GLBRC Soil Yearlong Incubation 13C-SIP-Lipidomics

Rempfert, Kaitlin R; Bell, Sheryl L; Kasanke, Christopher P; Kyle, Jennifer E; Hofmockel, Kirsten S

doi:10.25584/2549395

Title: GLBRC Soil Yearlong Incubation 13C-SIP-Lipidomics

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Abstract

Data package for Lipids represent a dynamic, yet stable pool of microbially-derived soil carbon This data is published under a CC0 license. The authors encourage data reuse and request attribution by referencing the below citations for the data packages and associated manuscript. Please cite as: Rempfert KR, Bell SL, Kasanke CP, Kyle JE, Hofmockel KS. 2025. GLBRC Soil Yearlong Incubation 13C-SIP-Lipidomics. [Data Set] PNNL DataHub. doi: Rempfert KR, Bell SL, Kasanke CP, Kyle JE, Hofmockel KS. 2025. MSV000097435: GLBRC soil yearlong incubation 13C-SIP-Lipidomics [Data Set] MassIVE. doi:10.25345/C57659T3K Rempfert KR, Bell SL, Kasanke CP, Kyle JE, Hofmockel KS. 2025. Lipids represent a dynamic, yet stable pool of microbially-derived soil carbon. In Prep This data package consists of compound-specific 13C SIP-lipidomics data from a yearlong tracer incubation experiment designed to investigate microbial lipid persistence in switchgrass bioenergy crop soils. In order to explore how lipid structure may modulate the persistence of C in soil lipids, we leveraged soils from two sites (Michigan - sandy texture, Wisconsin - silty texture) operated by the U.S. Department of Energy-funded Great Lakes Bioenergy Research Center (GLBRC). These sites had comparable climates, identical management practices, but contrasting soil textures, allowing us to assess the variability of lipid accrual or degradation in soils asmore »« less

Authors:

Rempfert, Kaitlin R; Bell, Sheryl L; Kasanke, Christopher P; Kyle, Jennifer E; Hofmockel, Kirsten S

Pacific Northwest National Laboratory (PNNL), Richland, WA (United States); Pacific Northwest National Laboratory
Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)

Publication Date:: Tue Dec 31 23:00:00 EST 2024

Other Number(s):: PNNL-SA-210183

DOE Contract Number:: AC05-76RL01830

Research Org.:: Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)

Sponsoring Org.:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

OSTI Identifier:: 2549395

DOI:: https://doi.org/10.25584/2549395

Citation Formats


                    Rempfert, Kaitlin R, Bell, Sheryl L, Kasanke, Christopher P, Kyle, Jennifer E, and Hofmockel, Kirsten S. GLBRC Soil Yearlong Incubation 13C-SIP-Lipidomics.  United States: N. p., 2024. 
        Web.  doi:10.25584/2549395.

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                    Rempfert, Kaitlin R, Bell, Sheryl L, Kasanke, Christopher P, Kyle, Jennifer E, & Hofmockel, Kirsten S. GLBRC Soil Yearlong Incubation 13C-SIP-Lipidomics.  United States.  doi:https://doi.org/10.25584/2549395

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                    Rempfert, Kaitlin R, Bell, Sheryl L, Kasanke, Christopher P, Kyle, Jennifer E, and Hofmockel, Kirsten S. 2024.  
"GLBRC Soil Yearlong Incubation 13C-SIP-Lipidomics".  United States.  doi:https://doi.org/10.25584/2549395.  https://www.osti.gov/servlets/purl/2549395. Pub date:Tue Dec 31 23:00:00 EST 2024

