The effect of bait on fine-scale habitat associations of reef fish investigated with remote underwater video systems
- Authors: Schmidt, Nicholas C
- Date: 2019
- Subjects: Baited remote underwater stereo-video systems (stereo-BRUVs) , Remote underwater stereo-video systems , Underwater videography in wildlife monitoring -- South Africa -- Tsitsikamma , Fish stock assessment -- South Africa -- Tsitsikamma , Fish populations -- Monitoring -- South Africa -- Tsitsikamma , Fishes -- Habitat -- South Africa -- Tsitsikamma
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/68380 , vital:29249
- Description: Establishing the associations between fish and their habitats can aid in the monitoring of fish stocks and the design of effective marine protected areas (MPAs). Baited remote underwater stereo-video systems (stereo-BRUVs) are now commonly used to asses fish populations. The habitats seen in the video footage of stereo-BRUVs can be used to link fish fauna to preferred habitat types. However, the application of bait potentially attracts fish from surrounding habitats, and might result in a biased understanding of fish–habitat associations. A field study was conducted in the Tsitsikamma National Park MPA to determine the effect of bait on fine-scale fish–habitat associations, using remote photographic and video methods. The study was conducted over the summer season of 2015 and 2016. Data were collected within a 1x1 km shallow (9–44 m) reef complex. Within the sampling area, 944 photo-quadrats of the macrobenthos were taken 30 m apart by means of a drop camera. By separating the macrobenthos into broad taxonomic groups, five habitat types were identified, namely Shallow Sand, Shallow Reef, Deep Reef, Deep Sand and Patch Reef. The results show that even on a fine scale, depth is an important predictor of macrobenthic distribution and assemblage structure. Baited (stereo-BRUVs) and unbaited (stereo-RUVs) surveys were then conducted to sample the fish community in the same area during the period under study. Higher abundances of fish were observed in reef than in sandy habitats, and bait was seen to have a positive effect on species richness and fish abundance. When comparing habitats, fish abundance and composition on reef habitats were significantly different from sand habitats. This was observed in both the stereo-RUVs and stereo-BRUVs methods. High counts of roman (Chrysoblephus laticeps), fransmadam (Boopsoidea inornata) and steentjie (Spondyliosoma emarginatum) in reef habitats were contrasted by high counts of white sea catfish (Galeichthys feliceps), evil-eye puffer (Amblyrhynchotes honckenii) and lesser guitarfish (Rhinecanthus annulatus) in sandy habitats. Overall, the underlying patterns in fish diversity recorded with the two video methods were generally comparable. However, stereo-RUVs appeared to be unable to detect species that were present in sand habitats, while stereo-BRUVs increased the number and abundance of species recorded in all habitat types. In the stereo-RUVs footage, differences between reef habitats were dampened by the presence of highly abundant fish species. In the stereo-BRUVs footage, although bait appeared to have an effect on the observed fish assemblage, this manifested in an increase in species richness, higher fish abundances and a better overall ability to detect fish–habitat relationships. As such, stereo-BRUVs are considered a robust, effective and recommended method for detecting fish–habitat relationships, even over a fine scale.
