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BIODIVERSITY DATA

FBIP: Taxonomy and Candidatus Liberibacter status of South African Buchu plants

Latest version published by South African National Biodiversity Institute on Jun 30, 2020 South African National Biodiversity Institute

Survey of Rutaceae species of the fynbos area. Additional data, will help provide abundance lists, distribution and locality of these plants, while the molecular means to identify the species.

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 834 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.

Downloads

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 834 records in English (15 KB) - Update frequency: unknown
Metadata as an EML file download in English (10 KB)
Metadata as an RTF file download in English (9 KB)

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:

Pietersen G (2020): FBIP: Taxonomy and Candidatus Liberibacter status of South African Buchu plants. v1.1. South African National Biodiversity Institute. Dataset/Occurrence. http://ipt.sanbi.org.za/iptsanbi/resource?r=taxonomy&v=1.1

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: 065c4d4a-eead-44a4-ac94-19df2a0a47ad.  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

Who created the resource:

Gerhard Pietersen
Extra-ordinary Professor
Agricultural Research Council - Plant Protection Research Institute Room 9-21, New Agricultural Building, Lunnon Street, University of Pretoria 0002 Pretoria Gauteng ZA 012 4203265

Who can answer questions about the resource:

Gerhard Pietersen
Extra-ordinary Professor
Agricultural Research Council - Plant Protection Research Institute Room 9-21, New Agricultural Building, Lunnon Street, University of Pretoria 0002 Pretoria Gauteng ZA 012 4203265

Who filled in the metadata:

Gerhard Pietersen
Extra-ordinary Professor
Agricultural Research Council - Plant Protection Research Institute Room 9-21, New Agricultural Building, Lunnon Street, University of Pretoria 0002 Pretoria Gauteng ZA 012 4203265

Who else was associated with the resource:

Content Provider
Mahlatse Kgatla
FBIP Data Specialist
SANBI 2 Cussonia Avenue 0184 Pretoria Gauteng ZA 0128435196
https://fbip.co.za/contact/

Geographic Coverage

South Africa (Western Cape, Kwa-Zulu Natal)

Bounding Coordinates South West [-34.778, 17.71], North East [-26.746, 33.223]

Taxonomic Coverage

Family: Rutaceae

Family  Rutaceae (Buchus Plants)

Temporal Coverage

Start Date / End Date 2014-10-16 / 2018-01-12

Project Data

Survey of Rutaceae species of the fynbos area. Additional data, will help provide abundance lists, distribution and locality of these plants, while the molecular means to identify the species.

Title Taxonomy and Candidatus Liberibacter status of South African Buchu plants
Identifier FBIS150609119002
Funding Foundational Biodiversity Information Programme
Study Area Description South Africa (Western Cape, Kwa-Zulu Natal)

The personnel involved in the project:

Principal Investigator
Gerhard Pietersen

Sampling Methods

Leaves were collected

Study Extent South Africa (Western Cape, Kwa-Zulu Natal)

Method step description:

  1. 1) We plan to collect and sequence barcoding genes of known, morphologically identified specimens of buchu collected under permit at Kirstenbosch botanical gardens or from herbarium specimens where permission is granted to do so. Collection from live plants will not be destructive as only about 5g fresh weight of leaf material is required in order to obtain phloem tissue (to which the Ca. Liberibacters are confined). 2) We will collect leaf material from large numbers of buchu specimens (we plan to collect a total of about 1000 specimens in total, with between 10 and 20 replicates of visually identified species of “buchu” (in the broadest sense) from randomly selected transects from three Western Cape nature reserves containing the greatest diversity of buchu, and where permits for the study can be obtained. This will be done in the flowering season of two successive years. All samples obtained will be assigned a unique accession number and the following data will be recorded for each specimen: date of collection, collector details, photographs of the plant and any distinguishing feature(s), plant visual identification, locality data, the exact location (to an accuracy of 0.25m determined by a differential GPS) and the habitat description. 3) Collected material will be archived in the South African Plant Virus culture collection (SAPVC) at ARC-PPRI, as desiccated plant material as well as in -80oC freezer storage, and voucher specimens for identification purposes submitted to the Compton Herbarium (NBG) and National Herbarium (PRE). 5) All samples will be tested for Ca. Liberibacter using a generic Ca. Liberibacter PCR developed in our laboratory (Pietersen, unpublished), based on all known Ca. Liberibacter sequences. 6) All Liberibacter infected samples (as determined by real-time PCR) will be tested with primers to specific Liberibacters (Ca. Liberibacter -americanus, -africanus, - asiaticus, -solanacearum and -africanus subspecies –capensis, -verpidis, -clausenae, -zanthoxyli, and –tecleae) in conventional PCR’s or a newly developed multiplex PCR capable of detecting these (Roberts unpublished results). 7) All plant samples, irrespective of Ca. Liberibacter status, will be subjected to barcoding PCR’s (rbcL, matK, trnH/psb) and the amplicons sequenced by Sanger sequencing.

Additional Metadata

Alternative Identifiers http://ipt.sanbi.org.za/iptsanbi/resource?r=taxonomy