Integrative taxonomy reveals hidden diversity in the southern African darters genus Nannocharax Günther 1867 (Characiformes: Distichodontidae):
- Bragança, Pedro H N, Smith, Timothy G, Vreven, Emmanuel J W M N, Chakona, Albert
- Authors: Bragança, Pedro H N , Smith, Timothy G , Vreven, Emmanuel J W M N , Chakona, Albert
- Date: 2020
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/163510 , vital:41044 , https://0-doi.org.wam.seals.ac.za/10.1111/jfb.14535
- Description: The present study explored the diversity of Nannocharax within southern Africa by implementing three species delimitation methods for a data set consisting of 37 mitochondrial cytochrome oxidase subunit I sequences. Two unilocus coalescent methods, the General Mixed Yule Coalescent (GMYC) and the Bayesian implementation of the Poisson Tree Processes (bPTP), and a genetic distance method, the Automatic Barcode Gap Discovery (ABGD), were applied. Both GMYC and bPTP delimited the same operational taxonomic units (OTUs), revealing a higher diversity for the genus in the region than previously recognised, whereas the ABGD failed to delimit the same candidate species.
- Full Text:
- Date Issued: 2020
- Authors: Bragança, Pedro H N , Smith, Timothy G , Vreven, Emmanuel J W M N , Chakona, Albert
- Date: 2020
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/163510 , vital:41044 , https://0-doi.org.wam.seals.ac.za/10.1111/jfb.14535
- Description: The present study explored the diversity of Nannocharax within southern Africa by implementing three species delimitation methods for a data set consisting of 37 mitochondrial cytochrome oxidase subunit I sequences. Two unilocus coalescent methods, the General Mixed Yule Coalescent (GMYC) and the Bayesian implementation of the Poisson Tree Processes (bPTP), and a genetic distance method, the Automatic Barcode Gap Discovery (ABGD), were applied. Both GMYC and bPTP delimited the same operational taxonomic units (OTUs), revealing a higher diversity for the genus in the region than previously recognised, whereas the ABGD failed to delimit the same candidate species.
- Full Text:
- Date Issued: 2020
Integrative taxonomy reveals hidden diversity in the southern African darters genus Nannocharax Günther 1867 (Characiformes: Distichodontidae):
- Bragança, Pedro H N, Smith, Timothy G, Vreven, Emmanuel J W M N, Chakona, Albert
- Authors: Bragança, Pedro H N , Smith, Timothy G , Vreven, Emmanuel J W M N , Chakona, Albert
- Date: 2020
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/163543 , vital:41047 , https://0-doi.org.wam.seals.ac.za/10.1111/jfb.14535
- Description: The present study explored the diversity of Nannocharax within southern Africa by implementing three species delimitation methods for a data set consisting of 37 mitochondrial cytochrome oxidase subunit I sequences. Two unilocus coalescent methods, the General Mixed Yule Coalescent (GMYC) and the Bayesian implementation of the Poisson Tree Processes (bPTP), and a genetic distance method, the Automatic Barcode Gap Discovery (ABGD), were applied. Both GMYC and bPTP delimited the same operational taxonomic units (OTUs), revealing a higher diversity for the genus in the region than previously recognised, whereas the ABGD failed to delimit the same candidate species.
- Full Text:
- Date Issued: 2020
- Authors: Bragança, Pedro H N , Smith, Timothy G , Vreven, Emmanuel J W M N , Chakona, Albert
- Date: 2020
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/163543 , vital:41047 , https://0-doi.org.wam.seals.ac.za/10.1111/jfb.14535
- Description: The present study explored the diversity of Nannocharax within southern Africa by implementing three species delimitation methods for a data set consisting of 37 mitochondrial cytochrome oxidase subunit I sequences. Two unilocus coalescent methods, the General Mixed Yule Coalescent (GMYC) and the Bayesian implementation of the Poisson Tree Processes (bPTP), and a genetic distance method, the Automatic Barcode Gap Discovery (ABGD), were applied. Both GMYC and bPTP delimited the same operational taxonomic units (OTUs), revealing a higher diversity for the genus in the region than previously recognised, whereas the ABGD failed to delimit the same candidate species.
