A novel detection method for heteroduplex DNA using carbodiimide-induced interrupted primer extension

https://www.pagepress.org/journals/jnai/workflow/index/1577/4#publication/issue:~:text=Cover%20Image-,Alternate,-text
Submitted: 20 December 2009
Accepted: 20 April 2010
Published: 3 June 2010
Abstract Views: 1142
PDF: 543
HTML: 11434
Publisher's note
All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article or claim that may be made by its manufacturer is not guaranteed or endorsed by the publisher.

Authors

Direct sequencing may be problematic in demonstrating mutations where inherited disease results from multiple different heterozygous variants in large genes. We describe here a novel mutation screening method based on the ability of carbodiimide to bind mismatched DNA and interrupt primer extension thereby identifying both a heterozygous variant and its location. This assay detected all four classes of DNA mismatch in 550 bp engineered plasmid fragments and in two dominantly inherited renal diseases. In patients with thin basement membrane nephropathy, the method demonstrated multiple variants within a single amplicon including some close to the primer binding site. This method also detected a complex mutation in medullary cystic kidney disease type 2 (c.278-289 del/insCCGGCTCCT) as multiple termination events and, furthermore, correctly identified five affected and 28 unaffected family members. Carbodiimide-induced interrupted primer extension identifies heterozygous variants in large or multiexonic genes, where the variants differ in each family, their locations are unknown, and even if there are multiple known non-pathogenic variants within the same amplicon. This assay incorporates a “universal” protocol that detects all types of mutations without the need for further optimization, and potentially detects mutations where the proportion of heteroduplex is less than 50%.

Dimensions

Altmetric

PlumX Metrics

Downloads

Download data is not yet available.

Citations

Supporting Agencies

National Health and Medical Research Council

How to Cite

Tabone, T., Cotton, R., Mathew, N., Parkin, J. D., & Savige, J. (2010). A novel detection method for heteroduplex DNA using carbodiimide-induced interrupted primer extension. Journal of Nucleic Acids Investigation. https://doi.org/10.4081/jnai.1577