Description
The main aim of this study is to expand the current knowledge basis on soil fungi by generating DNA barcodes for isolates in the NCF that has not been identified to species level as they could represent new species. The focus will be on the large portion of strains. representing the plant pathogenic and beneficial genera Fusarium and Trichoderma, respectively.
Enregistrements de données
Les données de cette ressource occurrence ont été publiées sous forme d'une Archive Darwin Core (Darwin Core Archive ou DwC-A), le format standard pour partager des données de biodiversité en tant qu'ensemble d'un ou plusieurs tableurs de données. Le tableur de données du cœur de standard (core) contient 450 enregistrements.
Cet IPT archive les données et sert donc de dépôt de données. Les données et métadonnées de la ressource sont disponibles pour téléchargement dans la section téléchargements. Le tableau des versions liste les autres versions de chaque ressource rendues disponibles de façon publique et permet de tracer les modifications apportées à la ressource au fil du temps.
Versions
Le tableau ci-dessous n'affiche que les versions publiées de la ressource accessibles publiquement.
Comment citer
Les chercheurs doivent citer cette ressource comme suit:
Jacobs A (2019): FBIP: Barcoding of the national collection of fungi: with special Emphasis on Hypocrealean fungi. v1.0. South African National Biodiversity Institute. Dataset/Occurrence. http://ipt.sanbi.org.za/iptsanbi/resource?r=barcoding&v=1.0
Droits
Les chercheurs doivent respecter la déclaration de droits suivante:
L’éditeur et détenteur des droits de cette ressource est South African National Biodiversity Institute. Ce travail est sous licence Creative Commons Attribution (CC-BY) 4.0.
Enregistrement GBIF
Cette ressource a été enregistrée sur le portail GBIF, et possède l'UUID GBIF suivante : b5cd47e0-0039-4092-a77f-7493b586a3e1. South African National Biodiversity Institute publie cette ressource, et est enregistré dans le GBIF comme éditeur de données avec l'approbation du South African Biodiversity Information Facility.
Mots-clé
Barcoding; Hypocrealean; Fungi; DNA; BLAST; Specimen
Contacts
- Fournisseur Des Métadonnées ●
- Créateur ●
- Personne De Contact
- Fournisseur De Contenu
Couverture géographique
Limpopo, Norther West, Gauteng, Mpumalanga, KwaZulu Natal, Eastern Cape, Free State, Western Cape
| Enveloppe géographique | Sud Ouest [-34,886, 16,348], Nord Est [-22,106, 32,959] |
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Couverture taxonomique
Most specimen have been identified to Genus and Species level, some are identified to Phylum and Class level
| Phylum | Fungi |
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Couverture temporelle
| Date de début / Date de fin | 1993-06-01 / 2017-07-23 |
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Données sur le projet
The main aim of this study is to expand the current knowledge basis on soil fungi by generating DNA barcodes for isolates in the NCF that has not been identified to species level as they could represent new species. The focus will be on the large portion of strains. representing the plant pathogenic and beneficial genera Fusarium and Trichoderma, respectively.
| Titre | Barcoding of the national collection of fungi: with special Emphasis on Hypocrealean fungi |
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| Identifiant | FBIS150520118174 |
| Financement | Funding from Foundational Biodiversity Information Programme (FBIP) |
| Description du domaine d'étude / de recherche | Limpopo, Norther West, Gauteng, Mpumalanga, KwaZulu Natal, Eastern Cape, Free State, Western Cape |
Les personnes impliquées dans le projet:
- Chercheur Principal
Méthodes d'échantillonnage
samples where sourced from Agricultural Reasearch Council collection of living specimens.
| Etendue de l'étude | South Africa |
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Description des étapes de la méthode:
- Strain selection: Strains representing the order Hypocreales will be selected based on the following criteria: a)No Sequence data available for the strain b) Morphological identification done to genus level or higher and c) Isolate obtained from soil . These will include strains from the MRC PROMEC collection as the ARC is now the custodians of this world renowned collection of fungi of medical importance. Amplicon generation: DNA extractions and amplification of target gene. The target gene will be genus specific as the ITS gene region doesn't provide species level identification for this group of fungi. For the genera Fusarium and Trichoderma it will be the translation elongation factor 1a gene as (Geiser et al., 2004; European Journal of Plant Pathology 110: 473-479; O’ Donnell et al., 2012; Mycologia, 104: 427–445; Druzhinina et al., Microbiology (2008), 154, 3447–3459. Data analyses: BLAST analyses will be done on the obtained sequence data using a number of international mycological databases such as TrichoMARK, Fusarium MLST and Fusarium ID, MycoBank and NCBI GenBank. The DNA based identification will be used to update the information in the NCF's database. This will also ensure that data is available on these selected strains that would be incorporated in taxonomic re-evaluations of orders, species complexes etc., and will be available for research sectors in agriculture, health, and industry. Population of databases: The newly generated data will be incorporate in the soil and phytopathogenic databases' BLAST tool which will also consult existing data in CBS, NCF and NCBI GenBank. The data will also be deposited in the BOLD database. Collaborative research: The barcoded species will be included in taxonomic and phylogenetic revisions that are currently being performed by the researchers located at the NCF (ARC-PPR) and both national and internationally.
Métadonnées additionnelles
| Identifiants alternatifs | http://ipt.sanbi.org.za/iptsanbi/resource?r=barcoding |
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