Megapit and Distributed Initial Characterization Soil Archives

Soil samples

Terrestrial soil samples

The Megapit and Distributed Initial Characterization Soil Archives provide access to archived soils collected at the time of NEON site construction. Additional archived soils from ongoing sampling activities can be requested through the NEON Biorepository.

Megapit Samples

At all terrestrial sites NEON collected soil and root samples from a single, temporary soil pit called the 'megapit.' The pit location was selected to be in the locally dominant soil type surrounding the NEON tower based on available soil maps, accessible by a small excavator, and representative of the soil sensor locations. For soils, samples were collected from each horizon to characterize and archive the soil at the time of site construction. Root samples were collected by depth increment, rather than horizon, in order to quantify root biomass distribution with depth. Soil and root samples were collected to 2m at most sites because that depth range contains the vast majority of plant roots and soil organisms and is the location of most biogeochemical processes that influence, and are influenced by, the aboveground part of the ecosystem. The Megapit Soil Archive is curated at the NEON program headquarters in Boulder, CO. Air-dried soil from each horizon is archived and available for request. Root samples from the Megapit are archived and available from the NEON Biorepository.

Soil samples

Soil samples

Initial Characterization Soil Samples (ICS)

This archive is a joint project of Battelle/NEON and the University of Michigan. During initial operations, NEON partnered with the U.S. Department of Agriculture - Natural Resources Conservation Service (USDA-NRCS) to describe, sample, and analyze soils across NEON sites, generally to a depth of up to 1m. The central goal was the initial characterization of soils and their properties from all major soil types at each NEON site, and thus included multiple components of the NEON spatial design such as tower and distributed plots. Of the 3246 soil horizons characterized from 715 pits across 46 NEON sites, 1991 horizons from 33 sites possessed sufficient material for archiving in the University of Michigan Biological Station - Sample Archive Facility in Ehlers (UMBS-SAFE), a community-accessible soil archive established with NSF support in 2016-18. Subsamples of these well-characterized, air-dried samples are now available to researchers who complete a request and review process, described below. 

List of sites with ICS archive material from at least some horizons: ABBY, BARR, BLAN, BONA, CLBJ, DCFS, DEJU, DSNY, GRSM, GUAN, HARV, HEAL, JERC, JORN, KONA, LAJA, LENO, MLBS, NIWO, ONAQ, ORNL, OSBS, PUUM, RMNP, SJER, SOAP, SRER, STEI, TALL, TOOL, TREE, WREF, YELL

List of sites with no ICS archive material: BART, CPER, DELA, KONZ, MOAB, NOGP, OAES, SCBI, SERC, STER, UKFS, UNDE, WOOD

A comparison of Megapit vs. Initial Characterization Soils
  Megapit Soil Initial Characterization Soil
Horizons Multiple Multiple
Processing Air-dried, mineral soil sieved to ≤ 2 mm Air-dried, mineral soil sieved to ≤ 2 mm
Storage Conditions Ambient temperature, glass jars Dry archive, 4-20 degrees Celsius, paper cartons
Volume/Mass Stored 1.2 or 3.6 kg per horizon Varies; typically 25-100 g for O horizons; 100-400 g for mineral horizons
Maximum Depth 2 m (3 m at DEJU) Generally 1 m, but certain pits are shallower or deeper
Sampling Frequency per Site Once Once
Locations per Site One 10-26

Data Products

Megapit

A wide range of information about these soils is available in NEON data products, including: 

Soil samples with an “archiveID” in the “…perarchivesample…” file of the Soil physical and chemical properties, - Megapit data product are available for request. Note that the mass listed is the initial mass and is not updated as requests are fulfilled. 

Distributed Initial Characterization

A wide range of information about these soils is available in a NEON data product, including: 

Only soil samples with an “archiveID” in the “spc_perbiogeosample" file of the Soil physical and chemical properties, distributed initial characterization data product are available for request. Please download this table before making your request to ensure archive material is available. Note that the mass listed in the archiveMass field is the initial mass and is not updated as requests are fulfilled 

NRCS Mid-infrared Spectroscopy data 

In addition to the NEON data products listed above, the USDA NRCS Kellogg Soil Survey Laboratory generated MIR spectra on almost all NEON Megapit and Initial Characterization Soils from the samples that were sent to generate the soil physical and chemical data products (DP1.00096.001, DP1.00097.001, DP1.10008.001, DP1.10047.001). Dataset summary: 

  • Focus area: MIR spectra 
  • Sites: All 
  • Horizons: All 
  • Project products: Contact Scarlett Murphy or Rich Ferguson, USDA NRCS Kellogg Soil Survey Laboratory, for the data 

    Permit Requirements

    All requesters must have a Permit to Receive Soil (PPQ 525), or equivalent permit, from the USDA Animal and Plant Health Inspection Service (USDA-APHIS), or from an equivalent international service. Find information about the permit at the  APHIS website. Samples will not be shipped to facilities that do not have an active permit. 

