Genetic analysis reveals harvested Lethrinus nebulosus in the Southwest Indian Ocean comprise two cryptic species
- Healey, Amy J E, Gouws, Gavin, Fennessy, Sean T, Kuguru, Baraka, Sauer, Warwick H H, Shaw, Paul W, McKeown, Niall J
- Authors: Healey, Amy J E , Gouws, Gavin , Fennessy, Sean T , Kuguru, Baraka , Sauer, Warwick H H , Shaw, Paul W , McKeown, Niall J
- Date: 2018
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/124538 , vital:35626 , https://doi.10.1093/icesjms/fsx245
- Description: This study initially aimed to investigate the genetic population/stock structuring of Lethrinus nebulosus in the Southwest Indian Ocean (SWIO) to inform management practices in light of emerging evidence of overharvesting of this species throughout its distribution. Adult samples were genotyped for 14 nuclear microsatellites and by sequencing fragments of the mtDNA control region and COI gene. A salient feature of the data was the congruent cyto-nuclear partitioning of samples into two high divergent, reciprocally monophyletic groups. This indicates that despite no a priori evidence, hitherto described L. nebulosus in the SWIO comprises two cryptic species that co-occur among southern samples. This intermingling indicates that, at least in southern samples, both species are being indiscriminately harvested, which may severely compromise sustainability. Limited microsatellite differentiation was detected within both species, though there was some evidence of isolation in the Mauritian population. In contrast, mtDNA revealed a pattern consistent with chaotic genetic patchiness, likely promoted by stochastic recruitment, which may necessitate a spatial bet-hedging approach to management to satisfy fishery management and conservation goals.
- Full Text:
- Date Issued: 2018
- Authors: Healey, Amy J E , Gouws, Gavin , Fennessy, Sean T , Kuguru, Baraka , Sauer, Warwick H H , Shaw, Paul W , McKeown, Niall J
- Date: 2018
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/124538 , vital:35626 , https://doi.10.1093/icesjms/fsx245
- Description: This study initially aimed to investigate the genetic population/stock structuring of Lethrinus nebulosus in the Southwest Indian Ocean (SWIO) to inform management practices in light of emerging evidence of overharvesting of this species throughout its distribution. Adult samples were genotyped for 14 nuclear microsatellites and by sequencing fragments of the mtDNA control region and COI gene. A salient feature of the data was the congruent cyto-nuclear partitioning of samples into two high divergent, reciprocally monophyletic groups. This indicates that despite no a priori evidence, hitherto described L. nebulosus in the SWIO comprises two cryptic species that co-occur among southern samples. This intermingling indicates that, at least in southern samples, both species are being indiscriminately harvested, which may severely compromise sustainability. Limited microsatellite differentiation was detected within both species, though there was some evidence of isolation in the Mauritian population. In contrast, mtDNA revealed a pattern consistent with chaotic genetic patchiness, likely promoted by stochastic recruitment, which may necessitate a spatial bet-hedging approach to management to satisfy fishery management and conservation goals.
- Full Text:
- Date Issued: 2018
Genomic analysis reveals multiple mismatches between biological and management units in yellowfin tuna (Thunnus albacares)
- Mullins, Rachel B, McKeown, Niall J, Sauer, Warwick H H, Shaw, Paul W
- Authors: Mullins, Rachel B , McKeown, Niall J , Sauer, Warwick H H , Shaw, Paul W
- Date: 2018
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/124549 , vital:35627 , https://doi.10.1093/icesjms/fsy102
- Description: The South African (SAF) yellowfin tuna (Thunnus albacares) fishery represents a potential example of misalignment between management units and biological processes. The SAF fishery spans an operational stock with a boundary at 20_E, either side of which fish are considered part of Atlantic or Indian Ocean regional stocks. However, the actual recruitment of fish from Atlantic and Indian Ocean spawning populations into SAF waters is unknown. To address this knowledge gap, genomic analysis (11 101 SNPs) was performed on samples from Atlantic and Indian Ocean spawning sites, including SAF sites spanning the current stock boundary. Outlier loci conferred high discriminatory power to assignment tests and revealed that all SAF fish were assigned to the Indian Ocean population and that no Atlantic Ocean fish appeared in the SAF samples. Additionally, several Indian Ocean migrants were detected at the Atlantic spawning site demonstrating asymmetric dispersal and the occurrence of a mixed-stock fishery in Atlantic waters. This study highlights both the spatial inaccuracy of current stock designations and a misunderstanding of interactions between the underlying biological units, which must be addressed in light of local and global declines of the species. Specifically, the entire SAF fishery must be managed as part of the Indian Ocean stock.
