A Metabarcoding Protocol to Analyze Coastal Planktic Communities Collected by Desalination Plant Filters: From Sampling to Bioinformatic Exploratory Analyses

Matteo Cecchetto; Andrea Di Cesare; Ester Eckert; Isabella Moro; Diego Fontaneto; Stefano Schiaparelli

doi:10.1007/978-1-0716-2313-8_8

A Metabarcoding Protocol to Analyze Coastal Planktic Communities Collected by Desalination Plant Filters: From Sampling to Bioinformatic Exploratory Analyses

Methods Mol Biol. 2022:2498:151-176. doi: 10.1007/978-1-0716-2313-8_8.

Authors

Matteo Cecchetto^{1

2}, Andrea Di Cesare³, Ester Eckert³, Isabella Moro⁴, Diego Fontaneto³, Stefano Schiaparelli^{5

6}

Affiliations

¹ Italian National Antarctic Museum (MNA, Section of Genoa), University of Genoa, Genoa, Italy. matteocecchetto@gmail.com.
² Department of Earth, Environmental and Life Science (DISTAV), University of Genoa, Genoa, Italy. matteocecchetto@gmail.com.
³ National Research Council of Italy, Water Research Institute (CNR-IRSA), Verbania Pallanza, Italy.
⁴ Department of Biology, University of Padova, Padua, Italy.
⁵ Italian National Antarctic Museum (MNA, Section of Genoa), University of Genoa, Genoa, Italy.
⁶ Department of Earth, Environmental and Life Science (DISTAV), University of Genoa, Genoa, Italy.

PMID: 35727544
DOI: 10.1007/978-1-0716-2313-8_8

Abstract

The temporal dynamics of coastal planktic communities can be disclosed through DNA metabarcoding on the filters of reverse-osmosis desalination plants. Here, we describe the steps that are necessary to process the filters in order to create the subsamples used for DNA extraction and the bioinformatic pipeline to perform the first exploratory analyses on this kind of dataset.

Keywords: Bioinformatic protocol; Coastal plankton; DNA metabarcoding; Desalination plant; Monitoring.

MeSH terms

Computational Biology*
DNA Barcoding, Taxonomic / methods
Filtration
Plants* / genetics