Workflow for SNP genotyping using the Hi-Plex method v2 - INRAE - Institut national de recherche pour l’agriculture, l’alimentation et l’environnement Access content directly
Preprints, Working Papers, ... (Preprint) Year : 2023

Workflow for SNP genotyping using the Hi-Plex method v2


Many research questions in ecology and evolution require balancing sampling strategies between their spatial (how many populations? on which geographical, environmental gradients?), temporal (diachronic approaches), and genomic (how many and which loci?) dimensions. High-throughput molecular biology protocols often offer very good genomic coverage, but this is often only achievable at the expense of other sampling dimensions. This has led to the development of targeted genotyping strategies for SNP locus sets, in addition to whole or reduced genome sequencing strategies. We here present an adaptation of a protocol developed by the University of Melbourne for genotyping rare variants in human oncology to non model species for use in ecology and evolution. Hi-Plex is an amplicon sequencing technique (sensu Meek & Larson 2019) in which all loci are co-amplified in a multiplex reaction before Illumina or Ion Torrent sequencing (we used Illumina). Intermediate steps include dual indexing of individual samples used for demultiplexing.
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Dates and versions

hal-04189250 , version 1 (28-08-2023)



Anne-Laure Besnard, Daniel J. Park, Bernard J., Fleur M.A. Hammet, Sophie Michon-Coudouel, et al.. Workflow for SNP genotyping using the Hi-Plex method v2. 2023. ⟨hal-04189250⟩
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