Occurrence

Small terrestrial mammals (Rodentia, Soricomorpha) along a gradient of forest anthropisation (reserves, manages forests, urban parks) in France

Latest version published by CBGP (UMR INRAE, Cirad, IRD, Institut Agro | Montpellier) on 20 September 2022 CBGP (UMR INRAE, Cirad, IRD, Institut Agro | Montpellier)

Download the latest version of this resource data as a Darwin Core Archive (DwC-A) or the resource metadata as EML or RTF:

Data as a DwC-A file download 1,593 records in English (99 KB) - Update frequency: unknown
Metadata as an EML file download in English (25 KB)
Metadata as an RTF file download in English (17 KB)

Description

The dataset contains occurrences of small terrestrial mammals (Rodentia and Soricomorpha) trapped in forested areas in Eastern France (administrative departments: Rhône, Ain, Jura). The sampling sites correspond to different degrees of anthropisation. Forests included in biological reserves are the less anthropized sites, then public forests and urban parks experience higher levels of anthropisation. Data were collected during spring and autumn 2020 (three to four sampling sites), 2021 (six sampling sites) and 2022 (four sampling sites). These variations in the number of sites between years were due to lockdown restrictions in 2020, or to the legal authorization to trap around biological reserves granted in 2021 only. The capture of animals was carried out in various types of forests (pine, deciduous, mixed), and in different habitats within urban parks (wooded areas, buildings, hay storage yards, riverside vegetation, restaurants, playground for kids, botanical garden, landfills…). Captures were realised using live traps that were set on the ground for one to 11 nights. During this study period, 1593 small mammals were trapped and identified. They belong to 15 species, among which there are nine species of rodents (Muridae, Cricetidae, Gliridae) and six species of shrews (Soricidae). They were weighted (gram) and measured (cm): both body length and tail length. Sexual characteristics were also recorded. This dataset aims to better understand the relationship between small terrestrial mammal biodiversity and health in the context of global change, and in particular of forest anthropisation. It is part of the European Biodiversa BioRodDis project (https://www6.inrae.fr/biodiversa-bioroddis). Here we present the data gathered in France. The dataset will enable to describe the diversity of small terrestrial mammal communities in forested areas corresponding to different levels of anthropisation, and to evaluate the variability of this diversity over time, between seasons and between years.

Data Records

The data in this occurrence resource has been published as a Darwin Core Archive (DwC-A), which is a standardized format for sharing biodiversity data as a set of one or more data tables. The core data table contains 1,593 records.

1 extension data tables also exist. An extension record supplies extra information about a core record. The number of records in each extension data table is illustrated below.

Occurrence (core)
1593
MeasurementOrFacts 
17523

This IPT archives the data and thus serves as the data repository. The data and resource metadata are available for download in the downloads section. The versions table lists other versions of the resource that have been made publicly available and allows tracking changes made to the resource over time.

Versions

The table below shows only published versions of the resource that are publicly accessible.

How to cite

Researchers should cite this work as follows:

Charbonnel N, Pradel J, Bouilloud M, Loiseau A, Piry S, Galan M, Artige E, Castel G, Ferrero J, Bordes A, Gallet R, Vieira N, Thuel G (2022): Small terrestrial mammals (Rodentia, Soricomorpha) along a gradient of forest anthropisation (reserves, manages forests, urban parks) in France. v1.5. CBGP (UMR INRA, Cirad, IRD, Montpellier SupAgro). Dataset/Occurrence. https://ipt.gbif.fr/resource?r=small_terrestrial_mammals_along_a_gradient_of_forest_anthropisation_france&v=1.5

Rights

Researchers should respect the following rights statement:

The publisher and rights holder of this work is CBGP (UMR INRAE, Cirad, IRD, Institut Agro | Montpellier). This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License.

GBIF Registration

This resource has been registered with GBIF, and assigned the following GBIF UUID: 688ff587-af92-4f7b-82b5-3ee565afa025.  CBGP (UMR INRAE, Cirad, IRD, Institut Agro | Montpellier) publishes this resource, and is itself registered in GBIF as a data publisher endorsed by GBIF France.

Keywords

Occurrence; Specimen

Contacts

Nathalie Charbonnel
  • Metadata Provider
Senior researcher (DR2, INRAE)
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
Av. Agropolis
34988 Montferrier sur Lez
Hérault
FR
+4 99 62 33 02
Julien Pradel
  • Metadata Provider
Technician (TR, INRAE)
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
Av. Agropolis
34988 Montferrier sur Lez
Hérault
FR
+4 99 62 33 02
Marie Bouilloud
  • Originator
PhD IRD
CBGP, MIVEGEC, IRD, CNRS, University of Montpellier, Montpellier
+4 99 62 33 02
Anne Loiseau
  • Originator
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
Technician
FR
Sylvain Piry
  • Originator
research engin
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
Maxime Galan
  • Originator
research engineer
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
Emmanuelle Artige
  • Originator
engineer
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
Guillaume Castel
  • Originator
researcher
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
Julien Ferrero
  • Originator
master student
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
Anaïs Bordes
  • Originator
engineer
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
Romain Gallet
  • Originator
researcher
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
Nathalie Vieira
  • Originator
technician
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
Geoffrey Thuel
  • Originator
technician
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
Julien Pradel
  • Metadata Provider
Technician
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
Montferrier sur Lez
Herault
FR
Nathalie Charbonnel
  • Metadata Provider
Senior researcher
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
Montferrier sur Lez
FR

