Soil microbial community in oiled sites, Juncus and Spartina planted treatments with and without fertilizer, and reference sites, northern Barataria Bay, 2014-2016

Accelerating Recovery after the Deepwater Horizon Oil Spill: Response of the Plant-Microbial-Benthic Ecosystem to Mitigation Strategies Promoting Wetland Remediation and Resilience

DOI:
10.7266/N7MP51NQ
 
UDI:
R2.x211.000:0008
Last Update:
Jun 21 2017 13:19 UTC
 
Dataset Author(s):
A Hou, G Cagle
Point of Contact:
Hou, Aixin
Louisiana State University / Department of Environmental Sciences
School of the Coast and Environment 1271 Energy, Coast and Environment Building
Baton Rouge, Louisiana  70803
USA
ahou@lsu.edu
Funding Source:
RFP-II
Data Collection Period:
2014-06-01 to 2016-06-30

Identified Submitted In-Review Available
3 3 3 3

Suggested Citation:

A Hou, G Cagle. 2017. Soil microbial community in oiled sites, Juncus and Spartina planted treatments with and without fertilizer, and reference sites, northern Barataria Bay, 2014-2016. Distributed by: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC), Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/N7MP51NQ

Abstract:

These data are from a manipulative field experiment designed to test the effects of restoration treatments on the marsh ecology. The data were collected from remediation treatment plots that included three levels of planting: planted with Spartina, planted with Juncus, and not planted. Each planting level also included a fertilized and unfertilized treatment, so there were a total of six treatments. Each treatment was replicated in the marsh 5 times. For the soil microbial community study, DNA was isolated from soil samples and sequenced with Illumina MiSeq, then processed using QIIME.

Purpose:

The purpose of this study is to determine how alterations in microbial community structure and function recover as a function of initial oiling intensity and remediation treatment. In order to capture the effects of each aspect of remediation treatment on the soil microbial community, the treatments include a combination of fertilization, planting, and control plots.

Theme Keywords:

Bacteria, Restoration, Microbial Community, Soil, Sediment, Salt Marsh

File Format:

xlsx, txt

Filename:

Dataset-R2.x211.000-0008.zip (29.96 MB)

Dataset Downloads:

5

Soil microbial community in oiled sites, Juncus and Spartina planted treatments with and without fertilizer, and reference sites, northern Barataria Bay, 2014-2016



Identification Information
Distribution Information
Metadata Maintenance Information

