MalaMix dataset: contextual and metabarcoding data
type: Item
instance of: data set
description: 1. INTRODUCTION MalaMix is a compiled metabarcoding dataset composed of 451 marine samples collected from a range of depths - from the surface (3m) to deep waters (as far down as 4800m). This dataset covers three ocean layers: the epi- (0-200m including DCM), meso- (200-1000m) and bathypelagic (1000-4000m). MalaMix combines samples obtained during two oceanographic expeditions with similar sampling strategies: i) the Malaspina-2010 global expedition that produced 263 samples collected between December 2010 and July 2011 from 120 stations distributed along the tropical and subtropical portions (latitudes between 35 N and 40 S) of the Pacific, Atlantic and Indian oceans; and ii) the HotMix trans-Mediterranean cruise that produced 188 samples collected between April and May 2014 in 29 stations distributed along the whole Mediterranean Sea (from -5 W to 33 E) and the adjacent Northeast Atlantic Ocean. MalaMix comprises: a 16S-V4V5 rRNA gene ASV table (MalaMix_16S.csv); an 18S-V4 rRNA gene ASV table (MalaMix_18S.csv); two tables of contextual metadata (MalaMix_EnvData_16S and MalaMix_EnvData_18S) including 6 standardized environmental parameters (temperature [C], salinity, fluorescence, PO43 [mol L-1], NO3 [mol L-1], and SiO2 [mol L-1]) as well as species taxonomic and phylogenetic diversity metrics a table (MalaMix_FCdata.csv) with flow cytometry microbial counts [cell mL-1] and bacterial activity measurements [pmol Leu L-1 h-1]; a README file (README_Metadata.csv) describing the meaning and units of each variable column in the metadata tables. The raw DNA sequences are publicly available at the European Nucleotide Archive (https://www.ebi.ac.uk/ena) under accession numbers PRJEB23913 [18S rRNA genes] PRJEB25224 [16S rRNA genes] for the Malaspina surface dataset; PRJEB23771 [18S rRNA genes] PRJEB45015 [16S rRNA genes] for the Malaspina vertical profiles; PRJEB45011 [16S rRNA genes] PRJEB45014 [18S rRNA genes] for the Malaspina deep sea dataset; and PRJEB44683 [18S rRNA …
publication date: 2023-09-20T00:00:00Z
author: Pedro C. Junger
author: Hugo Sarmento
author: Caterina R. Giner
author: Mireia Mestre
author: Marta Sebastián
author: Xosé A. G. Moran
author: Javier Arístegui
author: Susana Agustí
author: Carlos M. Duarte
author: Silvia G. Acinas
author: Ramon Massana
author: Josep M. Gasol
author: Ramiro Logares
Zenodo ID: 8363877
DOI: 10.5281/zenodo.8363877
dataset version identifier: 1.0.0
MaRDI profile type: Dataset
description: Dataset published at Zenodo repository.