- Full Text:
- Date Issued: 2019
- Authors: Schmidt, Nicholas C
- Date: 2019
- Subjects: Baited remote underwater stereo-video systems (stereo-BRUVs) , Remote underwater stereo-video systems , Underwater videography in wildlife monitoring -- South Africa -- Tsitsikamma , Fish stock assessment -- South Africa -- Tsitsikamma , Fish populations -- Monitoring -- South Africa -- Tsitsikamma , Fishes -- Habitat -- South Africa -- Tsitsikamma
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/68380 , vital:29249
- Description: Establishing the associations between fish and their habitats can aid in the monitoring of fish stocks and the design of effective marine protected areas (MPAs). Baited remote underwater stereo-video systems (stereo-BRUVs) are now commonly used to asses fish populations. The habitats seen in the video footage of stereo-BRUVs can be used to link fish fauna to preferred habitat types. However, the application of bait potentially attracts fish from surrounding habitats, and might result in a biased understanding of fish–habitat associations. A field study was conducted in the Tsitsikamma National Park MPA to determine the effect of bait on fine-scale fish–habitat associations, using remote photographic and video methods. The study was conducted over the summer season of 2015 and 2016. Data were collected within a 1x1 km shallow (9–44 m) reef complex. Within the sampling area, 944 photo-quadrats of the macrobenthos were taken 30 m apart by means of a drop camera. By separating the macrobenthos into broad taxonomic groups, five habitat types were identified, namely Shallow Sand, Shallow Reef, Deep Reef, Deep Sand and Patch Reef. The results show that even on a fine scale, depth is an important predictor of macrobenthic distribution and assemblage structure. Baited (stereo-BRUVs) and unbaited (stereo-RUVs) surveys were then conducted to sample the fish community in the same area during the period under study. Higher abundances of fish were observed in reef than in sandy habitats, and bait was seen to have a positive effect on species richness and fish abundance. When comparing habitats, fish abundance and composition on reef habitats were significantly different from sand habitats. This was observed in both the stereo-RUVs and stereo-BRUVs methods. High counts of roman (Chrysoblephus laticeps), fransmadam (Boopsoidea inornata) and steentjie (Spondyliosoma emarginatum) in reef habitats were contrasted by high counts of white sea catfish (Galeichthys feliceps), evil-eye puffer (Amblyrhynchotes honckenii) and lesser guitarfish (Rhinecanthus annulatus) in sandy habitats. Overall, the underlying patterns in fish diversity recorded with the two video methods were generally comparable. However, stereo-RUVs appeared to be unable to detect species that were present in sand habitats, while stereo-BRUVs increased the number and abundance of species recorded in all habitat types. In the stereo-RUVs footage, differences between reef habitats were dampened by the presence of highly abundant fish species. In the stereo-BRUVs footage, although bait appeared to have an effect on the observed fish assemblage, this manifested in an increase in species richness, higher fish abundances and a better overall ability to detect fish–habitat relationships. As such, stereo-BRUVs are considered a robust, effective and recommended method for detecting fish–habitat relationships, even over a fine scale.
- Full Text:
- Date Issued: 2019
Diurnal and nocturnal activity patterns and habitat use of Algoa Bay’s rocky reef fish community
- Authors: Juby, Roxanne
- Date: 2017
- Subjects: Reef fishes -- Effect of light on , Reef fishes -- South Africa , Underwater videography in wildlife monitoring -- South Africa -- Tsitsikamma
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/44827 , vital:25445
- Description: Distinct day-night changes in ambient light are recognised as an important driver of animal activity patterns, with predictable changes to the structure and composition of animal communities between day and night. While day-night variation in the structure of animal communities has been well researched for terrestrial organisms and shallow marine fish communities around the world, there has been limited research of this type conducted on South Africa’s rocky reef fish communities. Consequently, we have a poor understanding of how nocturnal reef fish communities are structured and the day-night activity patterns of species inhabiting both shallow (10-30m) and deep-aphotic (55-100m) reefs. This research was conducted at two warm-temperate South African rocky reefs situated in Algoa Bay. The importance of natural ambient light in shaping the distribution of reef fish communities at shallow and deep-aphotic reef sites was demonstrated using baited remote underwater stereo-video systems (stereo-BRUVs). Distinct day and night fish communities were sampled at shallow and deep-aphotic reef sites. These differences were driven by significant changes in species richness (p < 0.001), species abundance (p < 0.001) and community composition (p < 0.001). These shifts appeared to be driven by day-night activity patterns that were the result of increased detectability of certain species at either day or