Haplotype-level metabarcoding of freshwater macroinvertebrate species: A prospective tool for population genetic analysis.

ABSTRACT: Metabarcoding is a molecular-based tool capable of large quantity high-throughput species identification from bulk samples that is a faster and more cost-effective alternative to conventional DNA-sequencing approaches. Still, further exploration and assessment of the laboratory and bioinformatics strategies are required to unlock the potential of metabarcoding-based inference of haplotype information. In this study, we assessed the inference of freshwater macroinvertebrate haplotypes from metabarcoding data in a mock sample. We also examined the influence of DNA template concentration and PCR cycle on detecting true and spurious haplotypes. We tested this strategy on a mock sample containing twenty individuals from four species with known haplotypes based on the 658-bp Folmer region of the

SUBMITTER: Serrana JM 

PROVIDER: S-EPMC10365294 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature