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Human Nail Clippings as a Source of DNA for Genetic Studies.

Truong L, Park HL, Chang SS, Ziogas A, Neuhausen SL, Wang SS, Bernstein L, Anton-Culver H - Open J Epidemiol (2015)

Bottom Line: From extracted nail DNA, we achieved amplicons up to a length of ~400 bp and >96% concordance for SNP genotyping and 100% concordance for -allele detection compared to DNA derived from matched blood samples.For whole-genome amplification, OmniPlex performed better than Multiple Displacement Amplification with a success rate of 89.3% and 76.8% for SNP genotyping and -allele detection, respectively.Concordance was ~98% for both methods.

View Article: PubMed Central - PubMed

Affiliation: Department of Epidemiology, Genetic Epidemiology Research Institute, University of California, Irvine, CA, USA.

ABSTRACT

Blood samples have traditionally been used as the main source of DNA for genetic analysis. However, this source can be difficult in terms of collection, transportation, and long-term storage. In this study, we investigated whether human nail clippings could be used as a source of DNA for SNP genotyping, -allele detection, and whole-genome amplification. From extracted nail DNA, we achieved amplicons up to a length of ~400 bp and >96% concordance for SNP genotyping and 100% concordance for -allele detection compared to DNA derived from matched blood samples. For whole-genome amplification, OmniPlex performed better than Multiple Displacement Amplification with a success rate of 89.3% and 76.8% for SNP genotyping and -allele detection, respectively. Concordance was ~98% for both methods. When combined with OmniPlex whole-genome amplification, human nail clippings could potentially be used as an alternative to whole blood as a less invasive and more convenient source of DNA for genotyping studies.

No MeSH data available.


(a) PCR products of different amplicon sizes for CO1 and BRCA1. All 14 samples and negative controls (−) were loaded onto a 3% TBE agarose gel pre-stained with ethidium bromide, separated by electrophoresis, and viewed under UV light. M: 100 bp molecular ladder. (b) WGA products on 2% TBE agarose pre-stained with ethidium bromide, separated by electrophoresis, and viewed under UV light. M: 100bp molecular ladder.
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Figure 1: (a) PCR products of different amplicon sizes for CO1 and BRCA1. All 14 samples and negative controls (−) were loaded onto a 3% TBE agarose gel pre-stained with ethidium bromide, separated by electrophoresis, and viewed under UV light. M: 100 bp molecular ladder. (b) WGA products on 2% TBE agarose pre-stained with ethidium bromide, separated by electrophoresis, and viewed under UV light. M: 100bp molecular ladder.

Mentions: All nail samples were successfully amplified by single-fragment PCR for both COI and BRCA1 when the amplicon sizes were up to ~400 bp (Figure 1(a)). Sample 4 showed weak signals for all reactions despite a high PicoGreen: NanoDrop ratio and 260/280 UV absorbance ratio of 1.61. However, its 260/230 UV absorbance ratio was 5.13, suggesting that a high salt concentration may have hindered the amplification reaction. The success rate decreased to 79% (11/14) when amplicon size was increased to 600 bp and was poorest at 900 bp, with only 50% (7/14) of samples being successfully amplified.


Human Nail Clippings as a Source of DNA for Genetic Studies.

Truong L, Park HL, Chang SS, Ziogas A, Neuhausen SL, Wang SS, Bernstein L, Anton-Culver H - Open J Epidemiol (2015)

(a) PCR products of different amplicon sizes for CO1 and BRCA1. All 14 samples and negative controls (−) were loaded onto a 3% TBE agarose gel pre-stained with ethidium bromide, separated by electrophoresis, and viewed under UV light. M: 100 bp molecular ladder. (b) WGA products on 2% TBE agarose pre-stained with ethidium bromide, separated by electrophoresis, and viewed under UV light. M: 100bp molecular ladder.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4499506&req=5

Figure 1: (a) PCR products of different amplicon sizes for CO1 and BRCA1. All 14 samples and negative controls (−) were loaded onto a 3% TBE agarose gel pre-stained with ethidium bromide, separated by electrophoresis, and viewed under UV light. M: 100 bp molecular ladder. (b) WGA products on 2% TBE agarose pre-stained with ethidium bromide, separated by electrophoresis, and viewed under UV light. M: 100bp molecular ladder.
Mentions: All nail samples were successfully amplified by single-fragment PCR for both COI and BRCA1 when the amplicon sizes were up to ~400 bp (Figure 1(a)). Sample 4 showed weak signals for all reactions despite a high PicoGreen: NanoDrop ratio and 260/280 UV absorbance ratio of 1.61. However, its 260/230 UV absorbance ratio was 5.13, suggesting that a high salt concentration may have hindered the amplification reaction. The success rate decreased to 79% (11/14) when amplicon size was increased to 600 bp and was poorest at 900 bp, with only 50% (7/14) of samples being successfully amplified.

Bottom Line: From extracted nail DNA, we achieved amplicons up to a length of ~400 bp and >96% concordance for SNP genotyping and 100% concordance for -allele detection compared to DNA derived from matched blood samples.For whole-genome amplification, OmniPlex performed better than Multiple Displacement Amplification with a success rate of 89.3% and 76.8% for SNP genotyping and -allele detection, respectively.Concordance was ~98% for both methods.

View Article: PubMed Central - PubMed

Affiliation: Department of Epidemiology, Genetic Epidemiology Research Institute, University of California, Irvine, CA, USA.

ABSTRACT

Blood samples have traditionally been used as the main source of DNA for genetic analysis. However, this source can be difficult in terms of collection, transportation, and long-term storage. In this study, we investigated whether human nail clippings could be used as a source of DNA for SNP genotyping, -allele detection, and whole-genome amplification. From extracted nail DNA, we achieved amplicons up to a length of ~400 bp and >96% concordance for SNP genotyping and 100% concordance for -allele detection compared to DNA derived from matched blood samples. For whole-genome amplification, OmniPlex performed better than Multiple Displacement Amplification with a success rate of 89.3% and 76.8% for SNP genotyping and -allele detection, respectively. Concordance was ~98% for both methods. When combined with OmniPlex whole-genome amplification, human nail clippings could potentially be used as an alternative to whole blood as a less invasive and more convenient source of DNA for genotyping studies.

No MeSH data available.