night. The majority of species belonging to the family Sparidae showed evidence of strict diurnal activity, with their activity being further restricted to shallow reefs. These species showed evidence that they may enter micro-habitats within the reef at night. Similar activity patterns were shown for other top predatory teleost species and low level consumers, with substantial reductions in abundances, or no recordings at night throughout this study. Shallow reefs at day harboured the most diverse fish community. It is therefore hypothesised that this habitat was associated with conditions that offered improved access to resources for many visual species. In addition, the diverse community inhabiting shallow reefs at day is associated with a high risk of negative interspecies interactions, such as competition and predation. It is hypothesised that the biotic conditions associated with shallow reefs at day drove three movement patterns identified in this study; Pagellus bellottii natalensis showed evidence of movement onto shallow reefs at night from adjacent sandy flats, while Pterogymnus laniarius and Squalus sp. 1 showed evidence of movement onto shallow reefs at night from the deep- aphotic reefs that remain dark throughout the diel cycle. It is further hypothesised that other species which showed evidence for nocturnal activity, i.e. Galeichthys ater, Eptatretus hexatrema and Haploblepharus edwardsii, may enter sheltered micro-habitats within the reef during day light hours. These findings have highlighted the complex patterns that have evolved within marine fish to allow multiple species to coexist and exploit productive reef ecosystems by partitioning resource use and activity patterns at day or night, between depth zones and habitat types.
- Full Text:
- Date Issued: 2017
- Authors: Juby, Roxanne
- Date: 2017
- Subjects: Reef fishes -- Effect of light on , Reef fishes -- South Africa , Underwater videography in wildlife monitoring -- South Africa -- Tsitsikamma
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/44827 , vital:25445
- Description: Distinct day-night changes in ambient light are recognised as an important driver of animal activity patterns, with predictable changes to the structure and composition of animal communities between day and night. While day-night variation in the structure of animal communities has been well researched for terrestrial organisms and shallow marine fish communities around the world, there has been limited research of this type conducted on South Africa’s rocky reef fish communities. Consequently, we have a poor understanding of how nocturnal reef fish communities are structured and the day-night activity patterns of species inhabiting both shallow (10-30m) and deep-aphotic (55-100m) reefs. This research was conducted at two warm-temperate South African rocky reefs situated in Algoa Bay. The importance of natural ambient light in shaping the distribution of reef fish communities at shallow and deep-aphotic reef sites was demonstrated using baited remote underwater stereo-video systems (stereo-BRUVs). Distinct day and night fish communities were sampled at shallow and deep-aphotic reef sites. These differences were driven by significant changes in species richness (p < 0.001), species abundance (p < 0.001) and community composition (p < 0.001). These shifts appeared to be driven by day-night activity patterns that were the result of increased detectability of certain species at either day or night. The majority of species belonging to the family Sparidae showed evidence of strict diurnal activity, with their activity being further restricted to shallow reefs. These species showed evidence that they may enter micro-habitats within the reef at night. Similar activity patterns were shown for other top predatory teleost species and low level consumers, with substantial reductions in abundances, or no recordings at night throughout this study. Shallow reefs at day harboured the most diverse fish community. It is therefore hypothesised that this habitat was associated with conditions that offered improved access to resources for many visual species. In addition, the diverse community inhabiting shallow reefs at day is associated with a high risk of negative interspecies interactions, such as competition and predation. It is hypothesised that the biotic conditions associated with shallow reefs at day drove three movement patterns identified in this study; Pagellus bellottii natalensis showed evidence of movement onto shallow reefs at night from adjacent sandy flats, while Pterogymnus laniarius and Squalus sp. 1 showed evidence of movement onto shallow reefs at night from the deep- aphotic reefs that remain dark throughout the diel cycle. It is further hypothesised that other species which showed evidence for nocturnal activity, i.e. Galeichthys ater, Eptatretus hexatrema and Haploblepharus edwardsii, may enter sheltered micro-habitats within the reef during day light hours. These findings have highlighted the complex patterns that have evolved within marine fish to allow multiple species to coexist and exploit productive reef ecosystems by partitioning resource use and activity patterns at day or night, between depth zones and habitat types.