Metadata: 
  File identifier: 
      R2.x211.000-0008-metadata.xml
  Language: 
      eng; USA
  Character set: 
    Character set code: 
      utf8
  Hierarchy level: 
    Scope code: 
      dataset
  Metadata author: 
    Responsible party: 
      Individual name: 
          Aixin Hou
      Organisation name: 
          Louisiana State University / Department of Environmental Sciences
      Position name: 
          Professor
      Contact info: 
        Contact: 
          Phone: 
            Telephone: 
              Voice: 
                  2255784294
              Facsimile: 
          Address: 
            Address: 
              Delivery point: 
                  School of the Coast and Environment
                  1271 Energy, Coast and Environment Building
              City: 
                  Baton Rouge
              Administrative area: 
                  Louisiana
              Postal code: 
                  70803
              Country: 
                  USA
              Electronic mail address: 
                  ahou@lsu.edu
      Role: 
        Role code: 
          pointOfContact
  Date stamp: 
      2021-05-04T20:04:56+00:00
  Metadata standard name: 
      ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
  Metadata standard version: 
      ISO 19115-2:2009(E)
  Dataset URI: 
      https://data.gulfresearchinitiative.org/metadata/R2.x211.000:0008
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Identification info: Data identification: Citation: Citation: Title: Soil microbial community in oiled sites, Juncus and Spartina planted treatments with and without fertilizer, and reference sites, northern Barataria Bay, 2014-2016 Alternate title: Date: Date: Date: 2017-06-22 Date type: Date type code: publication Identifier: Identifier: Code: Anchor: xlink: https://dx.doi.org/10.7266/N7MP51NQ title: DOI doi:10.7266/N7MP51NQ Abstract: These data are from a manipulative field experiment designed to test the effects of restoration treatments on the marsh ecology. The data were collected from remediation treatment plots that included three levels of planting: planted with Spartina, planted with Juncus, and not planted. Each planting level also included a fertilized and unfertilized treatment, so there were a total of six treatments. Each treatment was replicated in the marsh 5 times. For the soil microbial community study, DNA was isolated from soil samples and sequenced with Illumina MiSeq, then processed using QIIME. Purpose: The purpose of this study is to determine how alterations in microbial community structure and function recover as a function of initial oiling intensity and remediation treatment. In order to capture the effects of each aspect of remediation treatment on the soil microbial community, the treatments include a combination of fertilization, planting, and control plots. Status: Progress code: completed Point of contact: Responsible party: Individual name: Aixin Hou Organisation name: Louisiana State University / Department of Environmental Sciences Position name: Professor Contact info: Contact: Phone: Telephone: Voice: 2255784294 Facsimile: Address: Address: Delivery point: School of the Coast and Environment 1271 Energy, Coast and Environment Building City: Baton Rouge Administrative area: Louisiana Postal code: 70803 Country: USA Electronic mail address: ahou@lsu.edu Role: Role code: principalInvestigator Descriptive keywords: Keywords: Keyword: Bacteria Keyword: Restoration Keyword: Microbial Community Keyword: Soil Keyword: Sediment Keyword: Salt Marsh Type: Keyword type code: theme Descriptive keywords: Keywords: Keyword: Barataria Bay Keyword: Louisiana Type: Keyword type code: place Resource constraints: title: Cite As Constraints: Use limitation: A Hou, G Cagle. 2017. Soil microbial community in oiled sites, Juncus and Spartina planted treatments with and without fertilizer, and reference sites, northern Barataria Bay, 2014-2016. Distributed by: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC), Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/N7MP51NQ Resource constraints: title: CC0 License Legal constraints: Use constraints: Restriction code: licenceUnrestricted Other constraints: This information is released under the Creative Commons license - No Rights Reserved - CC0 1.0 Universal (https://creativecommons.org/publicdomain/zero/1.0/). The person who associated a work with this deed has dedicated the work to the public domain by waiving all of his or her rights to the work worldwide under copyright law, including all related and neighboring rights, to the extent allowed by law. You can copy, modify, distribute and perform the work, even for commercial purposes, all without asking permission. Resource constraints: title: Liability and Warranty Legal constraints: Other constraints: All materials on this website are made available to GRIIDC and in turn to you "as-is." Content may only be submitted by an individual who represents and warrants that s/he has sufficient rights to be able to make the content available under a CC0 waiver. There is no warranty (expressed or implied) to these materials, their title, accuracy, non-infringement of third party rights, or fitness for any particular purpose, including the performance or results you may obtain from their use. Use these materials at your own risk. Under no circumstances shall GRIIDC be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use or the inability to use either this website or the materials available via this website. If you are dissatisfied with