043513e5-406c-4477-89aa-c96059acb232 English ISO/IEC 8859-1 (also known as Latin 1) dataset dataset NERC EDS Environmental Information Data Centre Lancaster Environment Centre, Library Avenue, Bailrigg Lancaster LA1 4AP UK info@eidc.ac.uk https://eidc.ac.uk/ EIDC website The Environmental Information Data Centre (EIDC) is the UK's national data centre for terrestrial and freshwater sciences. information pointOfContact 2025-11-13T16:20:43 UK GEMINI 2.3 OSGB 1936 / British National Grid Wild rodent tracking and gut microbiome data, Holly Hill, Wytham Woods, UK, 2018-2019 2023-11-22 publication https://catalogue.ceh.ac.uk/id/043513e5-406c-4477-89aa-c96059acb232 10.5285/043513e5-406c-4477-89aa-c96059acb232 doi: Raulo, A., Firth, J., Coulson, T., Knowles, S.C.L., Lamberth, C., English, H., Quicray, M., Dale, J. (2023). Wild rodent tracking and gut microbiome data, Holly Hill, Wytham Woods, UK, 2018-2019. NERC EDS Environmental Information Data Centre 10.5285/043513e5-406c-4477-89aa-c96059acb232 This data set is a combination of trapping data, tracking data, vegetation/habitat data and data on the gut microbiome composition of wild rodents caught in 4 ha study site in Holly Hill in Wytham Woods, Oxford, UK, from November 2018 to November 2019. 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 glareolus). Upon capture, they were measured, weighted, sexed, aged and a faecal sample was collected from all rodent individuals for microbiome analyses. All rodents were released to their location of capture. First time each individual was captured, they were injected with a permanent subcutaneous Radio-Frequency Identification(RFID)-tag (Passive Integrated Transponder-tag). The tagged rodents were subsequently tracked from February to November 2019 with a set of 120 custom-made tracking devices (loggers). Loggers recorded to time-stamped presence of any tagged individual that passed near it, producing occurrence data suitable for inferring spatiotemporal activity patterns of rodents, such as temporal niches, home ranges and social networks. Bacterial DNA extracted from faecal samples were used to profile their gut microbiome composition. The study area was surveyed for vegetation and microhabitat variation by gathering habitat data of each 10 x 10 m grid square across the 4 ha plot. Data included list of plant species (visible in late May), coverage by the main ground cover types, canopy openness and amount of dead wood in each grid square. This work was funded by a NC3Rs Fellowship to Sarah Knowles, and NERC independent Research Fellowship to Sarah Knowles (NE/L011867/1) Full details about this dataset can be found at https://doi.org/10.5285/043513e5-406c-4477-89aa-c96059acb232 Raulo, A. Department of Zoology aura.raulo@zoo.ox.ac.uk https://orcid.org/0000-0003-4860-7840 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Firth, J. Department of Zoology joshua.firth@zoo.ox.ac.uk https://orcid.org/0000-0001-7183-4115 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Coulson, T. Department of Zoology tim.coulson@zoo.ox.ac.uk https://orcid.org/0000-0001-9371-9003 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Knowles, S.C.L. Department of Zoology sarah.knowles@zoo.ox.ac.uk https://orcid.org/0000-0002-2368-4623 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Lamberth, C. Department of Zoology curt@oxfordenvironment.co.uk https://orcid.org/0000-0002-2851-7146 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author English, H. University College Dublin holly.english@ucdconnect.ie https://orcid.org/0000-0002-8854-6707 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Quicray, M. University of Liège maude.quicray@uliege.be https://orcid.org/0000-0002-9657-0627 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Dale, J. Department of Zoology jarrah.dale@lmh.ox.ac.uk https://orcid.org/0000-0003-2853-7152 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information author Raulo, A. Department of Zoology aura.raulo@zoo.ox.ac.uk https://orcid.org/0000-0003-4860-7840 ORCID record ORCID is an open, non-profit, community-driven effort to create and maintain a registry of unique researcher identifiers and a transparent method of linking research activities and outputs to these identifiers. information pointOfContact NERC EDS Environmental Information Data Centre info@eidc.ac.uk custodian NERC EDS Environmental Information Data Centre info@eidc.ac.uk publisher University of Oxford aura.raulo@zoo.ox.ac.uk owner Environmental Monitoring Facilities theme GEMET - INSPIRE themes, version 1.0 2008-06-01 publication Apodemus sylvaticus Apodemus flavicollis Myodes glareolus Wikidata 2012-10-29 creation survey animal biology animal ecology GEMET - Concepts, version 4.1.3 2019-01-28 creation Microbiome microbiota transmission gut microbiome trapping Sherman wild mouse wood mouse bank vole yellow-necked mouse RFID-tracking social network analysis home range analysis vegetation survey microhabitat otherRestrictions no limitations otherRestrictions This resource is available under the terms of the Open Government Licence otherRestrictions If you reuse this data, you should cite: Raulo, A., Firth, J., Coulson, T., Knowles, S.C.L., Lamberth, C., English, H., Quicray, M., Dale, J. (2023). Wild rodent tracking and gut microbiome data, Holly Hill, Wytham Woods, UK, 2018-2019. NERC EDS Environmental Information Data Centre https://doi.org/10.5285/043513e5-406c-4477-89aa-c96059acb232 textTable English utf8 biota 2018-11-01 2019-11-30 -1.355 -1.295 51.752 51.784 Comma-separated values (CSV) .rds NERC EDS Environmental Information Data Centre info@eidc.ac.uk distributor https://data-package.ceh.ac.uk/data/043513e5-406c-4477-89aa-c96059acb232 Download the data Download a copy of this data download https://data-package.ceh.ac.uk/sd/043513e5-406c-4477-89aa-c96059acb232.zip Supporting information Supporting information available to assist in re-use of this dataset information dataset dataset Commission Regulation (EU) No 1089/2010 of 23 November 2010 implementing Directive 2007/2/EC of the European Parliament and of the Council as regards interoperability of spatial data sets and services 2010-12-08 Wild rodents were trapped fortnightly, tagged and continuously monitored with tracking technology for 10 months. This is a natural rodent population and no experimental manipulations were made. Upon capture, faecal samples were collected from the rodents. Faecal samples were stored without buffer in -80 C. In winter 2019-2020 DNA was extracted from the faecal samples of wood mice, yellow-necked mice and bank voles, and their gut microbiome was characterised from this by amplification and sequencing of the V4-V5 region of bacterial 16S rRNA marker gene. In May 2020 the study area was surveyed for vegetation and microhabitat variation. Details of the data generation and the cleaning process can be found from the supporting documentation.