Development of a qPCR assay for Fasciola spp. identification and deep amplicon sequencing method for differentiation of fluke species in UK livestock

Published: 9 January 2026| Version 2 | DOI: 10.17632/zyvwc6ppy8.2
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Description

Development of a qPCR assay and a tremabiome deep amplicon sequencing for fluke species differentiation in the UK livestock

Files

Steps to reproduce

Faecal sedimentation, DNA extraction, PCR using ITS-2 rDNA marker targeting coding regions of 5.8S and 28S rDNA, Next generation sequencing library prep, Next generation sequencing via MiSeq, Illumina MiSeq data analysis in Mothur/1.41.0-Python-2.7.15, R script using libraries phylotools, microseq, tidyverse, seqRFLP, readxl, writexl, ggh4x, Biostrings package, and NCBI BLASTn loop command using “blastn: 2.16.0+” in the HPC cluster system

Institutions

  • University of Surrey

Categories

Molecular Biology, Parasitology, Trematode, Fasciola hepatica, Fasciola

Funders

Licence