    Considerations for Approval

    In order to balance preservation and sample use, request only the minimum amount of soil needed for your study. Any amount of material may be requested; however, requests for smaller quantities of soil per sample (e.g., <20 g/Megapit sample or <10 g/ICS sample) are more likely to be approved. Requests for larger quantities may be approved if justified, the aim of the study passes the merit review, and sufficient material is available in the archive to support future requests. Do not request spare or extra soil. A minimum quantity of "forever sample" (10 g) will be reserved in the ICS archive for each sample for long-term keeping and potential re-analysis. All requests undergo a review process to evaluate the intellectual merit, quantity justification, and data management plan. Requests are evaluated to ensure that:

    • A legitimate research project is the basis for the request, including agency and award information if applicable;
    • The use of NEON soil samples is important to achieve the study goals;
    • The quantity is justified. Staff also review whether a sample was previously used for the same purpose; and
    • A specific data management plan describing how the data generated from the request will be made publicly available in a format suitable for reuse by others (e.g., see FAIR data principles). If possible, include links to publicly available data that you have previously generated to demonstrate a commitment to open science.

    In addition, the evaluation will consider the impact of fulfilling the request on the samples’ projected exhaustion date, specifically whether they will be exhausted prior to NEON’s expected 2049 end date (megapit requests) or the ICS project end date (ICS requests), in order to maintain the ability to support future requests. This is achieved by extrapolating the sample consumption rate after fulfilling the proposed request into the future to determine the projected sample mass at the end date (Ayres et al. 2019). Given that some samples have a faster consumption rate than others and some samples had a lower original mass than others, NEON may approve a request for some samples but not others included in the request. Staff will typically reject requests for a specific sample in cases where fulfilling the request would result in that sample being exhausted prior to the end date. In this case, a requester may provide a justification explaining why that sample is essential to their project and the decision will be reevaluated.

    In the event that a request is rejected or partially rejected, a requester may ask for a second evaluation by an external panel if they deem it necessary.

    Request review procedure and timeline

    The approval of requests for ≤20 g soil/Megapit sample is determined internally by NEON staff, while the approval of requests for ≤4 g (organic horizons) or  ≤15 g (mineral soils)/ICS samples is determined internally by NEON and UMBS-SAFE staff. A recommendation is sought from an external group of experts prior to determining an approval decision for requests above these thresholds. A first decision, which may be requesting additional information, is typically achieved within 1 week for requests reviewed internally and within 2 weeks for requests reviewed externally. 

    Tips to avoid delays in the review of your request include:

    • Provide all requested information
    • Justify the quantity of soil requested for each analysis (include relevant citations where appropriate)
    • Avoid requests for soil analyses to be run in duplicate or triplicate, or if absolutely necessary, provide a suitable justification (include relevant citations where appropriate)

    Request fulfillment

    To maximize the representativeness of the subsample, requests for ≤1 g/megapit sample are fulfilled with finely ground soil generated with a ball mill, whereas larger requests are fulfilled with soil sieved through 2 mm mesh (mineral horizons) or hand sorted (organic horizons), unless otherwise requested.

    Megapit soil samples are typically shipped within 2 months of request approval as long as permitting delays are not encountered. ICS samples are typically shipped within 1-4 months of request approval, depending on the number of samples requested, and provided permitting delays are not encountered.

    In order to maintain the quality of the archived soils, returning subsamples to the archive after nondestructive analyses is not permitted due to the reduction in quality assurance that can be provided for material that has changed hands, as well as to protect the archives from external contaminants (e.g., isotopic tracers or biological contaminants). As a result, every subsampling event results in the permanent loss of soil from the archive.

    Acknowledgement and Citation Policy

    See NEON Data Policies and Citation Guidelines for details. 

    Suggested Megapit Archive acknowledgement: "The National Ecological Observatory Network is a program sponsored by the National Science Foundation and operated under cooperative agreement by Battelle Memorial Institute. This material is based in part upon work supported by the National Science Foundation through the NEON Program, including samples provided by the NEON Megapit Soil Archive."