- Full Text:
- Date Issued: 2018
- Authors: Mullins, Rachel B , McKeown, Niall J , Sauer, Warwick H H , Shaw, Paul W
- Date: 2018
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/124549 , vital:35627 , https://doi.10.1093/icesjms/fsy102
- Description: The South African (SAF) yellowfin tuna (Thunnus albacares) fishery represents a potential example of misalignment between management units and biological processes. The SAF fishery spans an operational stock with a boundary at 20_E, either side of which fish are considered part of Atlantic or Indian Ocean regional stocks. However, the actual recruitment of fish from Atlantic and Indian Ocean spawning populations into SAF waters is unknown. To address this knowledge gap, genomic analysis (11 101 SNPs) was performed on samples from Atlantic and Indian Ocean spawning sites, including SAF sites spanning the current stock boundary. Outlier loci conferred high discriminatory power to assignment tests and revealed that all SAF fish were assigned to the Indian Ocean population and that no Atlantic Ocean fish appeared in the SAF samples. Additionally, several Indian Ocean migrants were detected at the Atlantic spawning site demonstrating asymmetric dispersal and the occurrence of a mixed-stock fishery in Atlantic waters. This study highlights both the spatial inaccuracy of current stock designations and a misunderstanding of interactions between the underlying biological units, which must be addressed in light of local and global declines of the species. Specifically, the entire SAF fishery must be managed as part of the Indian Ocean stock.
- Full Text:
- Date Issued: 2018
Phylogeny of the Sepia officinalis species complex in the eastern Atlantic extends the known distribution of Sepia vermiculata across the Benguela upwelling region
- Healey, Amy J E, McKeown, Niall J, Potts, Warren M, de Beer, Chénelle L, Sauer, Warwick H H, Shaw, Paul W
- Authors: Healey, Amy J E , McKeown, Niall J , Potts, Warren M , de Beer, Chénelle L , Sauer, Warwick H H , Shaw, Paul W
- Date: 2017
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/125631 , vital:35802 , https://doi.10.2989/1814232X.2017.1371076
- Description: Accurate species identification and biogeographic characterisation are fundamental for appropriate management of expanding cephalopod fisheries. This study addresses this topic within the common cuttlefish Sepia officinalis species complex (S. officinalis, S. hierredda and S. vermiculata), with an emphasis on occurrence in African waters. Tissue samples from the currently presumed distributions of S. vermiculata and S. hierredda (from South Africa and Ghana/Angola, respectively) were sequenced for the cytochrome c oxidase subunit I (COI) and the cytochrome b (cytb) genes of the mitochondrial genome and then compared to existing S. officinalis sequences. Three highly divergent and reciprocally monophyletic clades, corresponding to S. officinalis, S. hierredda and S. vermiculata, were resolved, representing the first molecular confirmation of the distinct species status of S. hierredda and S. vermiculata. The sequences also revealed that, contrary to expectations based on presently published information, all samples from southern Angola were S. vermiculata. These results indicate that the range of S. vermiculata extends beyond the currently described northern limit and that S. hierredda and S. vermiculata may be indiscriminately harvested in Angolan waters. Finer-scale patterns within S. vermiculata phylogeography also indicate that the Benguela Current System and/or other environmental factors serve to isolate northern and southern stocks.
