAIMBITAL), University of Almeria, Almería, Spain. [Gijón,J] Department of Periodontics, School of Dentistry, University of Granada, Granada, Spain.
Keywords: RNA, ribosomal, 16S;Saliva;Microbiota;Soil;Bacteria;Biomarkers;ARN ribosómico 16S;Suelo;Bacterias;Biomarcadores
metadata.dc.subject.mesh: Medical Subject Headings::Organisms::Bacteria
Medical Subject Headings::Disciplines and Occupations::Natural Science Disciplines::Biological Science Disciplines::Biology::Computational Biology
Medical Subject Headings::Chemicals and Drugs::Nucleic Acids, Nucleotides, and Nucleosides::Nucleic Acids::DNA::DNA, Bacterial
Medical Subject Headings::Phenomena and Processes::Genetic Phenomena::Genetic Variation
Medical Subject Headings::Analytical, Diagnostic and Therapeutic Techniques and Equipment::Investigative Techniques::Genetic Techniques::Sequence Analysis::High-Throughput Nucleotide Sequencing
Medical Subject Headings::Organisms::Eukaryota::Animals::Chordata::Vertebrates::Mammals::Primates::Haplorhini::Catarrhini::Hominidae::Humans
Medical Subject Headings::Phenomena and Processes::Genetic Phenomena::Phylogeny
Medical Subject Headings::Chemicals and Drugs::Nucleic Acids, Nucleotides, and Nucleosides::Nucleic Acids::RNA::RNA, Ribosomal::RNA, Ribosomal, 16S
Medical Subject Headings::Anatomy::Fluids and Secretions::Bodily Secretions::Saliva
Medical Subject Headings::Analytical, Diagnostic and Therapeutic Techniques and Equipment::Investigative Techniques::Genetic Techniques::Sequence Analysis::Sequence Analysis, DNA
Medical Subject Headings::Chemicals and Drugs::Complex Mixtures::Soil
Medical Subject Headings::Phenomena and Processes::Genetic Phenomena::Genetic Structures::Genome::Metagenome
Medical Subject Headings::Phenomena and Processes::Microbiological Phenomena::Microbiota
Medical Subject Headings::Chemicals and Drugs::Biological Factors::Biological Markers
Issue Date: 12-Aug-2020
Publisher: Springer Nature
Citation: Soriano-Lerma A, Pérez-Carrasco V, Sánchez-Marañón M, Ortiz-González M, Sánchez-Martín V, Gijón J, et al. Influence of 16S rRNA target region on the outcome of microbiome studies in soil and saliva samples. Sci Rep. 2020 Aug 12;10(1):13637
Abstract: Next generation sequencing methods are widely used in evaluating the structure and functioning of microbial communities, especially those centered on 16S rRNA subunit. Since Illumina Miseq, the most used sequencing platform, does not allow the full sequencing of 16S rRNA gene, this study aims to evaluate whether the choice of different target regions might affect the outcome of microbiome studies regarding soil and saliva samples. V1V3, V3V4, V4V5 and V6V8 domains were studied, finding that while some regions showed differences in the detection of certain bacterial taxa and in the calculation of alpha diversity, especially in soil samples, the overall effect did not compromise the differentiation of any sample type in terms of taxonomic analysis at the genus level. 16S rRNA target regions did affect the detection of specific bacteria related to soil quality and development, and microbial genera used as health biomarkers in saliva. V1V3 region showed the closest similarity to internal sequencing control mock community B, suggesting it might be the most preferable choice regarding data reliability.
URI: http://hdl.handle.net/10668/4402
metadata.dc.relation.publisherversion: https://www.nature.com/articles/s41598-020-70141-8
metadata.dc.identifier.doi: 10.1038/s41598-020-70141-8
ISSN: 2045-2322 (Online)
Appears in Collections:01- Artículos - GENYO. Centro Pfizer-Andalucía de Genómica e Investigación Oncológica
01- Artículos - Hospital Virgen de las Nieves
01- Artículos - ibsGRANADA. Instituto de Investigación Biosanitaria de Granada

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