Skin microbiota amplicon sequencing comparison (Nanopore and Illumina)
We amplicon sequenced regions of the 16S rRNA gene of two in-house synthetic mock communities and five human skin samples using Oxford Nanopore Technologies GridION and Illumina NextSeq 2000. Before amplification, 16S rRNA gene fragments intended for Nanopore sequencing were tagged with unique molecular identifiers, following the method described in https://doi.org/10.1093/pnasnexus/pgae411.  Analysis scripts are avaliable: https://github.com/evagrash/illumina_vs_nanopore_ssumi.git  Note: As of 17.08.2026 the uploaded Nanopore files are still processing.
We amplicon sequenced regions of the 16S rRNA gene of two in-house synthetic mock communities and five human skin samples using Oxford Nanopore Technologies GridION and Illumina NextSeq 2000. Before amplification, 16S rRNA gene fragments intended for Nanopore sequencing were tagged with unique molecular identifiers, following the method described in https://doi.org/10.1093/pnasnexus/pgae411.  Analysis scripts are avaliable: https://github.com/evagrash/illumina_vs_nanopore_ssumi.git  Note: As of 17.08.2026 the uploaded Nanopore files are still processing.