- Full Text:
- Date Issued: 2017
- Authors: Healey, Amy J E , McKeown, Niall J , Potts, Warren M , de Beer, Chénelle L , Sauer, Warwick H H , Shaw, Paul W
- Date: 2017
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/125631 , vital:35802 , https://doi.10.2989/1814232X.2017.1371076
- Description: Accurate species identification and biogeographic characterisation are fundamental for appropriate management of expanding cephalopod fisheries. This study addresses this topic within the common cuttlefish Sepia officinalis species complex (S. officinalis, S. hierredda and S. vermiculata), with an emphasis on occurrence in African waters. Tissue samples from the currently presumed distributions of S. vermiculata and S. hierredda (from South Africa and Ghana/Angola, respectively) were sequenced for the cytochrome c oxidase subunit I (COI) and the cytochrome b (cytb) genes of the mitochondrial genome and then compared to existing S. officinalis sequences. Three highly divergent and reciprocally monophyletic clades, corresponding to S. officinalis, S. hierredda and S. vermiculata, were resolved, representing the first molecular confirmation of the distinct species status of S. hierredda and S. vermiculata. The sequences also revealed that, contrary to expectations based on presently published information, all samples from southern Angola were S. vermiculata. These results indicate that the range of S. vermiculata extends beyond the currently described northern limit and that S. hierredda and S. vermiculata may be indiscriminately harvested in Angolan waters. Finer-scale patterns within S. vermiculata phylogeography also indicate that the Benguela Current System and/or other environmental factors serve to isolate northern and southern stocks.
- Full Text:
- Date Issued: 2017
Incipient genetic isolation of a temperate migratory coastal sciaenid fish (Argyrosomus inodorus) within the Benguela Cold Current system
- Henriques, Romina, Potts, Warren M, Sauer, Warwick H H, Shaw, Paul W
- Authors: Henriques, Romina , Potts, Warren M , Sauer, Warwick H H , Shaw, Paul W
- Date: 2015
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/124710 , vital:35652 , https://doi.10.1080/17451000.2014.952309
- Description: The Benguela Cold Current system, located in the south-eastern Atlantic, features cold sea surface temperatures, bounded to the north and south by tropical currents (the Angola and Agulhas Currents, respectively) and a perennial upwelling cell off central Namibia that divides the region into two sub-systems with different characteristics (Shannon 1985; Hutchings et al. 2009). The colder sea surface temperatures of the Benguela Current have been considered an important biogeographic barrier, isolating tropical and warm-temperate fauna of the Atlantic and Indo-Pacific Oceans (Avise 2000; Floeter et al. 2008). However, recent studies revealed that other oceanographic features, such as the perennial upwelling cell, may also play an important role in shaping the population structure of warm temperate fish populations within the Benguela system, as complete disruption of gene flow was documented both in Lichia amia (Linnaeus, 1758) and Atractoscion aequidens (Cuvier, 1830) (Henriques et al. 2012, 2014). Little is known, however, regarding the influence of the Benguela system on genetic population connectivity of cold-water-tolerant species.
- Full Text:
- Date Issued: 2015
- Authors: Henriques, Romina , Potts, Warren M , Sauer, Warwick H H , Shaw, Paul W
- Date: 2015
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/124710 , vital:35652 , https://doi.10.1080/17451000.2014.952309
- Description: The Benguela Cold Current system, located in the south-eastern Atlantic, features cold sea surface temperatures, bounded to the north and south by tropical currents (the Angola and Agulhas Currents, respectively) and a perennial upwelling cell off central Namibia that divides the region into two sub-systems with different characteristics (Shannon 1985; Hutchings et al. 2009). The colder sea surface temperatures of the Benguela Current have been considered an important biogeographic barrier, isolating tropical and warm-temperate fauna of the Atlantic and Indo-Pacific Oceans (Avise 2000; Floeter et al. 2008). However, recent studies revealed that other oceanographic features, such as the perennial upwelling cell, may also play an important role in shaping the population structure of warm temperate fish populations within the Benguela system, as complete disruption of gene flow was documented both in Lichia amia (Linnaeus, 1758) and Atractoscion aequidens (Cuvier, 1830) (Henriques et al. 2012, 2014). Little is known, however, regarding the influence of the Benguela system on genetic population connectivity of cold-water-tolerant species.