- Full Text:
- Date Issued: 2020
The status and distribution of a newly identified endemic galaxiid in the eastern Cape Fold Ecoregion, of South Africa
- Chakona, Gamuchirai, Swartz, Ernst R, Chakona, Albert
- Authors: Chakona, Gamuchirai , Swartz, Ernst R , Chakona, Albert
- Date: 2018
- Subjects: To be catalogued
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/425492 , vital:72250 , xlink:href="https://doi.org/10.1002/aqc.2850"
- Description: DNA-based studies have uncovered cryptic species and lineages within almost all freshwater fishes studied thus far from the Cape Fold Ecoregion (CFE) of South Africa. These studies have changed the way the CFE is viewed, as almost all stream fishes that were previously consid-ered to be of low conservation priority, because they were perceived to have broad geographical ranges, con-tain multiple historically isolated lineages, many of which are narrow-range endemics.
- Full Text:
- Date Issued: 2018
- Authors: Chakona, Gamuchirai , Swartz, Ernst R , Chakona, Albert
- Date: 2018
- Subjects: To be catalogued
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/425492 , vital:72250 , xlink:href="https://doi.org/10.1002/aqc.2850"
- Description: DNA-based studies have uncovered cryptic species and lineages within almost all freshwater fishes studied thus far from the Cape Fold Ecoregion (CFE) of South Africa. These studies have changed the way the CFE is viewed, as almost all stream fishes that were previously consid-ered to be of low conservation priority, because they were perceived to have broad geographical ranges, con-tain multiple historically isolated lineages, many of which are narrow-range endemics.
- Full Text:
- Date Issued: 2018
Deep genetic divergence between geographically isolated populations of the goldie barb (Barbus pallidus) in South Africa: potential taxonomic and conservation implications
- Chakona, Albert, Malherbe, Willem S, Gouws, Gavin, Swartz, Ernst R
- Authors: Chakona, Albert , Malherbe, Willem S , Gouws, Gavin , Swartz, Ernst R
- Date: 2015
- Subjects: To be catalogued
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/443284 , vital:74105 , https://hdl.handle.net/10520/EJC177698
- Description: Barbus pallidus as it is presently defined has a disjunct distribution that is divided between northern and southern populations in South Africa. Sequence data from the cytochrome b gene region showed two distinct lineages that correspond to these geographically distant areas. Divergence between these two lineages was relatively high (5.5-6.5%) and comparable to typical interspecific divergences found between closely related southern African cyprinid fishes. Based on this deep genetic divergence, we conclude that the northern lineage may represent a previously unrecognised species or may belong to a different, but known species or species complex not associated with 'true' B. pallidus. These findings add to a growing body of evidence that freshwater fish diversity in southern Africa requires major revision.
- Full Text:
- Date Issued: 2015
- Authors: Chakona, Albert , Malherbe, Willem S , Gouws, Gavin , Swartz, Ernst R
- Date: 2015
- Subjects: To be catalogued
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/443284 , vital:74105 , https://hdl.handle.net/10520/EJC177698
- Description: Barbus pallidus as it is presently defined has a disjunct distribution that is divided between northern and southern populations in South Africa. Sequence data from the cytochrome b gene region showed two distinct lineages that correspond to these geographically distant areas. Divergence between these two lineages was relatively high (5.5-6.5%) and comparable to typical interspecific divergences found between closely related southern African cyprinid fishes. Based on this deep genetic divergence, we conclude that the northern lineage may represent a previously unrecognised species or may belong to a different, but known species or species complex not associated with 'true' B. pallidus. These findings add to a growing body of evidence that freshwater fish diversity in southern Africa requires major revision.
- Full Text:
- Date Issued: 2015
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