DOI: 10.16904/envidat.677
title: Herbivory mediates the response of below-ground food-webs to invasive grasses

description: Dataset supporting the paper "Herbivory mediates the response of below-ground food-webs to invasive grasses", published in the Journal of Animal Ecology. 
The dataset refers to samples collected across 6 farms in the Bega Valley region of Australia. The farms are located in the grassy woodland ecoregion and are extensively managed with sheep and cattle grazing. Livestock shares the landscape with native mammalian and invertebrate herbivores. On each farm, two nested fenced exclosure systems were established. These included an open area, a fence excluding livestock but allowing access to native mammals and invertebrates, a fence excluding all mammals but allowing access to invertebrates and a shielded cage excluding all invertebrate herbivores as well. In each farm, one of these systems was located in a zone dominated by the native Kangaroo grass, and another in a zone co-dominated by the Invasive African lovegrass. The sample and treatment numbering is provided in the file Sample_metadata. 
Soil samples were taken and DNA was extracted and amplified for 16s and ITS markers. The resulting metabarcoding derived ASV tables are presented (16s_ASV_table and ITS_ASV_table), as are the inferred functional profiles for bacteria at the enzyme and pathway level (16s_picrust_enzymes and 16s_picrust_pathways), as derived by the PICRUSt2 pipeline, and the fungal guilds reconstructed with FunGuildR (FunguildR_output). 
Chemical, physical and enzymatic assays were also performed on the soil samples (Chemical_data).
Nematodes were extracted from soil cores with a Baermann funnel, counted (Nematodes_counts) and had their DNA extracted and amplified (Nematodes_asv_table). Soil invertebrates were sampled with below-ground pitfall traps and identified to family level (Invertebrates) and earthworms were manually extracted from 20*20*20 cm monoliths ((Earthworm_counts). 
Two 20 by 100 cm strips had their vegetation removed and their living and litter biomass quantified by dry weight (Biomass_summary). Sensors measuring moisture and temperature 10 cm beneath the soil surface were installed in each plot and their output is presented in Microclimate_summary.
description: Resource Title: 16s_ASV_table.txt
 Size: 10331118 bytes
 Format: text/plain
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/200c7de4-d400-47f6-9b28-a4710766338e/download/16s_asv_table.txt
 Description: ASV table of 16s (bacteria) communities. Columns are sampling sites, rows ASVs
description: Resource Title: 16s_picrust_enzymes.tsv.gz
 Size: 416613 bytes
 Format: application/gzip
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/b3783c93-6e3d-4e1b-a417-cbb1a489699c/download/16s_picrust_enzymes.tsv.gz
 Description: PICRUSt2 derived functional profiles of bacterial communities
description: Resource Title: 16s_picrust_pathways.tsv.gz
 Size: 175067 bytes
 Format: application/gzip
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/a724bdd1-1af4-4719-a29d-00908d1ec218/download/16s_picrust_pathways.tsv.gz
 Description: PICRUSt2 derived inferred pathways for bacterial communities
description: Resource Title: Biomass_summary.csv
 Size: 4005 bytes
 Format: text/csv
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/a2d0a31a-cfb3-421c-9970-36f0f2ba9b5e/download/biomass_summary.csv
 Description: Summary of collected biomass data. Each row is the average of 2 20 by 100 cm strips.
description: Resource Title: Chemical_data.csv
 Size: 8011 bytes
 Format: text/csv
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/9303e1cc-6bd5-4274-8e3c-64857ee50dff/download/chemical_data.csv
 Description: Summary of chemical and physical parameters. Each row is a sampling site
description: Resource Title: Easrthworm_counts.csv
 Size: 1165 bytes
 Format: text/csv
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/695104b9-95dd-4ee3-bd87-b99f62c82816/download/easrthworm_counts.csv
 Description: Earthworms counts and biomass for each sampling site
description: Resource Title: FunGuildR_output.csv
 Size: 3471 bytes
 Format: text/csv
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/d54a6c74-d9a7-4c1d-bff2-fe2aa355cfdc/download/funguildr_output.csv
 Description: FunGuildR derived ecological profiles of fungal communities
description: Resource Title: Invertebrates.csv
 Size: 6266 bytes
 Format: text/csv
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/46a505cc-ced8-41da-92f6-c2db25b46550/download/invertebrates.csv
 Description: Summary table of pitfall-trap collected invertebrates.
description: Resource Title: ITS_ASV_table.tsv.txt
 Size: 4203574 bytes
 Format: text/plain
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/2569787f-d2d4-427e-a024-3a45d6bc9856/download/its_asv_table.tsv.txt
 Description: ASV table of fungal communities. Each column is a sampling site
description: Resource Title: Microclimate_summary.csv.xlsx
 Size: 3575094 bytes
 Format: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/54ae1e37-c905-4e7a-84ef-bdd19489fedf/download/microclimate_summary.csv.xlsx
 Description: Summary of sensor-collected soil moisture and temperature data
description: Resource Title: Nematodes_asv_table.csv
 Size: 1319550 bytes
 Format: text/csv
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/5cd79f48-2967-4687-8a34-cf18c3e3f9b4/download/nematodes_asv_table.csv
 Description: ASV table of nematode communities
description: Resource Title: Nematodes_counts.csv
 Size: 2438 bytes
 Format: text/csv
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/3b85e403-72c0-4f1c-bde3-c0464a59b660/download/nematodes_counts.csv
 Description: Summary counts and moisture adjustments for Baermann extracted nematode samples
description: Resource Title: Sample_metadata.csv
 Size: 1295 bytes
 Format: text/csv
 URL: https://www.envidat.ch/dataset/4bda5372-4c89-4db2-91c2-da8b2f55aacc/resource/ef16a55a-9e7e-447e-9fb8-c07818c42b82/download/sample_metadata.csv
 Description: Metadata and treatment information for each of the sampling sites