DNA sampling in the Gulf of Mexico on GOMECC-4 ...

Tourmaline files for processing of 16S (Bacteria and Archaea) and 18S (protists) DNA metabarcoding samples that were collected in the Gulf of Mexico as part of the fourth Gulf of Mexico Ecosystems and Carbon Cycle (GOMECC-4) cruise. These files are associated with the following project: https://gith...

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Bibliographic Details
Main Authors: Anderson, Sean, Silliman, Katherine, Barbero, Leticia, Gomez, Fabian, Stauffer, Beth, Schnetzer, Astrid, Kelble, Christopher, Thompson, Luke
Format: Dataset
Language:unknown
Published: Zenodo 2024
Subjects:
Metabarcoding
Ocean Acidification
Gulf of Mexico
Microbes
Ocean acidification
Online Access:https://dx.doi.org/10.5281/zenodo.13102579
https://zenodo.org/doi/10.5281/zenodo.13102579
Description
Summary:Tourmaline files for processing of 16S (Bacteria and Archaea) and 18S (protists) DNA metabarcoding samples that were collected in the Gulf of Mexico as part of the fourth Gulf of Mexico Ecosystems and Carbon Cycle (GOMECC-4) cruise. These files are associated with the following project: https://github.com/aomlomics/gomecc Tourmaline uses a Snakemake workflow and wraps programs like DADA2 and QIIME 2 to infer amplicon sequence variants (ASVs) and assigns taxonomy with common reference databases. All files from Tourmaline are included for 16S and 18S samples (separate folders). Taxonomic reference database files are also included for each marker region, which included SILVA (Version 138.1) and the Protistan Ribosomal Reference (PR2; Version 5.0.1) databases for 16S and 18S samples, respectively. 16S samples were sequenced on two different sequencing runs, and so, DADA2 in Tourmaline was performed separately on run 1 (plates 1-2) and 2 (plates 3-6) using the same parameters. With this approach, 16S ASV tables ...

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