Sequence Data from "Antarctic coastal nanoplankton dynamics revealed by metabarcoding of desalination plant filters: detection of short-term events and implications for routine monitoring"

Published: 07-10-2020| Version 1 | DOI: 10.17632/89xmbhsgvc.1
Contributor:
Matteo Cecchetto

Description

This dataset includes the original, unmodified demultiplexed fastq files for the submitted paper "Antarctic coastal nanoplankton dynamics revealed by metabarcoding of desalination plant filters: detection of short-term events and implications for routine monitoring". In this paper we have focused on the availability of desalination plant filters in use at the Italian research base (Mario Zucchelli) to monitor coastal plankton communities of the Terra Nova Bay area (Ross Sea). Filters are here used to decrease the amount of organisms and debris in the input seawater before the desalination processes take place, hence they automatically collect the plankton present in the water column around the desalination system intake. Sampling was carried out in January and February of 2012 and 2013 enabling the collection of a total of eleven 5µm cartridge filters (five in 2012, from the 25th of January to the 4th of February, and six in 2013, from the 8th to the 25th of January). Sample names identify the day it each filter was sampled. For example, the filter “30_1_12” was sampled the 30th of January of 2012. These filters, measuring 50.8 cm of length and 6.4 cm of diameter, were kept at -20°C until summer 2018, when they were processed for the molecular analyses. Three replicates were obtained from each filter (one at the top, one in the middle and one at the end of the filter in order to cover all its length), for a total of 33 replicates. PCR amplification and sequencing of the 16S rRNA and 18S rRNA genes, for bacteria and eukaryotes respectively, were performed by IGA Technology (Udine, Italy). The primers used for the V3 and V4 regions of 16S rRNA gene (approximately 450bp) were chosen from Herlemann et al. (2011) and have the following IUPAC codes (comprising the Illumina adapters): 341F - 5' TCGTCGGCAGCGTCAGATGTGTATAAGAGACAGCCTACGGGNGGCWGCAG 3’ and 805R - 5’ GTCTCGTGGGCTCGGAGATGTGTATAAGAGACAGGACTACHVGGGTATCTAATCC 3’. The primers used for the V4 and V5 regions of the 18S rRNA gene (approximately 550bp) were selected from Hugerth et al. (2012) and have the following sequences (comprising the Illumina adapters): 574*F – 5’ TCGTCGGCAGCGTCAGATGTGTATAAGAGACAGCGGTAAYTCCAGCTCYV 3’ and 1132R – 5’ GTCTCGTGGGCTCGGAGATGTGTATAAGAGACACCGTCAATTHCTTYAART 3’. Filenames are thus composed of the code "ID1261", the gene name, the microplate position, the original sample name composed of the replicate code (E1, C and E2 for the top, middle and bottom replicate respectively) followed by the date of sampling (e.g. E130112 for the replicate E1 of the filter sampled in January the 30th of 2012), the sample code given by the institution in which the analyses were run, the lane number and the read type (R1 forward, R2 reverse). The sampling date and hours of filtering activity corresponding to each filename are provided in the "sample_info.txt" file.

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