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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. \n\nFirst 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.\n\nThe 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. \n\nThis work was funded by a NC3Rs Fellowship to Sarah Knowles, and NERC independent Research Fellowship to Sarah Knowles (NE/L011867/1)","distributionFormats":[{"name":"Comma-separated values (CSV)","type":"text/csv","version":"unknown"},{"name":".rds","version":"unknown"}],"distributorContacts":[{"organisationName":"NERC EDS Environmental Information Data Centre","organisationIdentifier":"https://ror.org/04xw4m193","role":"distributor","email":"info@eidc.ac.uk"}],"funding":[{"funderName":"Natural Environment Research Council","funderIdentifier":"https://ror.org/02b5d8509","awardTitle":"The wild mammalian microbiome","awardNumber":"NE/L011867/1","awardURI":"https://gtr.ukri.org/projects?ref=NE/L011867/1","orcid":false,"ror":true}],"id":"043513e5-406c-4477-89aa-c96059acb232","incomingCitationCount":0,"infoLinks":[{"url":"https://data-package.ceh.ac.uk/sd/043513e5-406c-4477-89aa-c96059acb232.zip","name":"Supporting information","description":"Supporting information available to assist in re-use of this dataset","function":"information","type":"OTHER"}],"inspireThemes":[{"theme":"Environmental Monitoring Facilities","uri":"http://inspire.ec.europa.eu/theme/ef"}],"keywordsOther":[{"value":"Microbiome"},{"value":"microbiota"},{"value":"transmission"},{"value":"gut microbiome"},{"value":"trapping"},{"value":"Sherman"},{"value":"wild mouse"},{"value":"wood mouse"},{"value":"bank vole"},{"value":"yellow-necked mouse"},{"value":"RFID-tracking"},{"value":"social network analysis"},{"value":"home range analysis"},{"value":"vegetation survey"},{"value":"microhabitat"},{"value":"Apodemus sylvaticus","uri":"http://www.wikidata.org/entity/Q212185"},{"value":"Apodemus flavicollis","uri":"http://www.wikidata.org/entity/Q216871"},{"value":"Myodes glareolus","uri":"http://www.wikidata.org/entity/Q216580"},{"value":"survey","uri":"http://www.eionet.europa.eu/gemet/concept/8240"},{"value":"animal biology","uri":"http://www.eionet.europa.eu/gemet/concept/11868"},{"value":"animal ecology","uri":"http://www.eionet.europa.eu/gemet/concept/420"}],"licences":[{"value":"This resource is available under the terms of the Open Government Licence","code":"license","uri":"https://eidc.ac.uk/licences/ogl/plain"}],"lineage":"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.","metadataDate":"2026-06-29T16:53:31","notGEMINI":false,"onlineResources":[{"url":"https://data-package.ceh.ac.uk/data/043513e5-406c-4477-89aa-c96059acb232","name":"Download the data","description":"Download a copy of this data","function":"download","type":"OTHER"},{"url":"https://data-package.ceh.ac.uk/sd/043513e5-406c-4477-89aa-c96059acb232.zip","name":"Supporting information","description":"Supporting information available to assist in re-use of this dataset","function":"information","type":"OTHER"}],"pointsOfContact":[{"familyName":"Raulo","givenName":"A.","organisationName":"Department of Zoology","organisationIdentifier":"https://ror.org/052gg0110","role":"pointOfContact","email":"aura.raulo@zoo.ox.ac.uk","nameIdentifier":"https://orcid.org/0000-0003-4860-7840","address":{"deliveryPoint":"University of Oxford"},"fullName":"Raulo, A.","pointOfContact":"Department of 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(2021). Transmission ecology of the gut microbiota in wild mice (Doctoral dissertation, University of Oxford)","url":"https://ora.ox.ac.uk/objects/uuid:d4c09900-660e-4839-aa1a-f8f6a73e0876","function":"relatedArticle"}],"temporalExtents":[{"begin":"2018-11-01","end":"2019-11-30"}],"title":"Wild rodent tracking and gut microbiome data, Holly Hill, Wytham Woods, UK, 2018-2019","topicCategories":[{"value":"biota","uri":"http://inspire.ec.europa.eu/metadata-codelist/TopicCategory/biota"}],"type":"dataset","uri":"https://catalogue.ceh.ac.uk/id/043513e5-406c-4477-89aa-c96059acb232","useConstraints":[{"value":"This resource is available under the terms of the Open Government Licence","code":"license","uri":"https://eidc.ac.uk/licences/ogl/plain"}]}