    Suggested ICS Archive acknowledgement: "The National Ecological Observatory Network is a program sponsored by the National Science Foundation and operated under cooperative agreement by Battelle Memorial Institute. This material is based in part upon work supported by the National Science Foundation through the NEON Program, including samples from the NEON Initial Characterization Soil Archive, a joint project of NEON and the University of Michigan Biological Station, as supported by the National Science Foundation (DBI-1624205) and Battelle Memorial Institute (US001-0000757206)."

    The following documents, available through the NEON document library, describe procedures related to the Megapit Soil Archive samples and can be cited as necessary:

    • Megapit Soil Archive field sampling and collection methods: Ayres E, Zulueta R (2013) TIS Soil Pit Sampling Protocol. NEON.DOC.001307;

    • Megapit Soil Archive sample processing: Ayres E and Loescher HW (2012) NEON Field and Lab Procedure and Protocol: TIS Soil Archiving. NEON.DOC.000325; and

    • Megapit Soil Archive requestor subsample processing: Ayres E (2013) NEON Procedure and Protocol: Producing TIS Soil Archive Subsamples for Users. NEON.DOC.001306.

    The following documents, available through the NEON document library in the External Lab Protocols > NRCS Initial Soil Characterization folder, describe procedures related to the Initial Soil Characterization sampling effort and can be cited as necessary:

    • Browning, D. and L. Stanish. 2017. Guidelines for the NEON Soil Characterization Effort.

    • Schoeneberger, P.J., D.A. Wysocki, E.C. Benham, and Soil Survey Staff. 2012. Field book for describing and sampling soils, Version 3.0. Natural Resources Conservation Service, National Soil Survey Center, Lincoln, NE.

    Additionally, the following paper outlines key guidelines and procedures that will be used in administering the soil archives:

    • Ayres, E. 2019. Quantitative guidelines for establishing and operating soil archives. Soil Science Society of America Journal 83:973-981. doi: 10.2136/sssaj2019.02.0050

    Previous Megapit Soil Archive Requests

    Wondering how others are using NEON soil samples? Here is a list of previous requests. We encourage you to collaborate with these researchers if you have similar interests! 

    Focus area: Humic and fulvic acids
    Sites requested: All
    Horizons requested: All
    Years samples provided: 2013-2016
    Requestor: Geoff Davies, Northeastern University
    Project products:

    • Ghabbour et al. 2015 Measuring the total and sequestered organic matter contents of grassland and forest soil profiles in the National Ecological Observatory Network Initiative. Soil Horizons 56, doi: 10.2136/sh15-07-0014 
    • Davies & Ghabbour 2015 Measuring Sequestered Carbon Contents of Grassland and Forest Soil Profiles in the Neon Initiative, National Cooperative Soil Survey National Conference, Duluth, MN 

    Focus area: Bulk 14C content
    Sites requested: All
    Horizons requested: All
    Years samples provided: 2015-2018
    Requestor: Carlos Sierra, Max Planck Institute for Biogeochemistry

    Focus area: Bulk 15N, 13C, oxalate and dithionite extractable Fe, Al, Si and oxalate and dithionite extractable Fe, Al, Si  on the silt and clay fraction
    Sites requested: All
    Horizons requested: All
    Years samples provided: 2014-2018
    Requestor: Marc Kramer, University of Florida
    Project products: 

    Focus area: Oxygen isotope systematics during nitrification
    Sites requested: HARV, OSBS, ORNL, TALL, CPER, JORN
    Horizons requested: A (shallowest subhorizon)
    Years samples provided: 2015
    Requestor: Greg Michalski, Purdue University

    Focus area: FTIR, mineral-associated OM, metal extractions
    Sites requested: HARV, BLAN, SCBI, OSBS, JERC, DSNY, DELA, UNDE, KONZ, UKFS, DCFS, WOOD, NOGP, CPER, STER, RMNP, OAES, NIWO, JORN, ONAQ
    Horizons requested: All mineral
    Years samples provided: 2016-2018
    Requestor: Jonathan Sanderman, Woods Hole Research Center
    Project products

    Focus area: Composition of soil C based on new solid state spectroscopic methods
    Sites requested: All
    Horizons requested: O and A (all subhorizons)
    Years samples provided: 2017
    Requestor: Margaret Bowman, University of Colorado

    Focus area: Biogeography of Streptomyces
    Sites requested: All
    Horizons requested: A (shallowest subhorizon)
    Years samples provided: 2018
    Requestor: Steven Higgins, Cornell University

