Wild rodent trapping, tracking and sampling for genetics and gut microbiome, Silwood Park, Berkshire, November 2014 to November 2015
This data set is a combination of trapping data, tracking data and data on the genetic relatedness and gut microbiome composition of wild rodents caught in 2.3 ha study site in Nash’s Copse, Silwood Park, from November 2014 to November 2015. As part of a longer-term capture-mark-recapture study, three species of rodents were trapped with Sherman live-traps fortnightly for 12 months: wood mouse (Apodemus sylvaticus), yellow-necked mouse (Apodemus flavicollis) and bank vole (Myodes glaerolus). Upon capture, they were measured, weighted, sexed, aged and a tissue sample and a faecal sample were collected from all mouse individuals for genetic and microbiome analyses. All rodents were released to their location of capture. First time each individual was captured, they were injected with a permanent subcutaneous identification Radio-Frequency Identification(RFID)-tag (Passive Integrated Transponde-tag). The tagged rodents were subsequently tracked with a set of custom-made tracking devices (loggers). Loggers produced dense time-stamped occurrence data suitable for inferring spatio-temporal activity patterns of rodents, such as temporal niches, home ranges and social networks. Tissue samples were used to genotype the wood mouse population and bacterial DNA extracted from faecal samples were used to profile their gut microbiome composition.
This work was funded by a NERC independent Research Fellowship to Sarah Knowles (NE/L011867/1)
Full details about this dataset can be found at https://doi.org/10.5285/c67fde7f-a1c8-4cb4-a76e-0c6d21c82222
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Identification info
- Metadata Language
- English (en)
- Character set
- utf8
- Dataset Reference Date ()
- 2022-11-25
- Identifier
- doi: / 10.5285/c67fde7f-a1c8-4cb4-a76e-0c6d21c82222
- Other citation details
- Raulo, A., Allen, B.E., Troitsky, T., Husby, A., Firth, J., Coulson, T., Knowles, S.C.L. (2022). Wild rodent trapping, tracking and sampling for genetics and gut microbiome, Silwood Park, Berkshire, November 2014 to November 2015. NERC EDS Environmental Information Data Centre 10.5285/c67fde7f-a1c8-4cb4-a76e-0c6d21c82222
- GEMET - INSPIRE themes, version 1.0 ()
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- Environmental Monitoring Facilities
- Keywords
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- Microbiome
- microbiota
- gut microbiome
- trapping
- Sherman
- wild mouse
- wild
- mouse
- wood mouse
- bank vole
- yellow-necked mouse
- Apodemus
- Myodes
- RFID-tracking
- social network analysis
- home range analysis
- microsatellites
- kinship
- pedigree
- Limitations on Public Access
- otherRestrictions
- Other constraints
- no limitations
- Use constraints
- otherRestrictions
- Use constraints
- otherRestrictions
- Other constraints
- If you reuse this data, you should cite: Raulo, A., Allen, B.E., Troitsky, T., Husby, A., Firth, J., Coulson, T., Knowles, S.C.L. (2022). Wild rodent trapping, tracking and sampling for genetics and gut microbiome, Silwood Park, Berkshire, November 2014 to November 2015. NERC EDS Environmental Information Data Centre https://doi.org/10.5285/c67fde7f-a1c8-4cb4-a76e-0c6d21c82222
- Spatial representation type
- textTable
- Topic category
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- Biota
))
- Begin date
- 2014-11-01
- End date
- 2015-11-30
Distribution Information
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Comma-separated values (CSV)
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Supporting information
Supporting information available to assist in re-use of this dataset
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Supporting information
Supporting information available to assist in re-use of this dataset
- Quality Scope
- dataset
- Other
- dataset
Report
- Dataset Reference Date ()
- 2010-12-08
- Statement
- Wild rodents were trapped fortnightly, tagged and continuously monitored with tracking technology for one year. This is a natural rodent population and no experimental manipulations were made. Upon capture, faecal samples were collected from the rodents and a piece of ear tissue was collected upon first capture of each individual. Tissue samples were stored in ethanol in -20 C and faecal samples were stored without buffer in -80 C for 3 years. In 2017 DNA was extracted from the faecal samples of wood mice and their gut microbiome was characterised from this by amplification and sequencing of the V3 region of bacterial 16S rRNA marker gene. In 2018 the wood mouse population was genotyped and their pedigree reconstructed from ear tissue samples using 11 microsatellite markers. Details of the data and the cleaning process can be found from the supporting documentation.
Metadata
- File identifier
- c67fde7f-a1c8-4cb4-a76e-0c6d21c82222 XML
- Metadata Language
- English (en)
- Character set
- ISO/IEC 8859-1 (also known as Latin 1)
- Resource type
- dataset
- Hierarchy level name
- dataset
- Metadata Date
- 2023-02-09T11:08:57
- Metadata standard name
- UK GEMINI
- Metadata standard version
- 2.3