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Gumińska, Natalia; Łukomska-Kowalczyk, Maja; Chaber, Katarzyna; Zakryś, Bożena; Milanowski, Rafał, 2020, "Reference database of V2 18S rDNA barcode sequences of autotrophic euglenids", https://doi.org/10.18150/9MKYCN, RepOD, V2
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Version 1. (reference database used in publication 'Evaluation of V2 18S rDNA barcode and assessment of sample collection and DNA extraction methods for metabarcoding of autotrophic euglenids').
The deposited dataset contains 466 sequences of hypervariable V2 region of 18S rDNA belonging to 156 species of autotrophic euglenids. Dataset can be used as reference sequence library in barcoding or metabarcoding studies concerning that group of organisms. Sequences were trimmed based on sequences of euglenid specific primers targeting V2 18S rDNA fragment. Species assignment of 424 sequences originating from GenBank database were verified based on literature data. Following 42 sequences stem from environmental isolates and were assigned to species based on cell morphology and phylogenetic position of sequences.
Unaligned sequences are deposited in a single fasta file with headers following the scheme:
> strain/isolate number|GenBank accession number|Genus_species
Version 2. (reference database used in publication 'Biodiversity of autotrophic euglenids based on the group specific DNA metabarcoding approach').
The deposited dataset contains 714 sequences of hypervariable V2 region of 18S rDNA belonging to 196 species of autotrophic euglenids. Dataset can be used as reference sequence library in barcoding or metabarcoding studies concerning that group of organisms. Sequences were trimmed based on sequences of euglenid specific primers targeting V2 18S rDNA fragment. Species assignment of sequences originating from GenBank database were verified based on literature data. Sequences stem from environmental isolates and were assigned to species based on cell morphology and phylogenetic position of sequences.
DNA barcodes, V2 18S rDNA, autotrophic euglenids, Euglenida
Gumińska, N., Łukomska-Kowalczyk, M., Chaber, K., Zakryś, B., & Milanowski, R., 2021. Evaluation of V2 18S rDNA barcode and assessment of sample collection and DNA extraction methods for metabarcoding of autotrophic euglenids. Environmental Microbiology, vol. 23, no. 6, pp. 2992–3008, https://doi.org/10.1111/1462-2920.15495 https://doi.org/10.1111/1462-2920.15495 doi: 10.1111/1462-2920.15495
Open Data Commons Open Database License 1.0
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