Data and scripts associated with a manuscript investigating dissolved organic matter and microbial community linkages across seven globally distributed rivers

Dataset · Tue Feb 20 00:00:00 EST 2024

DOI:https://doi.org/10.15485/2319037· OSTI ID:2319037

Danczak, Robert E.  ^[1]; Goldman, Amy E.  ^[1]; Borton, Mikayla A.  ^[2]; Chu, Rosalie  ^[1]; Toyoda, Jason G.  ^[1]; Garayburu-Caruso, Vanessa A.  ^[1]; Graham, Emily B.  ^[1]; Morad, Joseph W. ^[3]; Renteria, Lupita  ^[1]; Wells, Jacqueline R.  ^[1]; Arnon, Shai  ^[4]; Brooks, Scott  ^[5]; Bar-Zeev, Edo  ^[6]; Jones, Michael ^[5]; Jones, Nikki ^[5]; Lewandowski, Jorg  ^[7]; Meile, Christof  ^[8]; Muller, Birgit M. ^[7]; Powers-McCormack, Beck  ^[1]; Schalles, John  ^[9] ; Schulz, Hanna  ^[7]; Ward, Adam  ^[10]; Stegen, James C.  ^[1]

---

1. Pacific Northwest National Laboratory
2. Colorado State University
3. New Jersey Department of Environmental Protection
4. Ben-Gurion University of the Negev
5. Oak Ridge National Laboratory
6. Ben-Gurion University of the Negev, Zuckerberg Institute for Water Research
7. Leibniz Institute of Freshwater Ecology and Inland Fisheries
8. The University of Georgia
9. Creighton University
10. Oregon State University

This data package is associated with the publication “Meta-metabolome ecology reveals that geochemistry and microbial functional potential are linked to organic matter development across seven rivers” submitted to Science of the Total Environment. This data package includes the data necessary to replicate the analyses presented within the manuscript to investigate dissolved organic matter (DOM) development across broad spatial distances and within divergent biomes. Specifically, we included the Fourier transform ion cyclotron mass spectrometry (FTICR-MS) data, geochemistry data, annotated metagenomic data, and results from ecological null modeling analyses in this data package. Additionally, we included the scripts necessary to generate the figures from the manuscript.Complete metagenomic data associated with this data package can be found at the National Center for Biotechnology (NCBI) under Bioproject PRJNA946291.This dataset consists of (1) four folders; (2) a file-level metadata (flmd) file; (3) a data dictionary (dd) file; (4) a factor sheet describing samples; and (5) a readme. The FTICR Data folder contains (1) the processed Fourier transform ion cyclotron mass spectrometry (FTICR-MS) data; (2) a transformation-weighted characteristics dendrogram generated from the FTICR-MS data; and (3) the script used to generate all FTICR-MS related figures. The Geochemical Data folder contains (1) the single geochemistry data file and (2) the R script responsible for generating associated figures. The Metagenomic Data folder contains (1) annotation information across different levels; (2) carbohydrate active enzyme (CAZyme) information from the dbCAN database (Yin et al., 2012); (3) phylogenetic tree data (FASTAs, alignments, and tree file); and (4) the scripts necessary to analyze all of these data and generate figures. The Null Modeling Data folder contains (1) data generated during null modeling for each river and all rivers combined and (2) the R scripts necessary to process the data. All files are .csv, .pdf, .tsv, .tre, .faa, .afa, .tree, or .R.

• Research Organization: Environmental System Science Data Infrastructure for a Virtual Ecosystem (ESS-DIVE) (United States)
• Sponsoring Organization: U.S. DOE > Office of Science > Biological and Environmental Research (BER)
• DOE Contract Number: DOE Award #54737
• OSTI ID: 2319037
• Country of Publication: United States
• Language: English

Related Subjects

54 ENVIRONMENTAL SCIENCES
River corridor
Freshwater
River
Stream
Watershed
Biogeochemistry
Microbiology
Bioinformatics
Organic matter
Environmental Metabolomics
Mass spectrometry
WHONDRS
ESS-DIVE CSV File Formatting Guidelines Reporting Format
ESS-DIVE File Level Metadata Reporting Format
FTICR-MS
Fourier-transform ion cyclotron resonance
Metagenomic coverage
Specific conductivity
SpC
Phosphorus
Fluoride
Chloride
Sulfate
Nitrite
Nitrate
Total dissolved nitrogen
TN
Non-purgeable organic carbon
NPOC
Dissolved organic carbon
DOC
Sodium
Calcium
Magnesium
Potassium
Iron
EARTH SCIENCE > TERRESTRIAL HYDROSPHERE > WATER QUALITY/WATER CHEMISTRY > WATER CHARACTERISTICS > pH
EARTH SCIENCE > TERRESTRIAL HYDROSPHERE > WATER QUALITY/WATER CHEMISTRY > WATER CHARACTERISTICS > CONDUCTIVITY