Quantification of selected antimicrobial resistance genes in pig faeces on a British commercial pig farm during a typical production cycle
Cite this dataset as:
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
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© University of Edinburgh
This dataset is made available under the terms of the Open Government Licence 
https://doi.org/10.5285/e548dc5d-49e3-467d-9435-c199da40e7be
The data presented 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.
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.
Publication date: 2018-08-10
View numbers valid from 01 June 2023 Download numbers valid from 20 June 2024 (information prior to this was not collected)
Format
Comma-separated values (CSV)
Spatial information
Study area
Spatial representation type
Tabular (text)
Spatial reference system
OSGB 1936 / British National Grid
Temporal information
Temporal extent
2016-10-19 to 2017-04-05
Provenance & quality
Faecal and soil samples were collected from the study farm weekly using spooned universal tubes and were stored at -20 deg C, batch transported on dry ice to the laboratory where they were stored at -80 deg 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.
Licensing and constraints
This dataset is made available under the terms of the Open Government Licence
Cite this dataset as:
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
© University of Edinburgh
Correspondence/contact details
Pollock, J.
The Roslin Institute
Easter Bush Campus
Midlothian
EH25 9RG
UK
jolinda.pollock@roslin.ed.ac.uk
Midlothian
EH25 9RG
UK
Authors
https://orcid.org/0000-0002-2260-592X
Corbishley, A.
R(D)SVS/The Roslin Institute
Hutchings, M.R.
SRUC
Gally, D.L.
The Roslin Institute
Other contacts
Rights holder
University of Edinburgh
Custodian
NERC EDS Environmental Information Data Centre
info@eidc.ac.uk
Publisher
NERC Environmental Information Data Centre
info@eidc.ac.uk