Assessing <i>Clivia</i> taxonomy using the core DNA barcode regions, <i>matK</i> and <i>rbcLa</i>
Background: Clivia is a genus of the family Amaryllidaceae endemic to South Africa and Swaziland. Six species and one natural hybrid have been described. Some morphological traits overlap between some species, thus causing taxonomic confusion. Objectives: The discriminatory power of the core DNA bar...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
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South African National Biodiversity Institut
2018-03-01
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| Series: | Bothalia: African Biodiversity & Conservation |
| Subjects: | |
| Online Access: | https://abcjournal.org/index.php/abc/article/view/2025 |
| _version_ | 1819114123689984000 |
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| author | Johan J. Spies Paula Spies |
| author_facet | Johan J. Spies Paula Spies |
| author_sort | Johan J. Spies |
| collection | DOAJ |
| description | Background: Clivia is a genus of the family Amaryllidaceae endemic to South Africa and Swaziland. Six species and one natural hybrid have been described. Some morphological traits overlap between some species, thus causing taxonomic confusion.
Objectives: The discriminatory power of the core DNA barcodes (matK and rbcLa) was evaluated, and the current taxonomy of Clivia was assessed.
Method: Seventy-four two-locus DNA barcodes from 4 to 18 specimens per species were generated.
Results: The matK region had a higher mean intraspecific variation of 0.21 compared with the 0.02 of rbcLa. The two-locus barcodes have an aligned length of 1335 base pairs. Three species, Clivia mirabilis, Clivia nobilis and Clivia caulescens, are monophyletic in the Bayesian Inference (BI) cladogram. The remaining Clivia species (Clivia miniata, Clivia gardenii, Clivia robusta and their affinities) are paraphyletic. Clivia is divided into 17 haplogroups with those of C. mirabilis and C. nobilis being unique. Clivia caulescens has three haplotypes. The Clivia species from the north-eastern distribution range of the Eastern Cape and KwaZulu-Natal provinces have 11 haplogroups and no species-specific DNA barcodes. These groups have no correlation with the current taxonomy or geographical distribution.
Conclusions: Only 37.33% of the species can be correctly identified with the ‘best match’ option in SpeciesIdentifier. Clivia mirabilis, C. nobilis and C. caulescens have unique DNA barcodes to identify them. Specimens from the Ngome area in KwaZulu-Natal have a unique DNA barcode, separating them from the rest of C. gardenii. A taxonomic revision is suggested. |
| first_indexed | 2024-12-22T04:40:18Z |
| format | Article |
| id | doaj.art-5495c1c72f04479290f69c6d5d70f75c |
| institution | Directory Open Access Journal |
| issn | 0006-8241 2311-9284 |
| language | English |
| last_indexed | 2024-12-22T04:40:18Z |
| publishDate | 2018-03-01 |
| publisher | South African National Biodiversity Institut |
| record_format | Article |
| series | Bothalia: African Biodiversity & Conservation |
| spelling | doaj.art-5495c1c72f04479290f69c6d5d70f75c2022-12-21T18:38:46ZengSouth African National Biodiversity InstitutBothalia: African Biodiversity & Conservation0006-82412311-92842018-03-01481e1e810.4102/abc.v48i1.20251924Assessing <i>Clivia</i> taxonomy using the core DNA barcode regions, <i>matK</i> and <i>rbcLa</i>Johan J. Spies0Paula Spies1Department of Genetics, University of the Free StateDepartment of Genetics, University of the Free StateBackground: Clivia is a genus of the family Amaryllidaceae endemic to South Africa and Swaziland. Six species and one natural hybrid have been described. Some morphological traits overlap between some species, thus causing taxonomic confusion. Objectives: The discriminatory power of the core DNA barcodes (matK and rbcLa) was evaluated, and the current taxonomy of Clivia was assessed. Method: Seventy-four two-locus DNA barcodes from 4 to 18 specimens per species were generated. Results: The matK region had a higher mean intraspecific variation of 0.21 compared with the 0.02 of rbcLa. The two-locus barcodes have an aligned length of 1335 base pairs. Three species, Clivia mirabilis, Clivia nobilis and Clivia caulescens, are monophyletic in the Bayesian Inference (BI) cladogram. The remaining Clivia species (Clivia miniata, Clivia gardenii, Clivia robusta and their affinities) are paraphyletic. Clivia is divided into 17 haplogroups with those of C. mirabilis and C. nobilis being unique. Clivia caulescens has three haplotypes. The Clivia species from the north-eastern distribution range of the Eastern Cape and KwaZulu-Natal provinces have 11 haplogroups and no species-specific DNA barcodes. These groups have no correlation with the current taxonomy or geographical distribution. Conclusions: Only 37.33% of the species can be correctly identified with the ‘best match’ option in SpeciesIdentifier. Clivia mirabilis, C. nobilis and C. caulescens have unique DNA barcodes to identify them. Specimens from the Ngome area in KwaZulu-Natal have a unique DNA barcode, separating them from the rest of C. gardenii. A taxonomic revision is suggested.https://abcjournal.org/index.php/abc/article/view/2025CliviaDNA barcodestaxonomygeographical distributionclassificationphylogeny |
| spellingShingle | Johan J. Spies Paula Spies Assessing <i>Clivia</i> taxonomy using the core DNA barcode regions, <i>matK</i> and <i>rbcLa</i> Bothalia: African Biodiversity & Conservation Clivia DNA barcodes taxonomy geographical distribution classification phylogeny |
| title | Assessing <i>Clivia</i> taxonomy using the core DNA barcode regions, <i>matK</i> and <i>rbcLa</i> |
| title_full | Assessing <i>Clivia</i> taxonomy using the core DNA barcode regions, <i>matK</i> and <i>rbcLa</i> |
| title_fullStr | Assessing <i>Clivia</i> taxonomy using the core DNA barcode regions, <i>matK</i> and <i>rbcLa</i> |
| title_full_unstemmed | Assessing <i>Clivia</i> taxonomy using the core DNA barcode regions, <i>matK</i> and <i>rbcLa</i> |
| title_short | Assessing <i>Clivia</i> taxonomy using the core DNA barcode regions, <i>matK</i> and <i>rbcLa</i> |
| title_sort | assessing i clivia i taxonomy using the core dna barcode regions i matk i and i rbcla i |
| topic | Clivia DNA barcodes taxonomy geographical distribution classification phylogeny |
| url | https://abcjournal.org/index.php/abc/article/view/2025 |
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