logo
Data

Revegetation rewilds the soil bacterial microbiome of an old field- Part 1: OTU raw data matrix 

Ver: 1.0
Status of Data: completed
Update Frequency: notPlanned
Security Classification: unclassified
Record Last Modified: 2025-12-02
Viewed 151 times
Accessed 8 times
Dataset Created: 2014-12-17
Dataset Published: 2017-01-13
Data can be accessed from the following links:
HTTPPoint-of-truth metadata URLHTTPMt_Bold_OTUsHTTPSite_samplesHTTPro-crate-metadata.json
How to cite this collection:
Gellie, N., Mills, J., Breed, M. & Lowe, A. (2017). Revegetation rewilds the soil bacterial microbiome of an old field- Part 1: OTU raw data matrix. Version 1.0. Terrestrial Ecosystem Research Network. Dataset. https://dx.doi.org/10.4227/05/5878480a91885 
The authors analyzed a total of 3,002,411 quality-filtered bacterial 16S rRNA gene sequences in the 48 technical replicates across 8 revegetation chronosequence sites, consisting of 3,316 OTUs. Nine bacterial phyla dominated this dataset, including Acidobacteria, Actinobacteria, Bacteroidetes, Chloroflexi, Firmicutes, Gemmatimonadetes, Planctomycetes, Proteobacteria and Verrucomicrobia.The OTU data provide information on bacterial flux at this restoration site through a stagger of years and can be used accordingly. 
Credit
We at TERN acknowledge the Traditional Owners and Custodians throughout Australia, New Zealand and all nations. We honour their profound connections to land, water, biodiversity and culture and pay our respects to their Elders past, present and emerging. The authors thank A. Bissett, A. Fitzgerald, A. Young, Z. Baruch, S. Caddy-Retalic, L. Clarke, S. Kennedy, I. Fox, M. Laws, K. McCallum, and J. McDonald for technical and field assistance. We are grateful for technical, field and site access support from the Australian Genome Research Facility, BioPlatforms Australia, SA Water and the Terrestrial Ecosystem Research Network. This work was supported by Australian Research Council funding to AJL and MFB (DE150100542; DP150103414). 
Purpose
This project forms part of the authors PhD. The OTU data was generated for a manuscript in Molecular Ecology "Revegetation rewilds the soil bacterial microbiome of an old field" https://doi.org/10.1111/mec.14081 that uses eDNA assessment to provide a significant extension to current restoration monitoring practice. 
Lineage
EDNA metabarcoding: Three 25 m x 25 m quadrats were randomly selected per site, giving a total of 24 quadrats across the 8 sites. Soil was sampled from the 0-10 cm and 20-30 cm soil horizons at each quadrat. A representative 50 g sample of soil was collected at each of these 24 quadrats by pooling nine soil samples from each soil depth, including soil from open areas and under plants. These nine soil samples were pooled into a sterile plastic bag, and homogenised using a sterilised trowel. All soil samples (n = 48) were frozen on site in sterile 50 mL falcon tubes until DNA extraction- hereafter referred to as technical replicates. 
Method DocumentationData not provided.
Procedure StepsData not provided.
The study system was an active restoration site at Mt Bold, a water catchment reserve of the Mt Lofty Ranges in South Australia (35.07;S, 138.42 E). This catchment was dominated by an open eucalypt woodland that has historically been subjected to tree clearance and grazing that began early in the 20th century. In this context, the native understory and most of the overstory was cleared and replaced by a grassland dominated by introduced grasses. At the study site, grazing ceased in 2003 when South Australia's water utility (SA Water) took over management. SA Water has actively restored the study site since 2005, with the restoration goal of recreating the local Eucalyptus leucoxylon dominated grassy woodland community.
Temporal Coverage
From 2014-12-17 to 2014-12-18 
Spatial Resolution

Data not provided.

Vertical Extent

Data not provided.

Data Quality Assessment Scope
Data not provided. 
Revegetation rewilds the soil bacterial microbiome of an old field.
Data Quality Assessment Outcome
Data not provided. 
ANZSRC - FOR
Conservation and biodiversity
Ecological applications
Genetics
Landscape ecology
Microbiology
Other environmental sciences
Soil sciences
Terrestrial ecology
GCMD Sciences
BIOSPHERE - MICROBIAL CHANGES
LAND SURFACE - RECLAMATION/REVEGETATION/RESTORATION
LAND SURFACE - SOILS
Horizontal Resolution
30 meters - < 100 meters
Parameters
field species name
latitude
longitude
OTU count
Temporal Resolution
one off
Topic
biota
environment
User Defined
Biodiversity Inventory
Carbon Dynamics
Ecological Succession
Eucalypt Open Woodlands
Eucalypt Woodlands
Experimental Ecology
Landscape Ecology
Long-Term Community Monitoring
Long-Term Species Monitoring
Microbial Ecology
Modified Native Vegetation
Molecular Ecology
Restoration Ecology
Revegetation
Soil Ecology
Soil microbiome
Vertical Resolution
< 1 meter
Author
Gellie, Nicholas
Co-Author
Mills, Jacob
Breed, Martin
Lowe, Andy
Contact Point
Gellie, Nicholas
Publisher
Terrestrial Ecosystem Research Network
By Child records
Archaeal community responses to a decade of ecological restoration: OTU raw data matrixHigh-throughput eDNA monitoring of fungi to track functional recovery in ecological restoration: OTU raw data matrix
Export to DCATExport to BibTeXExport to EndNote/Zotero
Terrestrial Ecosystem Research Network
80 Meiers Road, Indooroopilly, Queensland, 4068, Australia.
Contact Us
Creative Commons Attribution 4.0 International Licence
https://creativecommons.org/licenses/by/4.0/
TERN services are provided on an "as-is" and "as available" basis. Users use any TERN services at their discretion and risk. They will be solely responsible for any damage or loss whatsoever that results from such use including use of any data obtained through TERN and any analysis performed using the TERN infrastructure.
Web links to and from external, third party websites should not be construed as implying any relationships with and/or endorsement of the external site or its content by TERN.

Please advise any work or publications that use this data via the online form at https://www.tern.org.au/research-publications/#reporting 
(C)2017 University of Adelaide. Rights owned by University of Adelaide. 
Please cite this dataset as {Author} ({PublicationYear}). {Title}. {Version, as appropriate}. Terrestrial Ecosystem Research Network. Dataset. {Identifier}.