Data from: Limitations of common molecular markers in fungal biodiversity analysis and the benefits of their synergistic use

High-throughput sequencing of the Internal Transcribed Spacer (ITS)
regions is the primary method for estimating fungal diversity from
environmental DNA. However, reliance solely on ITS markers is complicated
by its high variability in sequence length and the presence of multiple
variants within a single genome, which can bias diversity
estimates. The core objective of the dataset is to provide a
comparative analysis of the ITS regions (ITS1 and ITS2) against five
alternative markers: Mitochondrial Large Subunit ribosomal DNA (mtLSU),
the second largest subunit of RNA polymerase II (rpb2a and rpb2b regions),
the translation elongation factor 1-alpha (ef1-α), and the minichromosome
maintenance complex component 7 (mcm7). The data comprises raw Illumina
MiSeq amplicon sequences (FASTQ format) derived from a mock community of
413 fungal species belonging to Ascomycota, Basidiomycota, Mucoromycota,
and Zoopagomycota. It also includes manually curated reference sequences
(FASTA format) and supplementary tabular data mapping primers and tags to
samples. These data have high reuse potential for bioinformatics
benchmarking and for testing or validating fungal barcode identification
pipelines. These data are provided as open-access resources and
are fully open for reusage.