    Focus area: The role of soil and iron-organic matter complexes as controls on redox chemistry driving NO2(g)-to-HONO conversion across a gradient of soil
    Sites requested: HARV, SCBI, OSBS, GUAN, UNDE, KONZ, TALL, WOOD, CLBJ, NIWO, SRER, ONAQ
    Horizons requested: A (shallowest subhorizon)
    Years samples provided: 2018
    Requestor: Rebecca Abney, Indiana University, Bloomington
    Project products: 

    Focus area: Carbon content of different soil fractions
    Sites requested: All
    Horizons requested: All
    Years samples provided: 2019
    Requestor: Jocelyn Lavallee, Colorado State University
    Project products: 

    • Zhang et al. 2021 Simulating measurable ecosystem carbon and nitrogen dynamics with the mechanistically-defined MEMS 2.0 model, Biogeosciences Discuss. [preprint], https://doi.org/10.5194/bg-2020-493, in review. 

    Focus area: 13C nuclear magnetic resonance (CPMAS NMR) spectroscopic analyses to assess controls on soil organic matter chemical composition
    Sites requested: HARV, SCBI, DSNY, OSBS, GUAN, UNDE, KONZ, GRSM, LENO, WOOD, CPER, NIWO, SRER, ONAQ, BART, JERC, DCFS, CLBJ, MOAB, JORN, RMNP, LAJA, UKFS, MLBS, ORNL, TALL, ABBY, WREF, SJER, SOAP, TEAK, TOOL, BONA, HEAL
    Horizons requested: A (shallowest subhorizon)
    Years samples provided: 2018
    Requestor: Steven Hall, Iowa State University
    Project Products:

    Focus area: Quantitative guidelines for establishing and operating soil archives
    Sites requested: NA (no samples required)
    Horizons requested: NA (no samples required)
    Years samples provided: NA
    Requestor: Edward Ayres, NEON
    Project products:

    Request Form

    To complete this request form, you must include:

    • Your full name and affiliation
    • A copy of your USDA-APHIS permit to receive soil or equivalent permit
    • The archive you are requesting from (Megapit Archive or ICS Archive). Submit separate requests if requesting from both archives.
    • A project description, including:
      • Project objectives and background information;
      • A list of each analysis you will perform, description of how the analysis relates to the project objective, the quantity of soil required for each analysis, and a justification for the quantity used in each analysis;
      • A list of samples and the mass requested;
      • A detailed data management plan describing how data generated from the request will be made publicly available in a format suitable for reuse by others (e.g., see FAIR data principles). If possible, include links to publicly available data that you have previously generated to demonstrate a commitment to open science.
    • Agreement to the consent agreement (see below)

    If you have questions, please email the Soil Archive Team (Megapit) or NEON and UMBS-SAFE staff (ICS).

    Fields followed by an asterisk (*) are required.

      Please the name of the institution or organization you are affiliated with.
      Please attach a copy of your USDA-APHIS Permit to Receive Soils. Submit relevant national permit if located outside of the U.S.
      One file only.
      5 MB limit.
      Allowed types: jpg, png, pdf.
      Please attach a copy of your USDA-APHIS Compliance agreement to Receive Soils. Submit relevant national agreement if located outside of the U.S.
      One file only.
      5 MB limit.
      Allowed types: jpg, png, pdf.
      Archive Samples Being Requested

      Please upload a description and justification for your request for NEON samples that includes:

      1. A brief project objective, description and justification for the use of NEON samples
      2. A list of analyses you will perform, the quantity of soil required for each analysis and a justification for the quantity used in each analysis
      3. A detailed list of requested samples. Do not request spare or extra soil material. 
      Accepted file types include .doc, .docx and .pdf. Maximum upload size is 2MB.
      One file only.
      10 MB limit.
      Allowed types: pdf, doc, docx.
      Consent Agreement
      By submitting a request, requestors agree to: 1) report all publications, presentations or other derived products resulting from the use of the samples to archive staff; 2) acknowledge NEON (Megapit Archive) or NEON and UMBS-SAFE (ICS Archive) as the provider of samples in any publication or presentation resulting from the request, regardless of authorship; 3) have your name, affiliation, and summary information about your request (e.g., focus area, sites and horizons requested) listed on the archive webpage in order to allow others with similar interests to know of your project; and 4) publish data generated from the request in a publicly available location in a format suitable for reuse by others (e.g., see FAIR data principles) within two years of receipt of the samples or or upon publication of results (whichever is shorter, with variances from this agreement approved based on a request in writing).  Please review NEON Data Usage and Citation Policies.
      How did you hear about NEON's soil archive?