| id | name | affiliation | |
|---|---|---|---|
| 0000-0003-3986-7659 | Serge Morand | HealthDEEP CNRS | serge.morand@cnrs.fr |
Data Management Plan rewild4Health
1 Project Description
Title: rewild4Health
Full title: Rewilding and reforestation-based solution for reducing zoonotic risk using a One Health approach
Funder: French National Research Agency (ANR)
1.1 Rational
Rewilding following reforestation could reduce zoonotic risk. The project rewild4Health takes place in northern Thailand characterized by a community reforestation policy. The project will be realized by the IRL2021 HealthDEEP (Table 1).
| Partner | Name | Current position | Role & responsibilities |
|---|---|---|---|
| HealthDEEP CNRS | Serge Morand | DRCE CNRS | Coordinator, WP4 (data), WP5 (national, policy) |
| HealthDEEP KU | Anamika Kritiyakan | Assistant Professor | WP0 (Animal ethics), WP3 (zoonotic diseases) |
| HealthDEEP KU | Areeya Kriengudom | Management Assistant TICA | WP0 (Ethics, permits, protocols), WP4 (data), WP5 (local) |
| HealthDEEP KU | Piyapoom Chongchimpree | Field Assistant | WP2 (rewilding assessment), WP4 (data), WP5 (local) |
| HealthDEEP KU | Inpreeya Choknakhawaro | Field Assistant | WP1 (commmunity engagement, participatory methods) |
| HealthDEEP KU | Chayanan Arahmkong | Master student | WP3 (zoonotic diseases) |
| HealthDEEP KU | Master students | WP2 (reforestation assessment) | |
| HealthDEEP MU | Kittipong Chaisiri | Assistant Professor | WP0 (Human ethics), WP4 (data), WP3 (zoonotic diseases) |
| HealthDEEP MU | Kraichat Tantrakarnapa | Associated Professor | WP5 (national, policy) |
1.2 Research Objectives
The two main objectives of rewild4Health are:
(1) to assess the contribution of community reforestation to biodiversity through rewilding;
(2) to demonstrate that reforestation and rewilding are effective solutions to reduce the risk of transmission of zoonotic diseases in a One Health approach.
The project rewild4Health is based on our previous research activities in Nan province (Thailand) Thinphovong et al. (2024) Thinphovong et al. (2023) Chaisiri et al. (2023).
1.3 Summary
The three main research hypotheses of rewild4Health are:
(1) the effectiveness of community reforestation on biodiversity depends on the structure of community forests as well as community governance rules;
(2) rewilding contributes to the regulation of disease transmission with predators and specialist species capable of regulating synanthropic reservoir species;
(3) cross-sector collaboration (public health, animal health, conservation) and community engagement are key factors for ecological restoration and disease risk reduction through a One Health approach.
Flowchart of main activities of rewild4Health: land use and participatory mapping (WP1), reforestation assessment (WP2), rewilding assessment with camera traps and sound recorders (WP2), and zoonotic risk assessment (small mammals, dogs, mosquitoes) (WP3) (Figure 1).
2 Data Management Plan
2.1 Data Collection
The framework of rewild4Health (Figure 2) illustrates the data that are collected remotely, on the ground using different types of sensors, in the laboratory for the biological samples, and by participatory methods and interviews.
2.1.1 Types of Data
A wide diversity of data are collected by rewild4Health (Table 2).
| Type of data | Collection method | File format |
|---|---|---|
| Land use | remote sensing | TIFF, shp |
| Livestok | existing data | TIFF |
| Conservation area | Dpt Royal Forestry, DNP | shp |
| LiDAR | drone | LAS (LASer) |
| Participatory mapping | focus group | shapefile |
| Interviews and surveys | interviews, questionnaires | text, spreadsheet, csv, RData |
| Camera traps | camera trap | image (jpg,heic), video (mov) |
| Sound | sound recorder | wav, mp3 |
| Wildlife | living cage trap, harp trap | spreadsheet, csv, RData |
| Biodiversity | IUCN, gbif, iNaturalist | shp, csv |
| Birds | listening stations | wav, spreadsheet, csv, RData |
| Dogs | gps collar | spreadsheet, csv, RData |
| Mosquitoes | light trap | spreadsheet, csv, RData |
| Forest assessment | transect | spreadsheet, csv, RData |
| Soil assessment | soilBON inititative | spreadsheet, csv, RData |
| Diseases | passive surveillance DDC MoPH | spreadsheet, csv, RData |
| Pathogens and parasites | molecular and serology screening | spreadsheet, csv, RData |
2.1.2 Data sources
The sources of open databases are given in Table 3.
2.2 Data organization
2.2.1 Creators
- Identification of creators
2.2.2 File Naming Conventions
- Small mammals
Small mammals are defined as non-flying mammals of Rodentia, Eulipotyphla and Scandatia (with body weight less than 1000 g).
