A georeferenced rRNA amplicon database of aquatic microbiomes from South America

Here we present the samples and data used in Metz & Huber et al. (2022) to construct µSudAqua[db].

µSudAqua[db] contains over 866 georeferenced samples with contextual environmental information manually revised. For its integration and validation, we constructed a curated database (µSudAqua[db.sp]) using the DADA2 pipeline (https://github.com/microsudaqua/usudaquadb). It comprised ~60% of the total georeferenced samples of the µSudAqua[db].

Here we provide five files compressed in a zip file .

The microsudaqua_metadata_Vx  presents the metadata associated with the samples used to build the µSudAqua[db] database. For samples included in the µSudAqua[db.sp] database, the number of high-quality reads and Amplicon Sequences Variants (ASVs) defined is also indicated.

The archive microsudaqua_rawtable_Vx harvests the number of reads in each sample (µSudAqua[db.sp]).

The archive microsudaqua_rawseqs_Vx harvests the nucleotide sequences of each ASV (µSudAqua[db.sp]).

The archive microsudaqua_rawtaxonomy_blast_silva132_nr99_Vx harvests taxonomic classification of each ASV (µSudAqua[db.sp]).

The archive microsudaqua_bacteria_filtered_50reads_with_taxonomy_Vx harvests the Bacterial filtered ASVs, with more than 50 reads in at least three samples (µSudAqua[db.sp]).

Further information regarding data usage and processing is available in the @microsudaqua GitHub (https://github.com/microsudaqua/usudaquadb)

Version history

February 2025 / version V.1.1:  microsudaqua_data_V1.1_Feb2025.zip

The metadata file has been updated: microsudaqua_metadata_V1.1_Feb2025.txt

July 2022 / version V.1.0:  microsudaqua_data_V1.0_July2022.zip.