Plant sedDNA metabarcoding from lake surface sediments in Yakutia, Eastern Siberia

The dataset contains raw files from NGS sequencing using an Illumina device. The sequencing run APMG-60 includes forward file: 220627_NB501473_A_L1-4_APMG-60_R1.fastq, and a reverse file: 220627_NB501473_A_L1-4_APMG-60_R2.fastq, which were provided from amplicon sequencing of surface sediment samples of 64 sedimentary DNA (sedDNA). SedDNA extraction to polymerase chain reaction (PCR)-set-up steps were conducted from 64 surface samples in the paleogenetic laboratories at AWI under a cleaned and UV-irradiated working hood (Biosan, Latvia). DNA extractions were performed using the Dneasy PowerSoil Max DNA Isolation Kit (Qiagen, Germany) with about 5-8 g of sediment input, following established protocols (Epp et al. 2019). For PCR, we used standard primers targeting the chloroplast trnL P6 loop (Taberlet et al. 2007) for amplification of vascular plant DNA metabarcoding. APMG-60 pool of PCR samples was prepared and sent to Fasteris (Genesupport, Fasteris SA, Switzerland) for preparing a PCR-free library (using the metafast protocol) and sequencing in paired-end mode (2x 150 bp) on the NextSeq Illumina sequencing device (serial number NB501473) with NextSeq Mid kit (Illumina).