README.md

Genome Resolved Open Watersheds database (GROWdb)

GROWdb is a community effort to increase genomic sampling and understanding of the global river corridor microbiome with an emphasis on creating a publicly available genome database.

GROWdb networks efforts across researchers to move beyond a small collection of well-studied river systems, towards a spatially distributed, global network of systematic observations that are of appropriate scale and continuity to inform predictive models from local to global scales.

Please see our authorship agreement for guidelines on using this data.

Directories below each represent code and associated data for a manuscript or publication leveraging GROWdb data

1. USA_SurfaceWater- This contains the scripts and commands for data processing and figure generation for

Borton, Mikayla A., et al. "A functional microbiome catalog crowdsourced from North American rivers." bioRxiv (2023): 2023-07..

2. Yojoa_Honduras_Lake - This contains scripts and commands used for data processing and figure generation for

Fadum, Jemma M., et al. "Dominant nitrogen metabolisms of a warm, seasonally anoxic freshwater ecosystem revealed using genome resolved metatranscriptomics." Msystems 9.2 (2024): e01059-23

3. Coastal_Rivers_Study - This contains scripts and commands used for data processing of US coastal rivers data, a subproject of GROWdb that is in progress.

References below represent additional publications and associated GitHub leveraging GROWdb data

1. Rodríguez-Ramos, Josué, et al. "Spatial and temporal metagenomics of river compartments reveals viral community dynamics in an urban impacted stream." Frontiers in Microbiomes 2 (2023): 1199766. GitHub