In silico assessment of 18S rDNA metabarcoding markers for the characterization of nematode communities.

ABSTRACT: Nematodes are keystone actors of soil, freshwater and marine ecosystems, but the complexity of morphological identification has limited broad-scale monitoring of nematode biodiversity. DNA metabarcoding is increasingly used to assess nematode diversity but requires universal primers with high taxonomic coverage and high taxonomic resolution. Several primers have been proposed for the metabarcoding of nematode diversity, many of which target the 18S rRNA gene. In silico analyses have a great potential to assess key parameters of primers, including taxonomic coverage, resolution and specificity. Based on a recently-available reference database, we tested in silico the performance of fourteen commonly used and one newly optimized primer for nematode metabarcoding. Most primers showed very goo

SUBMITTER: Ficetola GF 

PROVIDER: S-EPMC10997105 | biostudies-literature | 2024

REPOSITORIES: biostudies-literature