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Title: Geochemistry, RNA radiocarbon signature, and metatranscriptome data from Rifle, Colorado groundwater well

Abstract

Understanding the different sources of carbon subsurface microbes use is highly informative yet remains challenging. The goal of this work was to develop and test a cultivation-independent method that analyzes both the radiocarbon and ribosomal RNA (rRNA) signature of unamplified RNA from the same environmental sample, and that collectively characterizes community carbon utilization under in situ conditions. The method was applied to a filtered groundwater sample from a geochemically reduced zone of a shallow alluvial aquifer near Rife, Colorado (CO), where multiple potential carbon sources co-occur. The radiocarbon and RNA-Seq results, while addressing diverse sample properties, indicated a strikingly similar conclusion about the quantitative role of autotrophy in the subsurface microbial community.This data package provides (1) ribosomal RNA (rRNA) sequences for groundwater microbial populations, (2) the taxonomic identity and relative abundance of groundwater microbial populations based on these rRNA sequences, (3) radiocarbon signatures of the rRNA indicating the source of carbon used by the groundwater microbial populations (provided in both Word docx file and pdf file), (4) geochemical measurements for the monitoring well corresponding to these measurements.

Authors:
ORCiD logo ; ORCiD logo ; ORCiD logo ; ORCiD logo ; ORCiD logo ; ; ORCiD logo ; ; ; ; ;
  1. Barnard College
  2. Lawrence Berkeley National Laboratory
  3. Lawrence Livermore National Laboratory
Publication Date:
DOE Contract Number:  
SC0006796
Product Type:
Dataset
Research Org.:
Environmental System Science Data Infrastructure for a Virtual Ecosystem (ESS-DIVE) (United States); Watershed Function SFA
Sponsoring Org.:
U.S. DOE > Office of Science > Biological and Environmental Research (BER)
Subject:
54 ENVIRONMENTAL SCIENCES
Keywords:
metatranscriptomics; radiocarbon analysis; microbiome; Isotopes; metatranscriptomics; dissolved oxygen; sulfate concentration; chloride concentration; iron concentration; magnesium concentration; arsenic concentration; pH; dissolved organic carbon; dissolved inorganic carbon; EARTH SCIENCE > TERRESTRIAL HYDROSPHERE > GROUND WATER > GROUNDWATER CHEMISTRY
OSTI Identifier:
1647359
DOI:
https://doi.org/10.15485/1647359

Citation Formats

Mailloux, Brian J., Karaoz, Ulas, Beller, Harry R., Brodie, Eoin L., Wang, Shi, Jewell, Talia N. M., Williams, Kenneth H., Buchholz, Bruce A., Kim, Carol, Kichuk, Tess, Nguyen, Khue, and Precht, Chandler. Geochemistry, RNA radiocarbon signature, and metatranscriptome data from Rifle, Colorado groundwater well. United States: N. p., 2020. Web. doi:10.15485/1647359.
Mailloux, Brian J., Karaoz, Ulas, Beller, Harry R., Brodie, Eoin L., Wang, Shi, Jewell, Talia N. M., Williams, Kenneth H., Buchholz, Bruce A., Kim, Carol, Kichuk, Tess, Nguyen, Khue, & Precht, Chandler. Geochemistry, RNA radiocarbon signature, and metatranscriptome data from Rifle, Colorado groundwater well. United States. doi:https://doi.org/10.15485/1647359
Mailloux, Brian J., Karaoz, Ulas, Beller, Harry R., Brodie, Eoin L., Wang, Shi, Jewell, Talia N. M., Williams, Kenneth H., Buchholz, Bruce A., Kim, Carol, Kichuk, Tess, Nguyen, Khue, and Precht, Chandler. 2020. "Geochemistry, RNA radiocarbon signature, and metatranscriptome data from Rifle, Colorado groundwater well". United States. doi:https://doi.org/10.15485/1647359. https://www.osti.gov/servlets/purl/1647359. Pub date:Wed Jan 01 00:00:00 EST 2020
@article{osti_1647359,
title = {Geochemistry, RNA radiocarbon signature, and metatranscriptome data from Rifle, Colorado groundwater well},
author = {Mailloux, Brian J. and Karaoz, Ulas and Beller, Harry R. and Brodie, Eoin L. and Wang, Shi and Jewell, Talia N. M. and Williams, Kenneth H. and Buchholz, Bruce A. and Kim, Carol and Kichuk, Tess and Nguyen, Khue and Precht, Chandler},
abstractNote = {Understanding the different sources of carbon subsurface microbes use is highly informative yet remains challenging. The goal of this work was to develop and test a cultivation-independent method that analyzes both the radiocarbon and ribosomal RNA (rRNA) signature of unamplified RNA from the same environmental sample, and that collectively characterizes community carbon utilization under in situ conditions. The method was applied to a filtered groundwater sample from a geochemically reduced zone of a shallow alluvial aquifer near Rife, Colorado (CO), where multiple potential carbon sources co-occur. The radiocarbon and RNA-Seq results, while addressing diverse sample properties, indicated a strikingly similar conclusion about the quantitative role of autotrophy in the subsurface microbial community.This data package provides (1) ribosomal RNA (rRNA) sequences for groundwater microbial populations, (2) the taxonomic identity and relative abundance of groundwater microbial populations based on these rRNA sequences, (3) radiocarbon signatures of the rRNA indicating the source of carbon used by the groundwater microbial populations (provided in both Word docx file and pdf file), (4) geochemical measurements for the monitoring well corresponding to these measurements.},
doi = {10.15485/1647359},
journal = {},
number = ,
volume = ,
place = {United States},
year = {2020},
month = {1}
}