Ruff, S Emil; Humez, Pauline; Hrabe de Angelis, Isabella; Diao, Muhe; Nightingale, Michael; Cho, Sara; Connors, Liam; Kuloyo, Olukayode O; Seltzer, Alan; Bowman, Samuel; Wankel, Scott D; McClain, Cynthia N; Mayer, Bernhard; Strous, Marc (2022): Bacterial diversity of Canadian Prairie groundwater ecosystems [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.952402, In: Ruff, SE et al. (2022): Hydrogen and dark oxygen drive microbial productivity in diverse groundwater ecosystems [dataset bundled publication]. PANGAEA, https://doi.org/10.1594/PANGAEA.952473
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Abstract:
Groundwater ecosystems are globally widespread yet still poorly understood. We investigated the microbiology of groundwater samples from various monitoring wells (<250m depth) located in 14 aquifers in the Canadian Prairie. This dataset contains bacterial community diversity indices based on 16S rRNA gene amplicons retrieved from 119 groundwater samples of aquifers in the Canadian Prairie, collected between 2015 and 2020. The study area comprised 14 major aquifers and a geographic area of ~210.000 km2. The goal of the study was to understand the links between the biogeochemistry and microbial ecology of groundwater ecosystems in diverse geological settings on a broad spatial scale. Details concerning DNA extraction, sequencing and sequence analyses can be found in the associated publication by Ruff et al. 2023.
Coverage:
Median Latitude: 52.237756 * Median Longitude: -113.212072 * South-bound Latitude: 49.027319 * West-bound Longitude: -119.397742 * North-bound Latitude: 58.995364 * East-bound Longitude: -110.006390
Date/Time Start: 2016-01-19T00:00:00 * Date/Time End: 2017-12-12T00:00:00
Event(s):
GOWN_Airdrie * Latitude: 51.234343 * Longitude: -114.000246 * Date/Time: 2017-06-06T00:00:00 * Location: Canadian Prairie * Method/Device: Field measurement
Comment:
Note: Absolute singe sequence OTUs (operational taxonomic units), also abbreviated as SSOabs are OTUs (based on 16S rRNA gene sequences) that occur only once in an entire dataset. In this case, these OTUs would only occur once in all 138 samples. These are generally rare organisms.
Relative SSO are OTUs that occur only once in 1 sample, but also occur at least once in another sample. These OTUs are conditionally rare. They are rare in one environment, but may become abundant when conditions change.
Parameter(s):
| # | Name | Short Name | Unit | Principal Investigator | Method/Device | Comment |
|---|---|---|---|---|---|---|
| 1 | Event label | Event | Ruff, S Emil | |||
| 2 | DATE/TIME | Date/Time | Ruff, S Emil | Geocode | ||
| 3 | LATITUDE | Latitude | Ruff, S Emil | Geocode | ||
| 4 | LONGITUDE | Longitude | Ruff, S Emil | Geocode | ||
| 5 | Well | Well | Ruff, S Emil | Well name of Groundwater Observation Well Network (GOWN) | ||
| 6 | Well, identifier | Well ID | Ruff, S Emil | Well number of Groundwater Observation Well Network (GOWN) | ||
| 7 | Sample code/label | Sample label | Ruff, S Emil | Unique Groundwater Observation Well Network (GOWN) identifier | ||
| 8 | Sample code/label 2 | Sample label 2 | Ruff, S Emil | NCBI BioSample name | ||
| 9 | Reads | Reads | # | Ruff, S Emil | Total reads; unsubsampled | |
| 10 | Amplicon sequence variant, richness | ASV, richness | Ruff, S Emil | unsubsampled; observed ASV | ||
| 11 | Amplicon sequence variant, absolute single sequence | ASV abs single seq | # | Ruff, S Emil | unsubsampled | |
| 12 | Amplicon sequence variant, absolute single sequence | ASV abs single seq | % | Ruff, S Emil | unsubsampled | |
| 13 | Amplicon sequence variant, relative single sequence | ASV rel single seq | # | Ruff, S Emil | unsubsampled | |
| 14 | Amplicon sequence variant, relative single sequence | ASV rel single seq | % | Ruff, S Emil | unsubsampled | |
| 15 | Reads | Reads | # | Ruff, S Emil | Total reads; subsampled | |
| 16 | Amplicon sequence variant, richness | ASV, richness | Ruff, S Emil | subsampled; observed ASV | ||
| 17 | Chao 1 richness | Chao1 rich | Ruff, S Emil | subsampled; estimated ASV | ||
| 18 | Inverse Simpson index of diversity | Inv Simpson I | Ruff, S Emil | subsampled | ||
| 19 | Shannon Diversity Index | H' | Ruff, S Emil | subsampled | ||
| 20 | Accession number, genetics | Access no gen | Ruff, S Emil | NCBI BioProject accession number | ||
| 21 | Accession number, genetics | Access no gen | Ruff, S Emil | NCBI BioSample accession number | ||
| 22 | Sequence identifier | SeqID | Ruff, S Emil | Name of the bacterial 16S rRNA gene amplicon sequence dataset; variable gene region v3-v4 |
License:
Creative Commons Attribution 4.0 International (CC-BY-4.0)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
1980 data points