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The utility of DNA extracted from saliva for genome-wide molecular research platforms
OBJECTIVE: The study aimed to investigate the suitability of DNA extracted from saliva for high throughput molecular genotyping and DNA methylation platforms by comparing its performance with that of DNA extracted from blood. The genome-wide methylation profile, using the Infinium HumanMethylation45...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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BioMed Central
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5759806/ https://www.ncbi.nlm.nih.gov/pubmed/29310721 http://dx.doi.org/10.1186/s13104-017-3110-y |
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author | Bruinsma, Fiona J. Joo, Jihoon E. Wong, Ee Ming Giles, Graham G. Southey, Melissa C. |
author_facet | Bruinsma, Fiona J. Joo, Jihoon E. Wong, Ee Ming Giles, Graham G. Southey, Melissa C. |
author_sort | Bruinsma, Fiona J. |
collection | PubMed |
description | OBJECTIVE: The study aimed to investigate the suitability of DNA extracted from saliva for high throughput molecular genotyping and DNA methylation platforms by comparing its performance with that of DNA extracted from blood. The genome-wide methylation profile, using the Infinium HumanMethylation450 Beadchip array(®) (Illumina, San Diego, CA), was measured for 20 DNA samples. Common genetic variation was measured, using the Infinium HumanCore Beadchip(®) (Illumina, San Diego, CA) for 4 samples (matching samples from 2 people). RESULTS: DNA from blood and saliva returned genotyping call rates and reproducibility frequencies of > 99%. High-quality DNA methylation data was obtained from both saliva and blood DNA, with average detection p-values for each sample ranging from 0.001 to 0.006. Slightly higher global DNA methylation levels were observed in whole blood DNA than saliva DNA. Correlations between individuals for each sample type were generally greater than correlations between two sample types from the same individual (Pearson’s correlation, r = 0.9696 in 10 pairs of matched blood and saliva derived DNA, r = 0.9702 between saliva samples, and r = 0.9769 between blood derived DNA). Saliva yields DNA of sufficient quantity and quality to compare favourably with blood as a source of DNA for genetic and epigenetic research purposes. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s13104-017-3110-y) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-5759806 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-57598062018-01-16 The utility of DNA extracted from saliva for genome-wide molecular research platforms Bruinsma, Fiona J. Joo, Jihoon E. Wong, Ee Ming Giles, Graham G. Southey, Melissa C. BMC Res Notes Research Note OBJECTIVE: The study aimed to investigate the suitability of DNA extracted from saliva for high throughput molecular genotyping and DNA methylation platforms by comparing its performance with that of DNA extracted from blood. The genome-wide methylation profile, using the Infinium HumanMethylation450 Beadchip array(®) (Illumina, San Diego, CA), was measured for 20 DNA samples. Common genetic variation was measured, using the Infinium HumanCore Beadchip(®) (Illumina, San Diego, CA) for 4 samples (matching samples from 2 people). RESULTS: DNA from blood and saliva returned genotyping call rates and reproducibility frequencies of > 99%. High-quality DNA methylation data was obtained from both saliva and blood DNA, with average detection p-values for each sample ranging from 0.001 to 0.006. Slightly higher global DNA methylation levels were observed in whole blood DNA than saliva DNA. Correlations between individuals for each sample type were generally greater than correlations between two sample types from the same individual (Pearson’s correlation, r = 0.9696 in 10 pairs of matched blood and saliva derived DNA, r = 0.9702 between saliva samples, and r = 0.9769 between blood derived DNA). Saliva yields DNA of sufficient quantity and quality to compare favourably with blood as a source of DNA for genetic and epigenetic research purposes. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s13104-017-3110-y) contains supplementary material, which is available to authorized users. BioMed Central 2018-01-08 /pmc/articles/PMC5759806/ /pubmed/29310721 http://dx.doi.org/10.1186/s13104-017-3110-y Text en © The Author(s) 2018 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Research Note Bruinsma, Fiona J. Joo, Jihoon E. Wong, Ee Ming Giles, Graham G. Southey, Melissa C. The utility of DNA extracted from saliva for genome-wide molecular research platforms |
title | The utility of DNA extracted from saliva for genome-wide molecular research platforms |
title_full | The utility of DNA extracted from saliva for genome-wide molecular research platforms |
title_fullStr | The utility of DNA extracted from saliva for genome-wide molecular research platforms |
title_full_unstemmed | The utility of DNA extracted from saliva for genome-wide molecular research platforms |
title_short | The utility of DNA extracted from saliva for genome-wide molecular research platforms |
title_sort | utility of dna extracted from saliva for genome-wide molecular research platforms |
topic | Research Note |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5759806/ https://www.ncbi.nlm.nih.gov/pubmed/29310721 http://dx.doi.org/10.1186/s13104-017-3110-y |
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