- Full Text:
- Date Issued: 2015
Ontogenetic dietary shift and morphological correlates for Diplodus capensis (Teleostei Sparidae) in southern Angola
- Richardson, Timothy J, Potts, Warren M, Santos, Carmen V D, Sauer, Warwick H H
- Authors: Richardson, Timothy J , Potts, Warren M , Santos, Carmen V D , Sauer, Warwick H H
- Date: 2011
- Subjects: To be catalogued
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/443984 , vital:74176 , https://doi.org/10.1080/15627020.2011.11407501
- Description: Allometric growth patterns of functional morphological variables that reflect resource use in fish were correlated with the diet of Diplodus capensis in southern Angola. A total of 114 individuals (76–336 mm FL) were collected for stomach content analysis and a further 35 individuals (80–320 mm FL) for morphometric analysis. The major dietary components belonged to the groups Chlorophyta, Cirripedia, Rhodophyta and Bivalvia, and made up 71.7% of the diet in terms of a computed ranking index. There was a clear ontogenetic dietary shift with small fish feeding predominantly on algae and large fish on barnacles and mussels. This increasingly durophagous diet corresponded with a positive allometric growth pattern in the gape dimensions (width, height and surface area), adductor mandibulae muscle process and incisor width. Conversely, the relative gut length followed an isometric growth pattern, suggesting a decreased absorptive capacity. This isometric growth pattern is attributed to the better digestibility of the durophagous prey items when compared with algae and further corroborates a link between the morphology and an ontogenetic dietary shift observed in this species.
- Full Text:
- Date Issued: 2011
- Authors: Richardson, Timothy J , Potts, Warren M , Santos, Carmen V D , Sauer, Warwick H H
- Date: 2011
- Subjects: To be catalogued
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/443984 , vital:74176 , https://doi.org/10.1080/15627020.2011.11407501
- Description: Allometric growth patterns of functional morphological variables that reflect resource use in fish were correlated with the diet of Diplodus capensis in southern Angola. A total of 114 individuals (76–336 mm FL) were collected for stomach content analysis and a further 35 individuals (80–320 mm FL) for morphometric analysis. The major dietary components belonged to the groups Chlorophyta, Cirripedia, Rhodophyta and Bivalvia, and made up 71.7% of the diet in terms of a computed ranking index. There was a clear ontogenetic dietary shift with small fish feeding predominantly on algae and large fish on barnacles and mussels. This increasingly durophagous diet corresponded with a positive allometric growth pattern in the gape dimensions (width, height and surface area), adductor mandibulae muscle process and incisor width. Conversely, the relative gut length followed an isometric growth pattern, suggesting a decreased absorptive capacity. This isometric growth pattern is attributed to the better digestibility of the durophagous prey items when compared with algae and further corroborates a link between the morphology and an ontogenetic dietary shift observed in this species.
- Full Text:
- Date Issued: 2011
Managing South Africa's trawl bycatch
- Walmsley, Sarah A, Leslie, Rob W, Sauer, Warwick H H
- Authors: Walmsley, Sarah A , Leslie, Rob W , Sauer, Warwick H H
- Date: 2006
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/124954 , vital:35713 , https://doi.10.1093/icesjms/fsl022
- Description: Over the past few decades, it has become widely recognized that the management strategies of world fisheries must ensure sustainability of bycatch as well as of target species. South Africa implemented a pilot observer programme from 1995 to 2000 to collect data on the levels and patterns of bycatch and discards in the demersal trawl fishery. Here, the results of that programme are used in conjunction with information on bycatch value and compliance to assess the issues and problems regarding bycatch and discarding in the fishery. In general, bycatch components can be placed into one of three categories (discarded bycatch, retained bycatch, and processing waste), each of which present different management problems and require different management approaches. The results were used to formulate a bycatch management plan for the demersal trawl fishery in South Africa. Given the need to continue monitoring bycatch, the performance of the pilot observer programme is reviewed, and the levels of sampling effort required for a national programme are discussed.
- Full Text:
- Date Issued: 2006
- Authors: Walmsley, Sarah A , Leslie, Rob W , Sauer, Warwick H H
- Date: 2006
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/124954 , vital:35713 , https://doi.10.1093/icesjms/fsl022
- Description: Over the past few decades, it has become widely recognized that the management strategies of world fisheries must ensure sustainability of bycatch as well as of target species. South Africa implemented a pilot observer programme from 1995 to 2000 to collect data on the levels and patterns of bycatch and discards in the demersal trawl fishery. Here, the results of that programme are used in conjunction with information on bycatch value and compliance to assess the issues and problems regarding bycatch and discarding in the fishery. In general, bycatch components can be placed into one of three categories (discarded bycatch, retained bycatch, and processing waste), each of which present different management problems and require different management approaches. The results were used to formulate a bycatch management plan for the demersal trawl fishery in South Africa. Given the need to continue monitoring bycatch, the performance of the pilot observer programme is reviewed, and the levels of sampling effort required for a national programme are discussed.
- Full Text:
- Date Issued: 2006
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