Geographic Coverage

The data were collected in six forested areas in Eastern France, within three administrative departments (Rhône, Ain, Jura).

Bounding Coordinates South West [44.84, 2.021], North East [48.633, 7.734]

Taxonomic Coverage

Reign Animalia Class Mammalia Order Rodentia Soricomorpha Family Cricetidae Muridae Gliridae Soricidae Genus Apodemus, Crocidura, Glis, Microtus, Mus, Myodes, Neomys, Rattus, Sorex, Species Apodemus flavicollis Apodemus sylvaticus Crocidura russula Crocidura leucodon Glis glis Microtus agrestis Microtus arvalis Microtus subterraneus Mus musculus Myodes glareolus Neomys fodiens Rattus norvegicus Sorex araneus Sorex coronatus Sorex minutus

Species Apodemus flavicollis, Apodemus sylvaticus, Crocidura russula, Crocidura leucodon, Glis glis, Microtus agrestis, Microtus subterraneus, Mus musculus, Myodes glareolus, Neomys fodiens, Rattus norvegicus, Sorex araneus, Sorex coronatus, Sorex minutus

Temporal Coverage

Start Date / End Date 2020-02-25 / 2022-06-03

Project Data

This dataset was funded through the 2018-2019 BiodivERsA joint call for research proposals, under the BiodivERsA3 ERA-Net COFUND programme, and with the funding organisations ANR (France).

Title Managing BIOdiversity in forests and urban green spaces : Dilution and amplification effects on RODent microbiomes and rodent-borne DISeases
Identifier Biodiversa-BioRodDis
Study Area Description BioRodDis includes occurrence of small terrestrial mammals from forests and urban parks in five countries: Belgium, France, Germany, Ireland and Poland.
Design Description BioRodDis project aims at elucidating the interlinkages between small mammal biodiversity and diseases at local and European scales using standardized assessments of biodiversity and disease risks. In particular, the dilution/amplification effect is assessed by integrating new key research directions, i.e. host microbiome and multiple pathogen diversity levels on one hand, seasonal and multi-annual dynamics on the other hand, including climate change scenarios, and interactions with socioeconomic contexts.

The personnel involved in the project:

Charbonnel Nathalie

Sampling Methods

Small mammals were live trapped. Six to ten lines of 20 live-traps (INRA) with about 3 m interval were set up so that each sampling site consisted of a few km2 area. Traps were baited with sunflower seeds, carrots and sardine. Each trap was geolocated. The traps were checked daily and early in the morning. Trapping session per site lasted at least three nights, except when abundances were too low and new trap lines had to be set up. As trapping rats and mice in urban parks was difficult, traps were set in particular places where animals had been detected, and they were removed after 10 or 11 nights.

Study Extent 6 sample sites (2 forest reserves, 2 public forests, 2 urban parks) in Eastern France. Current dataset extends from February 2020 to June 2022
Quality Control All captured animals were determined to species level using morphological criteria in the field, or using molecular methods when necessary (CO1 sequencing for Microtus species and shrews, Hebert et al. 2003, or DNA fingerprinting for Apodemus species, Bugarski-Stanojevic et al. 2012). Animal dissections and measurements were performed according to the protocols described in Herbreteau et al. (2011). Capture data are registered in the CBGP small mammal database (BPM, http://bpm-cbgp.science); associated biological samples (organs, blood, parasites ...) are included in the CBGP reference collection of small mammals doi:10.15454/WWNUPO.

Method step description:

  1. NA

Collection Data

Collection Name CBGP small mammal database (BPM, http://bpm-cbgp.science)
Collection Identifier doi:10.15454/WWNUPO

Bibliographic Citations

  1. Bugarski-Stanojević V, Blagojević J, Adnadević T, Jovanović V, Vujošević M (2013) Identification of the sibling species Apodemus sylvaticus and Apodemus flavicollis (Rodentia, Muridae)—Comparison of molecular methods. Journal of Comparative Zoology 252: 579-587. 10.1016/j.jcz.2012.11.004
  2. Hebert PDN, Cywinska A, Ball SL, deWaard JR (2003) Biological identifications through DNA barcodes. Proceedings of the Royal Society B: Biological Sciences 270: 313–321. 10.1098/rspb.2002.2218

Additional Metadata