- Full Text:
- Date Issued: 2017
Towards standardised reef fish monitoring: an assessment of stereo-video techniques to sample shallow and deep reef fish assemblages
- Authors: Halse, Sarah Jane
- Date: 2017
- Subjects: Reef fishes -- South Africa -- Agulhas, Cape (Cape) , Reef fishes -- Ecology -- South Africa -- Agulhas, Cape (Cape) , Marine biodiversity -- South Africa -- Agulhas, Cape (Cape) , Biotic communities -- South Africa -- Agulhas, Cape (Cape) , Sparidae -- South Africa -- Agulhas, Cape (Cape) , Reef fishes -- Size -- South Africa -- Agulhas, Cape (Cape) , Underwater videography in wildlife monitoring -- South Africa -- Tsitsikamma , Baited remote underwater stereo-video systems (stereo-BRUVs)
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/4635 , vital:20702
- Description: Baited remote underwater stereo-video systems (stereo-BRUVs) were developed to determine fish abundance and size structure in a more unbiased, and relatively non-invasive manner across a broader range of depths and habitats than conventional sampling methods achieve. These characteristics make stereo-BRUVs particularly useful for research inside marine protected areas (MPAs) where researchers are required to minimize disturbance to the protected environment. Although stereo-BRUVs have been widely used around the world, they are novel to South Africa and standardised protocols for their application are required. As such, this study aimed to address i) the effect of different bait types, namely pilchard (Sardinops sagax), squid (Loligo reynaudi) and bivalves (Crassostrea gigas and Perna perna) on the observed reef fish assemblage structure and ii) the effect of artificial illumination (lighting) on the observed reef fish assemblage structure sampled with stereo-BRUVs. One key component of the stereo-BRUVs methodology is the application of bait to attract fish into the field of view. Globally, pilchard is the most often used bait type for stereo- BRUVs, however, its suitability has never been tested comparatively against other bait types for South African conditions. Significant differences in fish abundance and assemblage structure were recorded between stereo-BRUVs deployments when applying the different bait types. The bivalve baits, oyster and mussel, were typically poor when sampling the reef fish assemblages of the region. Pilchard and squid were sampled in similar communities and were able to attract the majority of the reef fish from the region, suggesting they are suitable bait types for stereo-BRUVs in the Agulhas ecoregion. However, a power analysis indicated that roughly twice the amount of samples are required to effectively sample the same abundances of Chrysoblephus laticeps (roman) and Cheilodactylidae (fingerfins) species when sampling with squid as opposed to pilchard. Both bait types can be locally sourced, however, squid is considerably more expensive than pilchard. Considering the difference in cost, together with the fact that twice as much squid bait is required, squid is not a cost-effective option relative to pilchard. As such this study recommends that pilchard is the most appropriate bait for the Agulhas ecoregion of South Africa. Due to low light levels, artificial lighting is required when conducting remote video research in the sub-photic zone. Blue light has a shorter wavelength than other colour lights and attenuates slower through water. In addition, blue lighting has no recorded effect on fish behaviour and has proven to be a successful light colour for underwater sampling. The use of lighting is unavoidable for sub-photic stereo-BRUVs sampling and is recommended for all stereo-BRUVs sampling for comparability of data from environments characterised by different light levels. A study was conducted to test the necessity of artificial lighting when sampling from environments characterised by ambient light levels adequate for stereo- BRUVs sampling, a comparative to measure the effect of light on the fish assemblage structure. Of the more commonly detected fish species (those observed in >50% of the samples), most were seen at similar abundances in samples using lighting and in those without lighting. No significant differences were observed in fish length data between samples collected with and samples collected without lighting. This suggests that standardised stereo-BRUVs sampling across photic zones on the continental shelf of South Africa can be collected without blue lighting when ambient light levels are sufficient to see the survey area.