Small mammals are trapped using live Live-traps, locally made, or commercial live-traps, such as sherman. Trapped animals are manipulated, sampled and released according to ethical approvement procedures.
Microchip (Passive Integrated Transponder: PIT Tag) is injected subcutaneously for individual identification during capture-mark-recapture session.
2.2.3 Datasets and metadata
Three datasets are created:
- Data of sensors (traps)
| Variable | Description | dataType |
|---|---|---|
| trapID | identification code of the sensor (trap) | character |
| installDate | date of the installation of the trap in the location | character |
| type | type of traps: cage, shermann, etc. | character |
| id_site | identification cade of the location of the trapping (in reference to location file) | character |
| lat | latitude in decimals | numeric |
| long | longitude in decimals | numeric |
- Data trapping location
| Variable | Description | dataType |
|---|---|---|
| id_site | identification code of the location of the trapping site | character |
| location | place name: village name, national park name, forest name | character |
| subdistrict | name of the subdistrict of the place name | character |
| district | name of the district of the place name | character |
| province | name of the province of the place name | character |
- Data small mammal individuals
| Variable | Description | dataType |
|---|---|---|
| id_indiv | identification code of the individual | character |
| id_tag | identification code of the tag (microchip) | character |
| taxonomyID | scientific name of the species | character |
| commonName | common name of the species (English) | character |
| animalGroup | scientific name of the animal order (Rodentia, Scandatia, etc) | character |
| sex | female / male | character |
| maturity | juvenile / adult | character |
| session | identification code of the session, if the location is investigated at different periods | character |
| trappingDate | date of the trapping of the individual (year-month-day) | date |
| trappingLandscapeLowRes | description of the habitat at low resolution (settlement, forest, plantation, agriculture on flat land, agriculture on slope) | character |
| trappingLandscapeHighRes | description of the habitat at high resolution (village, isolated house, evergreen forest, paddy rice field, rubber plantation, teck plantation, etc) | character |
| id_site | identification code for the location of the trapping site (in reference to location file) | character |
| trappingMethod | trapped (by us) / collected (from villagers) | character |
| trapID | identification code of the sensor (trap) (in reference to traps file) | character |
| pictureID | name of the picture (jpeg) labelled using "id_indiv" and "trappingDate" | character |
| bodyWeight | weight of the animal (in grams) | numeric |
| headBodyMeasurement | length of the animal from snout to end of tail (in millimeters) | numeric |
| tailMeasurement | lenght of the animal tail (in millimeters) | numeric |
| hindfootMeasurement | lenght of the animal hindfoot (in millimeters) | numeric |
| earMeasurement | lenght of the animal ear (in millimeters) | numeric |
| headMeasurement | lenght of the animal head (in millimeters) | numeric |
| vagina | close / open | character |
| teats | barely visible / visible | character |
| teatFormula | formula of the teats (e.g. 2+2+2) | character |
| testes | inside / outside | character |
| dead | no / yes (the individual died in the trap or during the manipulation) | logical |
| dissectionDate | date of dissection of the dead animal | date |
| oralSwabRNAlater | oral swab taken: yes / no | logical |
| rectalSwabRNAlater | rectal swab taken: yes / no | logical |
| fecesEthanol | feces recolted in ethanol: yes / no | logical |
| fecesRNAlater | feces recolted in RNAlater: yes / no | logical |
| ectoparasiteEthanol | ectoparasites recolted in ethanol: yes / no | logical |
| bloodCell | blood cells recolted: yes / no | logical |
| serum | serum recolted: yes / no | logical |
| dryBloodSpot | paper blood recolted: yes / no | logical |
| capillaryBlood | capillary blood recoled: yes / no | logical |
| earEthanol | chigger mites from ear recolted: yes / no | logical |
| isofluraneAmount | amount of isoflurane used for anesthesia (in milliliters) | numeric |
| anesthesiaInductionTime | time for the individual to fall asleep | numeric |
| operationalTime | total time to process the individual | numeric |
| remark1 | some commentary regarding the individual or the process | character |
2.2.4 Folder Structure
folder hierarchy with organizing data using dataspice Below is the contents of directories in a tree-like format
./dataspice_rewild4Health/
├── data
│ ├── individuals.csv
│ ├── location.csv
│ ├── metadata
│ │ ├── access.csv
│ │ ├── attributes.csv
│ │ ├── biblio.csv
│ │ ├── creators.csv
│ │ └── dataspice.json
│ ├── recapture.csv
│ └── traps.csv
├── data 20241231
│ └── Rodent_rewild4H_database_20241231.xlsx
├── dataspice_rewild4Health.R
└── docs
└── index.html./dataspice_rewild4Health/data
./dataspice_rewild4Health/data/individuals.csv
./dataspice_rewild4Health/data/location.csv
./dataspice_rewild4Health/data/metadata
./dataspice_rewild4Health/data/metadata/access.csv
./dataspice_rewild4Health/data/metadata/attributes.csv
./dataspice_rewild4Health/data/metadata/biblio.csv
./dataspice_rewild4Health/data/metadata/creators.csv
./dataspice_rewild4Health/data/metadata/dataspice.json
./dataspice_rewild4Health/data/recapture.csv
./dataspice_rewild4Health/data/traps.csv
./dataspice_rewild4Health/data 20241231
./dataspice_rewild4Health/data 20241231/Rodent_rewild4H_database_20241231.xlsx
./dataspice_rewild4Health/dataspice_rewild4Health.R
./dataspice_rewild4Health/docs
./dataspice_rewild4Health/docs/index.html2.2.5 Data Storage and Backup
Storage Locations
External hard drive dropbox mycore CNRS
Backup Strategy
Following any modification of a datafile:
1. modify date in the name (e.g. data_name_yearmonthday)
2. save the file in the dedicated hard drive and on mycore CNRS
2.2.6 Data Documentation
Dataspice R package is used to create basic, lightweight, and concise metadata files. The basic files created include a README webpage.
