Microbial relationships in the Skidaway River Estuary (GA, USA)

This release includes all files needed to reproduce analysis of 16S and 18S amplicon datasets for the following manuscript: Anderson, S.R., M. Chisholm, and E.L. Harvey. Estuarine microbial networks and relationships vary between environmentally distinct communities. Files are also available on GitHub (https://github.com/sra34/SkIO-network). 

Included are QIIME 2 (.qza) files representing ASV count tables, taxonomy tables, representative sequences, and rooted tree files for each marker gene region. Associated metadata files are also included (e.g., Sampleinfo_16S.txt), as is the main network file (created in Cytoscape).

Taxonomy was assigned to sequences using QIIME 2-formatted reference databases for 16S (SILVA; v.138.1) and 18S (PR2; v.4.12). Reference database files (.qza) are provided: 

• silva-138-99-tax.qza 
• silva-138-99-seqs.qza 
• pr2_4.12.0_18S_tax.qza 
• pr2_4.12.0_18S_seqs.qza 

 Raw FASTQ sequence data are available in NCBI SRA under BioProject ID's PRJNA575563 (18S) and PRJNA680039 (16S).