Sensitive and accurate DNA metabarcoding of parasitic helminth mock communities using the mitochondrial rRNA genes

Next-generation sequencing technologies have accelerated the pace of helminth DNA metabarcoding research, enabling species detection in bulk community samples. However, finding suitable genetic markers with robust species-level resolution and primers targeting a broad species range among parasitic h...

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Bibliographic Details
Published in:Scientific reports 2022-06, Vol.12 (1), p.9947-9947, Article 9947
Main Authors: Chan, Abigail Hui En, Saralamba, Naowarat, Saralamba, Sompob, Ruangsittichai, Jiraporn, Chaisiri, Kittipong, Limpanont, Yanin, Charoennitiwat, Vachirapong, Thaenkham, Urusa
Format: Article
Language:English
Subjects:
631/1647/514/2254
631/208/721
Bar codes
Biodiversity
Deoxyribonucleic acid
DNA
Genes
Genetic markers
Humanities and Social Sciences
Medicine
Mitochondria
multidisciplinary
Nematodes
Next-generation sequencing
rRNA 12S
rRNA 16S
Science
Science (multidisciplinary)
Species
Taxonomy
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Summary:Next-generation sequencing technologies have accelerated the pace of helminth DNA metabarcoding research, enabling species detection in bulk community samples. However, finding suitable genetic markers with robust species-level resolution and primers targeting a broad species range among parasitic helminths are some of the challenges faced. This study aimed to demonstrate the potential use of the mitochondrial 12S and 16S rRNA genes for parasitic helminth (nematodes, trematodes, cestodes) DNA metabarcoding. To demonstrate the robustness of the 12S and 16S rRNA genes for DNA metabarcoding, we determined the proportion of species successfully recovered using mock helminth communities without environment matrix and mock helminth communities artificially spiked with environmental matrices. The environmental matrices are human fecal material, garden soil, tissue, and pond water. Our results revealed the robustness of the mitochondrial rRNA genes, through the high sensitivity of the 12S rRNA gene, and the effectiveness of the 12S and 16S primers targeting platyhelminths. With the mitochondrial rRNA genes, a broad range of parasitc helminths were successfully detected to the species level. The potential of the mitochondrial rRNA genes for helminth DNA metabarcoding was demonstrated, providing a valuable gateway for future helminth DNA metabarcoding applications like helminth detection and biodiversity studies.
ISSN:2045-2322
2045-2322
DOI:10.1038/s41598-022-14176-z