e548dc5d-49e3-467d-9435-c199da40e7be
eng
utf8
dataset
Environmental Information Data Centre
Lancaster Environment Centre, Library Avenue, Bailrigg
Lancaster
LA1 4AP
UK
eidc@ceh.ac.uk
pointOfContact
2019-10-24T08:11:48
ISO 19115 (UK GEMINI)
1.0 (2.2)
27700
urn:ogc:def:crs:EPSG
Quantification of selected antimicrobial resistance genes in pig faeces on a British commercial pig farm during a typical production cycle
2018-08-10
publication
https://catalogue.ceh.ac.uk/id/e548dc5d-49e3-467d-9435-c199da40e7be
10.5285/e548dc5d-49e3-467d-9435-c199da40e7be
doi:
Pollock, J., Corbishley, A., Hutchings, M.R., Gally, D.L. (2018). Quantification of selected antimicrobial resistance genes in pig faeces on a British commercial pig farm during a typical production cycle. NERC Environmental Information Data Centre 10.5285/e548dc5d-49e3-467d-9435-c199da40e7be
[This dataset is embargoed until April 1, 2020]. The data presented in pigAMRgenecounts.csv are quantitative polymerase chain reaction (qPCR) read outs from antimicrobial resistance gene (AMRG) assays and associated metadata from this project. In this dataset, the mean gene copy numbers per microlitre of DNA extract are shown.
The data were collected from faecal and environmental samples which were obtained from a single British commercial pig unit. The former were collected from the sow housing barn, pig growing houses and slurry tanks within the farm unit and the latter were obtained through random stratified sampling of the farm and the surrounding land. These samples were taken from what will be referred to as the 'main study'. A further study was carried out to obtain samples after a partial depopulation which took place on this farm. Faecal samples were obtained from the sow housing barn, pig growing houses and slurry tanks and will be referred to as the 'depopulation (depop) study'.
For the main study, the samples were collected between October 19th 2016 and April 5th 2017. For the depop study, the samples were collected between 19th June 2017 and 13th November 2017. The data associated with all samples were generated between August 1st 2017 and May 1st 2018. Full details about this dataset can be found at https://doi.org/10.5285/e548dc5d-49e3-467d-9435-c199da40e7be
Dr. Jolinda Pollock
The Roslin Institute
jolinda.pollock@roslin.ed.ac.uk
pointOfContact
Pollock, J.
SRUC/The Roslin Institute
jolinda.pollock@roslin.ed.ac.uk
author
Corbishley, A.
R(D)SVS/The Roslin Institute
alexander.corbishley@roslin.ed.ac.uk
author
Hutchings, M.R.
SRUC
mike.hutchings@sruc.ac.uk
author
Gally, D.L.
The Roslin Institute
david.gally@roslin.ed.ac.uk
author
NERC Environmental Information Data Centre
eidc@ceh.ac.uk
publisher
Environmental Information Data Centre
eidc@ceh.ac.uk
custodian
Soil
Agricultural and Aquaculture Facilities
Human Health and Safety
theme
GEMET - INSPIRE themes, version 1.0
2008-06-01
publication
This resource is made available under the terms of the Open Government Licence
© University of Edinburgh
If you reuse this data, you should cite: Pollock, J., Corbishley, A., Hutchings, M.R., Gally, D.L. (2018). Quantification of selected antimicrobial resistance genes in pig faeces on a British commercial pig farm during a typical production cycle. NERC Environmental Information Data Centre https://doi.org/10.5285/e548dc5d-49e3-467d-9435-c199da40e7be
otherRestrictions
embargoed
textTable
eng
utf8
biota
farming
2016-10-19
2017-04-05
-6.628
1.592
52.239
56.4
Comma-separated values (CSV)
unknown
Environmental Information Data Centre
eidc@ceh.ac.uk
distributor
dataset
dataset
Faecal and soil samples were collected from the study farm weekly using spooned universal tubes and were stored at -20°C, batch transported on dry ice to the laboratory where they were stored at -80°C until DNA extraction was carried out. DNA extracts were quantified and assessed using a NanoDrop spectrophotometer and split into aliquots for storage. DNA extracts were then screened in triplicate by qPCR and the number of gene copies assessed through the use of a standard curve generated by the inclusion of standards with known copy numbers of each target gene. Non-template controls were also included to ensure that non-specific binding or contamination were not occurring. The qPCR machine software (i.e. MxPro) was then used to calculate the number of gene copies in each of the collected samples and the mean was calculated using the three replicates. These values are included in the data set provided.