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 108 records.
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.
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How to cite
Researchers should cite this work as follows:
Oosthuizen M (2020): FBIP: Cataloguing zoonotic tick-borne bacterial pathogen strain diversity in wild rodent species in rural South Africa. v1.0. South African National Biodiversity Institute. Dataset/Occurrence. http://ipt.sanbi.org.za/iptsanbi/resource?r=fbip2&v=1.0
Rights
Researchers should respect the following rights statement:
The publisher and rights holder of this work is South African National Biodiversity Institute. 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: eb8708e4-5788-4c44-89c9-ef54e4423086. South African National Biodiversity Institute publishes this resource, and is itself registered in GBIF as a data publisher endorsed by South African Biodiversity Information Facility.
Keywords
Occurrence; Specimen
Contacts
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Geographic Coverage
South Africa (Mpumalanga)
Bounding Coordinates | South West [-24.827, 31.33], North East [-24.617, 32.371] |
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Taxonomic Coverage
Catalogue the tick-borne bacterial pathogen strain diversity present in wild rodent species
Genus | Anaplasma (Bacteria), Mastomys (Rodents) |
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Temporal Coverage
Start Date / End Date | 2012-04-01 / 2016-04-05 |
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Project Data
The aim of the study is, therefore, to catalogue the tick-borne bacterial pathogen strain diversity present in wild rodent species in the Mnisi community that could impact human health by using a metagenomics approach.
Title | FBIP: Cataloguing zoonotic tick-borne bacterial pathogen strain diversity in wild rodent species in rural South Africa |
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Identifier | FBIS170330225236 |
Funding | Foundational Biodiversity Information Programme |
Study Area Description | South Africa (Mpumalanga) |
The personnel involved in the project:
Sampling Methods
-Ethical clearance through the Animal Ethics Committee (AEC) of the University of Pretoria was obtained (V046-14 and V030-14). -302 rodent blood samples across three habitat types (urban/periurban, communal rangelands, adjacent protected rangeland areas) in Mnisi has already been collected. Further Trapping will be done using Sherman-type traps; five sites will be pre-selected per habitat type; 50 traps will be used/site for up to 5 consecutive days. Traps will be baited with peanut butter, oats and marmite, checked twice/day. We aim to trap at least 15-20 individuals of 10 main species of rodents in each of the habitat types (n=600). Targeted species will be euthanized, blood will be collected immediately after euthanasian by cardiocentesis. Carcasses will be placed individually in sealed plastic bags and frozen.
Study Extent | South Africa (Mpumalanga) in Mnisi |
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Quality Control | NA |
Method step description:
- -Apart from identifying rodent species by means of the Stuarts’ Field Guide to Mammals of Southern Africa (Stuart & Stuart, 2001), species verification will be done using sequence analysis of the mitochondrial gene Cytochrome Oxidase I (COI) -Catalogue the occurrence of the tick-borne bacterial pathogens present in wild rodent species by DNA analysis of the rodent microbiome. -Establish the genetic diversity of A. phagocytophilum strains by using specific gene markers.
Additional Metadata
Alternative Identifiers | http://ipt.sanbi.org.za/iptsanbi/resource?r=fbip2 |
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