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

Citation

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. Version 1.5. CBGP (UMR INRAE, Cirad, IRD, Institut Agro | Montpellier). Occurrence dataset https://doi.org/10.15468/bn8zz7 accessed via GBIF.org on 2025-05-13.

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.

Sampling Description

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

Sampling

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.

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 steps

  1. NA

Taxonomic Coverages

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
  1. Apodemus flavicollis
    rank: species
  2. Apodemus sylvaticus
    rank: species
  3. Crocidura russula
    rank: species
  4. Crocidura leucodon
    rank: species
  5. Glis glis
    rank: species
  6. Microtus agrestis
    rank: species
  7. Microtus subterraneus
    rank: species
  8. Mus musculus
    rank: species
  9. Myodes glareolus
    rank: species
  10. Neomys fodiens
    rank: species
  11. Rattus norvegicus
    rank: species
  12. Sorex araneus
    rank: species
  13. Sorex coronatus
    rank: species
  14. Sorex minutus
    rank: species

Geographic Coverages

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

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

Contacts

Nathalie Charbonnel
originator
position: 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
Montferrier sur Lez
34988
Hérault
FR
Telephone: +4 99 62 33 02
email: nathalie.charbonnel@inrae.fr
userId: http://orcid.org/0000-0002-7907-6539
Julien Pradel
originator
position: 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
Montferrier sur Lez
34988
Hérault
FR
Telephone: +4 99 62 33 02
email: julien.pradel@inrae.fr
userId: http://orcid.org/0000-0002-5438-6047
Marie Bouilloud
originator
position: PhD IRD
CBGP, MIVEGEC, IRD, CNRS, University of Montpellier, Montpellier
Telephone: +4 99 62 33 02
email: marie.bouilloud@ird.fr
userId: http://orcid.org/0000-0001-8740-3205
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
email: anne.loiseau@inrae.fr
userId: http://orcid.org/0000-0003-0394-6814
Sylvain Piry
originator
position: 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
email: sylvain.piry@inrae.fr
userId: http://orcid.org/0000-0001-6981-5732
Maxime Galan
originator
position: 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
email: maxime.galan@inrae.fr
userId: http://orcid.org/0000-0001-6981-5732
Emmanuelle Artige
originator
position: engineer
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
email: emmanuelle.artige@inrae.fr
userId: http://orcid.org/0000-0001-5088-2038
Guillaume Castel
originator
position: researcher
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
email: guillaume.castel@inrae.fr
userId: http://orcid.org/0000-0003-2989-3087
Julien Ferrero
originator
position: 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
email: julien.ferrero@ens-lyon.fr
Anaïs Bordes
originator
position: 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
position: researcher
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
email: romain.gallet@inrae.fr
userId: http://orcid.org/0000-0002-7419-7403
Nathalie Vieira
originator
position: technician
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
email: nathalie.vieira@inrae.fr
Geoffrey Thuel
originator
position: technician
INRAE-CBGP : Institut national de recherche pour l'agriculture, l'alimentation et l'environnement - Centre de Biologie pour la gestion des Populations
FR
email: geoffrey.thuel@inrae.fr
Julien Pradel
metadata author
position: 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
email: julien.pradel@inrae.fr
userId: http://orcid.org/0000-0002-5438-6047
Nathalie Charbonnel
metadata author
position: 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
email: nathalie.charbonnel@inrae.fr
userId: http://orcid.org/0000-0002-7907-6539
Nathalie Charbonnel
administrative point of contact
position: 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
Montferrier sur Lez
34988
Hérault
FR
Telephone: +4 99 62 33 02
email: nathalie.charbonnel@inrae.fr
userId: http://orcid.org/0000-0002-7907-6539
Julien Pradel
administrative point of contact
position: 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
Montferrier sur Lez
34988
Hérault
FR
Telephone: +4 99 62 33 02
email: julien.pradel@inrae.fr
userId: http://orcid.org/0000-0002-5438-6047
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