{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Sugi T"],"funding":["Japan Agency for Medical Research and Development","Japan Society for the Promotion of Science Core-to-Core program"],"pagination":["41249"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC12639079"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["15(1)"],"pubmed_abstract":["Microscopic examination is commonly used for blood parasite detection in resource-limited settings due to its low cost and simplicity. However, it requires microscopy experts and has poor species-level identification. This study proposes a targeted next-generation sequencing (NGS) approach using a portable nanopore platform to enable accurate and sensitive parasite detection in such settings. To improve species identification on the error-prone nanopore sequencer, we designed a DNA barcoding strategy targeting the 18S rDNA V4-V9 region, which outperformed the commonly used V9 region. To enrich parasite DNA and reduce host contamination, two blocking primers were developed: a C3 spacer-modified oligo competing with the universal reverse primer and a peptide nucleic acid (PNA) oligo that inh"],"journal":["Scientific reports"],"pubmed_title":["Enhanced blood parasite species identification using V4-V9 18S rDNA barcoding by universal primers on a nanopore platform."],"pmcid":["PMC12639079"],"funding_grant_id":["JPJSCCB20230007","JP24ym0126801","JP20wm0125008"],"pubmed_authors":["Hayashida K","Gaithuma AK","Kawai N","Ishiguro N","Reteng P","Namangala B","Sugi T","Mutengo MM","Yamagishi J"],"additional_accession":[]},"is_claimable":false,"name":"Enhanced blood parasite species identification using V4-V9 18S rDNA barcoding by universal primers on a nanopore platform.","description":"Microscopic examination is commonly used for blood parasite detection in resource-limited settings due to its low cost and simplicity. However, it requires microscopy experts and has poor species-level identification. This study proposes a targeted next-generation sequencing (NGS) approach using a portable nanopore platform to enable accurate and sensitive parasite detection in such settings. To improve species identification on the error-prone nanopore sequencer, we designed a DNA barcoding strategy targeting the 18S rDNA V4-V9 region, which outperformed the commonly used V9 region. To enrich parasite DNA and reduce host contamination, two blocking primers were developed: a C3 spacer-modified oligo competing with the universal reverse primer and a peptide nucleic acid (PNA) oligo that inh","dates":{"release":"2025-01-01T00:00:00Z","publication":"2025 Nov","modification":"2026-06-05T17:19:45.74Z","creation":"2026-05-19T03:11:49.434Z"},"accession":"S-EPMC12639079","cross_references":{"pubmed":["41271826"],"doi":["10.1038/s41598-025-25108-y"]}}