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SoilGas_Sensordata_Metagenomic_Chemistry_Dec2016-July2017_Russell_BYU


Authors: Kerri Russell
Owners: Kerri Russell · iUTAH Data Manager
Resource type:Composite Resource
Created:Aug 17, 2017 at 5:36 p.m.
Last updated: Jun 28, 2018 at 8:08 p.m. by Kerri Russell

Abstract

This data is a collection of soil gas, soil chemistry, and soil microbiology data starting in December 2016 and goes through December 2017. We are measuring soil CO2 concentration, oxygen, moisture, and temperature. Vaisala CO2 GMP220-series probes are placed at two depths (5 and 20 cm) to measure CO2 concentration and Acclima SDI-12 Interface sensors to measure soil moisture and temperature, as well as Apogee SO-110 soil oxygen sensors. Besides evaluating soil respiration sensitivity (i.e., CO2 evolved per unit change in moisture or temperature), we are evaluating the legacy effects of natural rainfall and snowfall on the structure of soil microbial communities using target metagenomics of 16s rDNA. Quality control was done on all data before analysis. Power at the sites can go out temporarily, creating gaps in sensor readings. Blank cells in the data represent times when the power to the site went out, or when a sensor died and had to be replaced. Logan River data begins in January 2017, rather than December 2016. All samples were stored in Whirl Pac soil sample bags and kept on ice while in the field and stored at 4C in the lab until analysis. A subset of each sample was taken in the field and kept in liquid nitrogen until they were stored in the lab at -80C, these were used for metagenomic analysis.

This dataset includes a year of sensor data and monthly soil analysis data and microbial analysis data.

Description of sensor data:
Column headers in the data refer to the site location and depth of the sensor. The first row indicates what watershed the sensor is located in, the second row indicates the site and sensor type and depth.
ST-Soapstone, CH-Charleston, KF-Knowlton Fork, GIRF- Green Infrastructure Research Facility, FB-Franklin Basin, GC-Golf Course. CO2 data is given in ppm and O2 data is %.

Description of soil chemistry data:
The soil chemistry data folder consists of a Soil chemistry_CN spreadsheet that included almost all chemical analysis performed on each sample. Each sample is listed, along with the watershed abbreviations as described above and site, depth, sample month, and sample day. Samples were collected between 7 am and 7 pm on day of sampling. Site "B" refers to the blank samples run with each set of samples. Non-purgeable organic carbon (NPOC) and Total Nitrogen (TN) were measured using a SHIMADZU TOC analyzer. Gravimetric water content was measured using the soil wet weight and dry weight after being dried for 48 hours at 105 C. %N and %C were measured on a LECO CN analyzer. Nitrate and Ammonium were determined using an OI Analytical Flow Solution IV analyzer. The uM results for Nitrate and Ammonium are included, as well as the modified results after accounting for soil moisture, they are given in mg N-Nitrate or N-Ammonium/kg dry soil.
Additionally, we used as Aqualog Benchtop Fluorometer to measure the Excitation-Emission Matrix for each sample. Data is still being processed and will be uploaded once the analysis is complete.

Description of microbial analysis data:
Samples were collected on a monthly basis at two depths (0-10, 15-25cm) from each sampling location. We sequenced the 16s v4 region for prokaryotes using both DNA and RNA and we sequenced the 18s v9 region for eukaryotes. We used a modified MOTHUR pipeline and a 97% OTU similarity cutoff. There are three files for each type of microbial data set; site and sample metadata (e.g. date sampled) is included in the file ***_design.csv, observed OTU counts by sample name are in the .shared file, and the taxonomic classification of OTUs is in the .taxonomy file. Sample names indicate the type of sample (R=RNA, D=DNA, EUD=eukaryote DNA), the sample number, initials, project name, watershed (P=Provo, R=Red Butte, L=Logan), the site (C=Charleston, S=Soaptstone, GIRF, K=Knowlton Fork, GC=Golf Course, F=Franklin Basin), A represents 0-10, and B represents 15-25, and the number represents the sample month. For example, R101KRSGPCA7 is from a sample that we extracted RNA, sample 101, Provo River, Charleston, 0-10cm and collected in July.
Eukaryote data is not available but will be uploaded once it has been processed.

Description of sampling locations:
Franklin Basin is located near the headwaters of the Logan River in Cache County, Utah. The elevation is 2109.52 m and at N 4156’59.334” W -11134’52.8666”.
Logan River Golf Course is located in a mixed urban and agriculture environment in Cache Valley at an elevation of 1364.89 m and N 41 42’20.3148” W -11151’15.3648”.
Knowlton Fork sits at an elevation of 2178.1008 m, N 40 48’ 36.4386” W -11146’1.0194”.
GIRF is the Green infrastructure climate station located on the University of Utah campus at N 4045’38.88” W -11149’49.7058”.
Soapstone Basin is the closest site to Trial Lake, the origin of the Provo River. The location is N 40° 34' 26.1408" W -111° 2' 36.5994".
Charleston location is at N 40° 29' 4.9812" W -111° 27' 45.1794".

Subject Keywords

Soil Chemsitry,Excitation Emission Matrix,CO2,O2,EEM,Sequencing,Eukaryotes,Prokaryotes,Bacteria,Soil Gas

How to cite

Russell, K. (2018). SoilGas_Sensordata_Metagenomic_Chemistry_Dec2016-July2017_Russell_BYU, HydroShare, http://www.hydroshare.org/resource/b76722e15ace46199ce2e2e36b954bb2

This resource is shared under the Creative Commons Attribution CC BY.

 http://creativecommons.org/licenses/by/4.0/
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Content

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Authors

The people or organizations that created the intellectual content of the resource.

Name Organization Address Phone Author Identifiers
Kerri Russell Brigham Young University

Contributors

People or organizations that contributed technically, materially, financially, or provided general support for the creation of the resource's content but are not considered authors.

Name Organization Address Phone Author Identifiers
Dave Eiriksson
Dylan Dastrup
Chris Cox None
Zachary Aanderud Brigham Young University 701 East University Parkway 8014224220

Credits

This resource was created using funding from the following sources:
Agency Name Award Title Award Number
National Science Foundation iUTAH-innovative Urban Transitions and Aridregion Hydro-sustainability NSF Award Number 1208732

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