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Researchers should cite this work as follows:
Dames J (2020): FBIP: Mycorrhizal and root endophytic fungi associated with Orchids. v1.1. South African National Biodiversity Institute. Dataset/Occurrence. http://ipt.sanbi.org.za/iptsanbi/resource?r=dames_ru_2017_v2&v=1.1
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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.
This resource has been registered with GBIF, and assigned the following GBIF UUID: f703b08e-008e-438c-ad2d-58d544825692. 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.
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South Africa (Eastern Cape, KwaZulu-Natal)
|Bounding Coordinates||South West [-33.334, 26.493], North East [-28.234, 31.191]|
The isolates and metagenomic sequences are mycorrhizal and other root endophytic fungi that are found within orchid roots
|Start Date / End Date||2017-05-01 / 2018-11-29|
Isolated cultures and environmental metagenomic sequencing data using a target DNA markers ITS region for Fungi
|Title||FBIP: Mycorrhizal and root endophytic fungi associated with Orchids|
|Funding||Foundational Biodiversity Information Programme|
|Study Area Description||South Africa (Eastern Cape, KwaZulu-Natal)|
The personnel involved in the project:
1 g of orchid root material was collected from each orchid species, replicated 6 times, roots were surface sterilized and were etiher stored in RNA Later and frozen for molecular analysis or they were were sliced into smaller segments and placed onto suitable media to isolate endophytic fungi.
|Study Extent||South Africa (Eastern Cape, KwaZulu-Natal)|
|Quality Control||The coordinates of the location where samples were collected was recorded|
Method step description:
- Fungal isolates: Sampled root sections were surface sterilized and plated onto Malt Extract Agar. After incubation sub-cultures were made to ensure pure cultures were maintained. DNA was extracted from the cultures and the ITS region was amplified using ITS1 and ITS 4 primers. After purification amplicons were sent for Sanger Sequencing and submitted to GenBank for identification. Root samples: Genomic DNA was extracted from root samples, followed by polymerase chain reaction (PCR) amplification of the ITS region using Miseq tagged primers. Amplicon were submitted to SAIAB for Illumina Next Generation Sequencing.Data was analysed using Mothur software.