The dataspice metadata fields are based on Schema.org and and other, richer metadata standards such as Ecological Metadata Language.
README metadata file obtained using dataspice
2.3 Data Sharing and Access
2.3.2 Licensing
- licensing terms for the data: BY 4.0
2.3.3 Access Restrictions
- camera traps: pictures and accurate location accessible only on request from researchers (wildlifeinsights)
- interviews: audio records confidential and deleted after transcription and anonymisation
- human health: only aggregated data accessible
2.4 Ethical and Legal Considerations
The principles of ethics and responsibility require local community and stakeholder engagement, such as in the Primary Health Care Unit, the District Public Health Office, and Nanthaburi National Park. Several meetings with all stakeholders helped to co-construct the project which made it possible to meet the objectives of human health, animal health, and biodiversity conservation.
2.4.1 Informed Consent
Procedures for human health investigation, laboratory investigation, interviews, and questionnaires will be sent for approval by the ethical committee of the Nan Provincial Public Health Office, Ministry of Public Health, Thailand. All participants who agree to join the study will be asked to read the Participant Information Form, which explains the objectives, procedures, possible risks, and benefits of the research project.
All data wil be anonymized to protect participant privacy
2.4.2 Animal ethics and compliance
Procedures for collection of samples from domestic animals and wildlife, laboratory investigation, safety procedures, interviews and questionnaires of domestic animals owners will be sent for approval by the Institutional Animal Care and Use Committee, Kasetsart University. Rodent and other wildlife species that will be investigated by rewild4Health will be neither on the CITES list nor on the Red List (IUCN). Animals will be treated in accordance with the guidelines of the American Society of Mammalogists, and within the European Union legislation guidelines (Directive 86/609/EEC). Any trapped rodent species listed on CITES will be released without being manipulated. All animals will be released after sampling.
Approval notices for trapping and investigation of bats and rodents will be sent for approval by the Institutional Animal Care and Use Committee, Kasetsart University.
2.4.3 Permit and compliance
Permit has to be approved by the Department of National Parks, Wildlife and Plant Conservation (DNP) and the Royal Forest Department, Ministry of Natural Resources and Environment, Thailand. In addition, foreign researchers participating in the research project have also o be approved by the National Research Council of Thailand (NRCT) with the consent of the DNP.
2.5 Project Timeline
2.5.1 Milestones
| Milestone | Expected Date | Description |
|---|---|---|
| Starting date | 2024-10-01 | Starting date of the project |
| DMP | 2025-XX-XX | Data management plan written |
| Protocols | 2025-XX-XX | Protocols written and published |
| Data Collection | 2026-12-31 | Complete data collection phase |
| Data Cleaning | 2026-12-31 | Finalize data pre-processing |
| Reporting | 2027-04-31 | Prepare final report |
| End date | 2027-04-30 | Official end date of the project |
2.6 Contact Information
contact details for project-related inquiries: serge.morand[at]cnrs.fr
3 References
Thinphovong, Chuanphot, Anamika Kritiyakan, Ronnakrit Chakngean, Yossapong Paladsing, Phurin Makaew, Morgane Labadie, Christophe Mahuzier, Waraphon Phimpraphai, Serge Morand, and Kittipong Chaisiri. 2023. “From Protected Habitat to Agricultural Land: Dogs and Small Mammals Link Habitats in Northern Thailand.” Ecologies 4 (4): 671–85.
Thinphovong, Chuanphot, Ewan Nordstrom-Schuler, Pipat Soisook, Anamika Kritiyakan, Ronnakrit Chakngean, Sakarin Prapruti, Malee Tanita, et al. 2024. “A Protocol and a Data-Based Prediction to Investigate Virus Spillover at the Wildlife Interface in Human-Dominated and Protected Habitats in Thailand: The Spillover Interface Project.” Plos One 19 (1): e0294397.