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High-throughput eDNA monitoring of fungi to track functional recovery in ecological restoration: OTU raw data matrix

Parent Dataset: Revegetation rewilds the soil bacterial microbiome of an old field- Part 1: OTU raw data matrix
Ver: 1
Status of Data: completed
Update Frequency: not planned
Security Classification: unclassified
Viewed: 0
Accessed: 0

Description

We present a High-throughput eDNA dataset of fungi to track functional recovery in ecological restoration in the form of an OTU raw data matrix. We generated a total of 4,993,144 ITS fungal raw reads (118,884 ± 42,210 SD per replicate) across the 42 replicates. A total of 4,955,680 fungal sequences (117,430 ± 42,164 SD per replicate) remained for further analysis after quality filtering. The OTU data provide information on fungal 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.
We thank A. Bissett, S. Kennedy, 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 support from the BASE project, Australian Genome Research Facility, BioPlatforms Australia, and SA Water. This work was supported by Australian Research Council funding to AJL and MFB (DE150100542; DP150103414), and China Scholarship Council funding to DY (201408410176). We would also like to acknowledge the contribution of the BASE project partners DOI 10.4227/71/ 561c9bc670099, an initiative supported by Bioplatforms Australia with funds provided by the Australian Commonwealth Government through the National Collaborative Research Infrastructure Strategy.

Purpose
This project was conducted during the author's PhD. The OTU data was generated for the manuscript titled "High-throughput eDNA monitoring of fungi to track functional recovery in ecological restoration" 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 homogenized using a sterilized 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.

Temporal coverage

From 12/17/2014 to 12/18/2014

Dates

Creation date

12/18/2014

Publication date

3/16/2017

Revision date

12/16/2024

Citation information

How to cite this collection:

Gellie, N., Yan, D., Mills, J., Lowe, A. & Breed, M. (2017): High-throughput eDNA monitoring of fungi to track functional recovery in ecological restoration: OTU raw data matrix. Version 1. Terrestrial Ecosystem Research Network. (Dataset). https://doi.org/10.4227/05/58ca32e5ef782

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Rights and Licensing

CC-BY

Creative Commons Attribution 4.0 International Licence
http://creativecommons.org/licenses/by/4.0

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(C)2017 University of Adelaide. Rights owned by University of Adelaide.

Keywords

Parameters
GCMD Science
ANZSRC - FOR
Horizontal Resolution
Temporal Resolution
Topic Categories
User Defined
  • Biodiversity Inventory
  • Ecological Succession
  • Experimental Ecology
  • Landscape Ecology
  • Long-Term Community Monitoring
  • Long-Term Species Monitoring
  • Molecular Ecology
  • Restoration Ecology
  • Soil Ecology

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  • Terrestrial Ecosystem Research Network
  • Building 1019, 80 Meiers Rd
  • QLD 4068
  • Australia
Spatial coverage
Spatial description
Our 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 our 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.