any website feature, content, or terms of use, your sole and exclusive remedy is to discontinue use. Aggregation Info: AggregateInformation: Aggregate Data Set Name: title: Related Publication Citation Citation: Title: Cagle, G., Lin, Q., Graham, S. A., Mendelssohn, I., Fleeger, J. W., Deis, D., … Hou, A. (2020). Planting Spartina alterniflora in a salt marsh denuded of vegetation by an oil spill induces a rapid response in the soil microbial community. Ecological Engineering, 151, 105815. doi:10.1016/j.ecoleng.2020.105815 Date: inapplicable Aggregate Data Set Identifier: title: Related Publication DOI Identifier: Code: Anchor: xlink: https://dx.doi.org/10.1016/j.ecoleng.2020.105815 title: DOI doi:10.1016/j.ecoleng.2020.105815 Association Type: Association type code: crossReference Language: eng; USA Topic category: Topic category code: biota Topic category: Topic category code: environment Extent: Extent: Geographic element: Geographic bounding box: West bound longitude: -89.93337 East bound longitude: -89.93337 South bound latitude: 29.44105 North bound latitude: 29.44105 Geographic element: BoundingPolygon: Polygon: gml:MultiPoint: gml:pointMember: Point: gml:pos: 29.44105 -89.93337 Temporal element: Temporal extent: Extent: Time period: Description: ground condition Begin date: 2014-06-01 End date: 2016-06-30 Supplemental Information: replant-2015-otu-w-tax.xlsx: sample ID (internal sample ID), treatment (N- = no fertilizer and not planted, N+ = fertilizer and not planted, J- = no fertilizer and planted with Juncus, J+ = fertilizer and planted with Juncus, S+ = fertilizer and planted with Spartina, S- = no fertilizer and planted with Spartina), Site (block number and treatment), Block (replicate number), plant (n = not planted, j = Juncus roemerianus, s = Spartina alterniflora), fert (f = not fertilized, t = fertilized), Year, Month, Season, operational taxonomic units (OTUs) = counts (Kingdom, Phylum, Class, Order, Family, Genus, Species. The data are observations of OTUs (operational taxonomic units) in each sample. The data are count data of each OTU recorded in each sample. R2.x211.000-0008-SraRunTable.txt - AvgSpotLen, BioSample (NCBI Biosample Accession), Experiment (NCBI Experiment Accession), Library_Name, LoadDate (MM/DD/YYYY) date data submitted to NCBI, MBases (megabases), MBytes (megabytes), Planting treatment (not planted, Juncus roemerianus, Spartina alterniflora), ReceivedFertilization (True, False), Run, SRA_Sample (NCBI SRA Sample Accession), Sample_Name, Site_s (block number and treatment), treatment ((N- = no fertilizer and not planted, N+ = fertilizer and not planted, J- = no fertilizer and planted with Juncus, J+ = fertilizer and planted with Juncus, S+ = fertilizer and planted with Spartina, S- = no fertilizer and planted with Spartina), agrochem_addition (None, Slow release fertilizer), collection_date (YYYY-MM) (date sample collected from block), Assay_type, Bioproject (NCBI Bioproject Accession), BioSampleModel, Consent, InsertSize, Instrument, LibraryLayout, LibrarySelection, LibrarySource, Organism, Platform, ReleaseDate (MM,DD, YYYY) (date data released to public), SRA_Study (NCBI SRA Study Accession), depth (m), elevation (meters), env_biome, env_feature, env_material, geo_loc_name (geographic location name), lat_lon (latitude, decimal degrees, longitude decimal degrees)|Sampling sites in this study are 2.1 meter square treatment plots that are directly adjacent to one another other. Fertilized treatment received Slow-release fertilizer (Osmocote Plus with 15% N, 8% P2O5 and 11% K2O) was applied twice a year (April and September) in fertilizing plots at a rate of 326 kg N/ha/yr, 76 kg P/ha/yr and 198 kg K/ha/yr. Fertilizer was inserted 10 cm beneath the soil. The top 10 cm of soil was collected from within each treatment plot. The soil was transported to the lab on ice and stored at -80°C. DNA was extracted from each soil sample, checked for purity,and amplified by PCR of the V4 barcode region, 16S rDNA for prokaryotes. Sequencing of PCR amplicons was conducted with Illumina MiSeq. DNA processing was done in QIIME v. 1.9.1 with default settings except for a Phred score of 25. Please contact the authors for further information.||||
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Distribution info: Distribution: Distributor: Distributor: Distributor contact: Responsible party: Organisation name: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC) Contact info: Contact: Phone: Telephone: Voice: 3618253604 Address: Address: Delivery point: 6300 Ocean Drive City: Corpus Christi Administrative area: TX Postal code: 78412 Country: USA Electronic mail address: griidc@gomri.org Online Resource: Online Resource: Linkage: URL: https://data.gulfresearchinitiative.org Role: Role code: distributor Distributor format: Format: Name: xlsx, txt Version: inapplicable File decompression technique: zip Distributor transfer options: Digital transfer options: Transfer size: 29.96 Online: Online Resource: Linkage: URL: https://data.gulfresearchinitiative.org/data/R2.x211.000:0008 Protocol: https Name: Data Landing Page Description: GRIIDC dataset landing page Function: Online function code: information
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Metadata maintenance: Maintenance information: Maintenance and update frequency: unknown Maintenance note: This ISO metadata record was automatically generated from information provided to GRIIDC for dataset: R2.x211.000:0008 on 2021-06-18T09:43:19-05:00
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