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@article{osti_2549395,

  title        = {GLBRC Soil Yearlong Incubation 13C-SIP-Lipidomics},

  author       = {Rempfert, Kaitlin R and Bell, Sheryl L and Kasanke, Christopher P and Kyle, Jennifer E and Hofmockel, Kirsten S},

  abstractNote = {Data package for Lipids represent a dynamic, yet stable pool of microbially-derived soil carbon This data is published under a CC0 license. The authors encourage data reuse and request attribution by referencing the below citations for the data packages and associated manuscript. Please cite as: Rempfert KR, Bell SL, Kasanke CP, Kyle JE, Hofmockel KS. 2025. GLBRC Soil Yearlong Incubation 13C-SIP-Lipidomics. [Data Set] PNNL DataHub. doi:  Rempfert KR, Bell SL, Kasanke CP, Kyle JE, Hofmockel KS. 2025. MSV000097435: GLBRC soil yearlong incubation 13C-SIP-Lipidomics [Data Set] MassIVE. doi:10.25345/C57659T3K  Rempfert KR, Bell SL, Kasanke CP, Kyle JE, Hofmockel KS. 2025. Lipids represent a dynamic, yet stable pool of microbially-derived soil carbon. In Prep  This data package consists of compound-specific 13C SIP-lipidomics data from a yearlong tracer incubation experiment designed to investigate microbial lipid persistence in switchgrass bioenergy crop soils. In order to explore how lipid structure may modulate the persistence of C in soil lipids, we leveraged soils from two sites (Michigan - sandy texture, Wisconsin - silty texture) operated by the U.S. Department of Energy-funded Great Lakes Bioenergy Research Center (GLBRC). These sites had comparable climates, identical management practices, but contrasting soil textures, allowing us to assess the variability of lipid accrual or degradation in soils as well as provide insight regarding the degree to which edaphic properties may regulate the retention of soil lipids. Untargeted lipidomics analyses were performed to identify 13C-labeled lipids in the soil microbiome after long-term incubation. Soils were supplemented with 100 micrograms glucose per gram dry soil (99 atom % 13C or natural abundance for paired control) and incubated; samples were collected two months and one year after glucose addition. Lipid extracts (MPLEx) were analyzed by LC-MS/MS and identified using LIQUID. Calculation of isotopic enrichment of lipids was performed by targeted approach using TarMet to quantify lipid isotopologues and IsoCorrectoR to correct for natural abundance isotopes. Contents: Data package contents reported here are the first version and contain downstream analysis files for the raw LC-MS mass spectrometry files (.mzXML) deposited at the MassIVE database repository under accession MSV000097435 (80 experimental runs; 5.85 GB) | MassIVE DOI: 10.25345/C57659T3K. Support files include the additional data download 'Read Me' file containing data descriptor information. Reported data download contents are structured for compliance with project data sharing guidelines, community standards initiatives, and sponsor stakeholder policies supporting FAIR data principles. Data processing software, analysis tools, and data workflows are listed below corresponding to the host repository long-term location.  Available Data Downloads (0.3 GB): "GLBRC soil yearlong incubation 13C-SIP-Lipidomics_readme.txt" - 'Read Me' data package content file (txt) "GLBRC_DataPackage_analysis files" - Data processing files (Rmd) and saved intermediate data processing outputs (rds, csv, xlsx) "GLBRC_13C_lipidomics_dataset.xlsx" - processed data in tabular format (xlsx) Linked Software: LIQUID LC-MS Analysis Software | 10.5281/zenodo.6459462 Lipid Mini-On Software Tools | 10.5281/zenodo.1492803 pmartR Omics Statistical Software | 10.5281/zenodo.6108667 xcms (v4.3.3) TarMet (v1.1.1) IsoCorrectoR (1.24.0) Funding Acknowledgments: This research was supported by an Early Career Research Program award funded by the U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research (OBER) Genomic Science program under FWP 68292, FWP 07880 and EMSL Exploratory Research Project 51095. A portion of this work was performed in the William R. Wiley Environmental Molecular Sciences Laboratory, a national scientific user facility sponsored by OBER and located at Pacific Northwest National Laboratory (PNNL). PNNL is a multi-program national laboratory operated by Battelle for the DOE under Contract DE-AC05-76RLO1830.},

  doi          = {10.25584/2549395},

  journal      = {},

  number       = ,

  volume       = ,

  place        = {United States},

  year         = {Tue Dec 31 23:00:00 EST 2024},

  month        = {Tue Dec 31 23:00:00 EST 2024}

}

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DOI: https://doi.org/10.25584/2549395

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