Lactase persistence genotyping: rapid detection of seven sequence variants in a single tube with melting curve analyses.

Abstract:

BACKGROUND:Lactase persistence is an inherited autosomal dominant trait that confers the ability to digest lactose after weaning. Lactose persistence is caused by single nucleotide variants in a regulatory element for the lactase gene (LCT). In Europeans, lactase persistence is associated with the nucleotide variant LCT -13910C>T. Ethnic groups from Africa and the Arabian Peninsula have other lactase persistence variants in close proximity to the -13910C>T variant. Current hybridisation probe analysis methods have been limited by the inability to detect all the known nucleotide variants. The aim of this study was to devise a method based on hybridisation probes and melting curve analysis for rapidly detecting LCT variants. METHODS:We designed hybridisation probes for producing melting curve profiles that could identify seven LCT nucleotide variants: -13907C>G, -13910C>T, -13913T>C, -13914G>A, -13915T>G, -14009T>G, and -14010G>C. To validate the assay, we generated plasmid standards of all the alleles and mixed them to create artificial heterozygote samples. RESULTS:All genotypes could be detected in a single tube assay. Rare genotypes were confirmed in a second assay with probes that had different complementary sequences. CONCLUSIONS:This assay can be used for rapidly genotyping lactase persistence in multi-ethnic populations.

journal_name

Clin Chem Lab Med

authors

Strand H,Sørensen LK,Ingebretsen OC

doi

10.1515/cclm-2014-0123

subject

Has Abstract

pub_date

2014-09-01 00:00:00

pages

1277-82

issue

9

eissn

1434-6621

issn

1437-4331

pii

/j/cclm.ahead-of-print/cclm-2014-0123/cclm-2014-01

journal_volume

52

pub_type

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