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Assessment of high-resolution melting (HRM) profiles as predictors of microsatellite variation: an example in Providence Petrel (Pterodroma solandri)

journal contribution
posted on 2023-05-18, 14:51 authored by Lombal, AJ, Wenner, TJ, Christopher BurridgeChristopher Burridge
High-resolution melting (HRM) analysis is an emerging technology to screen microsatellites for polymorphism. A potential issue surrounding this method is that amplicon sizes for HRM should typically be short (80–100 bp) for highest sensitivity to reveal polymorphism via the presence of two peaks in the curve of the derivative of fluorescence over temperature (dF/dT). In contrast, microsatellite amplicons are typically 100–400 bp. Therefore, we compared HRM analysis melting temperature range (ΔTm) and multiple dF/dT peaks for predicting microsatellite polymorphism. We assessed polymorphism at 27 microsatellite loci, with estimated lengths of 122–321 bp, in Providence Petrel (Pterodroma solandri). We validated HRM assessment using traditional capillary electrophoresis (CE). While 100 % of loci exhibiting multiple peaks in the dF/dT curve were confirmed as polymorphic by CE, 16 % improvement in sensitivity (83 vs. 67 %) was achieved by using ΔTm, and 25 % (92 vs. 67 %) by using ΔTm in addition to multiple dF/dT peaks. We suggest HRM melting temperature range as new predictor of polymorphism that can be used to rapidly assess microsatellites polymorphism.

Funding

Sea World Research and Rescue Foundation Inc

History

Publication title

Genes and Genomics

Volume

37

Issue

12

Pagination

977-983

ISSN

1976-9571

Department/School

School of Natural Sciences

Publisher

Genetics Society of Korea

Place of publication

Korea, Republic of

Rights statement

Copyright 2015 The Genetics Society of Korea and Springer-Science and Media

Repository Status

  • Restricted

Socio-economic Objectives

Expanding knowledge in the environmental sciences

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