ArticleThe Journal of parasitology2026
HOOKSNIP: A BROWSER TOOL FOR DESIGNING ALLELE-SPECIFIC PCR PRIMERS IN HOOKWORM.
Article in The Journal of parasitology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Surveillance for anthelmintic resistance in hookworms requires low-cost, field-deployable genotyping strategies. Allele-specific PCR (AS-PCR) is attractive because it discriminates single-nucleotide polymorphisms (SNPs) at the 3' end of a primer without sequencing infrastructure, thereby enabling rapid detection of drug-resistance markers directly from eggs or larvae. Here, we present hookSNiP (https://ohalloranlab.net/hooksnip), a browser-based application that designs allele-specific primer pairs for Ancylostoma species. The tool provides curated reference genomes, validation of variant call format (VCFs) and genome sequence compatibility, strand-aware primer orientation using gene annotations, and tiered rescue modes when strict primer design constraints cannot be met. By combining these features with AS-PCR, hookSNiP reduces practical barriers to SNP validation and expands the feasibility of large-scale resistance monitoring.
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