- Full Text:
- Date Issued: 2017
- Authors: Halse, Sarah Jane
- Date: 2017
- Subjects: Reef fishes -- South Africa -- Agulhas, Cape (Cape) , Reef fishes -- Ecology -- South Africa -- Agulhas, Cape (Cape) , Marine biodiversity -- South Africa -- Agulhas, Cape (Cape) , Biotic communities -- South Africa -- Agulhas, Cape (Cape) , Sparidae -- South Africa -- Agulhas, Cape (Cape) , Reef fishes -- Size -- South Africa -- Agulhas, Cape (Cape) , Underwater videography in wildlife monitoring -- South Africa -- Tsitsikamma , Baited remote underwater stereo-video systems (stereo-BRUVs)
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/4635 , vital:20702
- Description: Baited remote underwater stereo-video systems (stereo-BRUVs) were developed to determine fish abundance and size structure in a more unbiased, and relatively non-invasive manner across a broader range of depths and habitats than conventional sampling methods achieve. These characteristics make stereo-BRUVs particularly useful for research inside marine protected areas (MPAs) where researchers are required to minimize disturbance to the protected environment. Although stereo-BRUVs have been widely used around the world, they are novel to South Africa and standardised protocols for their application are required. As such, this study aimed to address i) the effect of different bait types, namely pilchard (Sardinops sagax), squid (Loligo reynaudi) and bivalves (Crassostrea gigas and Perna perna) on the observed reef fish assemblage structure and ii) the effect of artificial illumination (lighting) on the observed reef fish assemblage structure sampled with stereo-BRUVs. One key component of the stereo-BRUVs methodology is the application of bait to attract fish into the field of view. Globally, pilchard is the most often used bait type for stereo- BRUVs, however, its suitability has never been tested comparatively against other bait types for South African conditions. Significant differences in fish abundance and assemblage structure were recorded between stereo-BRUVs deployments when applying the different bait types. The bivalve baits, oyster and mussel, were typically poor when sampling the reef fish assemblages of the region. Pilchard and squid were sampled in similar communities and were able to attract the majority of the reef fish from the region, suggesting they are suitable bait types for stereo-BRUVs in the Agulhas ecoregion. However, a power analysis indicated that roughly twice the amount of samples are required to effectively sample the same abundances of Chrysoblephus laticeps (roman) and Cheilodactylidae (fingerfins) species when sampling with squid as opposed to pilchard. Both bait types can be locally sourced, however, squid is considerably more expensive than pilchard. Considering the difference in cost, together with the fact that twice as much squid bait is required, squid is not a cost-effective option relative to pilchard. As such this study recommends that pilchard is the most appropriate bait for the Agulhas ecoregion of South Africa. Due to low light levels, artificial lighting is required when conducting remote video research in the sub-photic zone. Blue light has a shorter wavelength than other colour lights and attenuates slower through water. In addition, blue lighting has no recorded effect on fish behaviour and has proven to be a successful light colour for underwater sampling. The use of lighting is unavoidable for sub-photic stereo-BRUVs sampling and is recommended for all stereo-BRUVs sampling for comparability of data from environments characterised by different light levels. A study was conducted to test the necessity of artificial lighting when sampling from environments characterised by ambient light levels adequate for stereo- BRUVs sampling, a comparative to measure the effect of light on the fish assemblage structure. Of the more commonly detected fish species (those observed in >50% of the samples), most were seen at similar abundances in samples using lighting and in those without lighting. No significant differences were observed in fish length data between samples collected with and samples collected without lighting. This suggests that standardised stereo-BRUVs sampling across photic zones on the continental shelf of South Africa can be collected without blue lighting when ambient light levels are sufficient to see the survey area.
- Full Text:
- Date Issued: 2017
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