Observations of the habitats and biodiversity of the submarine canyons at Sodwana Bay

The discovery of coelacanths, Latimeria chalumnae, in Jesser Canyon off Sodwana Bay in northern KwaZulu-Natal in 2000 triggered renewed interest in the deep subtidal habitats associated with submarine canyons. Information stemming from three recreational Trimix diving expeditions in Wright and Jesser canyons between April 1998 and June 2001 revealed distinct and diverse invertebrate and fish communities in the canyons of the Greater St Lucia Wetland Park (GSLWP). In total, 69 invertebrate taxa were collected from Wright Canyon, including at least 15 new records for South Africa plus 11 potential new species and 16 range or depth extensions. Divers documented the first five coelacanth specimens and obtained information on fish distribution and abundance. Five different habitat types were recognized supporting distinct biological communities; the sandy plains outside of the canyons, scattered rock outcrops within the sandy plains, the canyon margin, canyon walls and caves and overhangs. The canyon margin is the richest habitat and supports dense communities of invertebrate suspension feeders, as well as a diverse and abundant fish fauna. Dominant canyon invertebrates included sponges, black corals, gorgonians, alcyonarian soft corals and stylasterine lace corals. These invertebrates support a diverse epifauna including basket- and brittlestars, winged oysters and other molluscs. The canyons within the GSLWP protect large populations of commercially important linefish species including the sparids, Chrysoblephus puniceus, C. anglicus, Polysteganus praeorbitalis and P. caeruleopunctatus, as well as several species of serranids and lutjanids. Additional biological sampling and standardized quantitative sampling within the canyons and deep reefs is required to develop a better understanding of their biological communities and the factors that shape them

The age and growth of hottentot seabream Pachymetopon blochii before and after the South African linefish state of emergency in 2000

The hottentot seabream Pachymetopon blochii is a small-sized (maximum 2.67 kg) sparid endemic to southern Africa. It is an important target in South Africa’s Western Cape traditional linefishery, particularly in the absence of more valuable pelagic species (such as Thyrsites atun and Seriola lalandi). In 2000, South Africa’s linefishery was declared to be in a state of emergency, and commercial fishing effort was consequently reduced by 70%. A subsequent increase in stock biomass and intraspecific competition, coupled with environmental changes, were hypothesised to have thereafter altered the growth rate of hottentot, from 2000 to 2010. This study aimed to revise outdated age–growth models for the hottentot by using modern techniques (sectioned otoliths), and to compare age–growth relationships before and after the declared linefish state of emergency. The maximum age observed was 19 years, with no difference in the growth rate between sexes (p = 0.39–0.43) or time-periods (p = 0.96). Although the growth rate did not change, there is evidence that the age structure of the stock changed between time-periods as a result of changes in fishing pressure between 2000 and 2010. The enhanced recent growth model for hottentot, described as Lt = 418.063 (1 – e−0.104(t –[−4.709])) (pooled sexes; n = 206), indicates a considerably slower growth rate for this species than was proposed previously using whole otoliths and has major implications for effective stock management.Keywords: age structure, gonochoristic fish, growth model, intraspecific competition, linefishery, Sparidae, Western Cape, whole otolith

Observations of the habitats and biodiversity oft he submarine canyons at Sodwana Bay

The discovery of coelacanths, Latimeria chalumnae, in Jesser Canyon off Sodwana Bay in northern KwaZulu-Natal in 2000 triggered renewed interest in the deep subtidal habitats associated with submarine canyons. Information stemming from three recreational Trimix diving expeditions in Wright and Jesser canyons between April 1998 and June 2001 revealed distinct and diverse invertebrate and fish communities in the canyons of the Greater St Lucia Wetland Park (GSLWP). In total, 69 invertebrate taxa were collected from Wright Canyon, including at least 15 new records for South Africa plus 11 potential new species and 16 range or depth extensions. Divers documented the first five coelacanth specimens and obtained information on fish distribution and abundance. Five different habitat types were recognized supporting distinct biological communities; the sandy plains outside of the canyons, scattered rock outcrops within the sandy plains, the canyon margin, canyon walls and caves and overhangs. The canyon margin is the richest habitat and supports dense communities of invertebrate suspension feeders, as well as a diverse and abundant fish fauna. Dominant canyon invertebrates included sponges, black corals, gorgonians, alcyonarian soft corals and stylasterine lace corals. These invertebrates support a diverse epifauna including basket- and brittlestars, winged oysters and other molluscs. The canyons within the GSLWP protect large populations of commercially importan

Notes on a remotely operated vehicle survey to describe reef ichthyofauna and habitats – Agulhas Bank, South Africa

Background: Despite their ecological and economic importance, reef habitats on the central Agulhas Bank, off the southern tip of Africa, remain poorly studied. The ichthyofauna of these habitats cannot be surveyed using trawl gear. Objective: Preliminary assessment of the use of a remotely operated vehicle (ROV) to investigate the ichthyofauna associated with deep reef habitats on the central Agulhas Bank. Method: Underwater visual surveys were carried out during ROV dives (maximum duration 60 minutes; area covered approximately 800 m2; maximum dive depth 100 m). Results & discussion: The number of detected fish species (36) compares well with that reported from fishing surveys and commercial fisher data. Most (68%) fishes appeared to be undisturbed by the ROV. Species saturation was reached after a maximum of 135 minutes survey time, but species numbers increased and saturation times shortened (34 minutes minimum) with the introduction of bait. Conclusion:  ROV surveys may represent a non-extractive alternative to assess demersal ichthyofaunal diversity in relation to habitat structure and benthic cover on temperate reefs around South Africa

South Africa

The world's climate is changing more rapidly than scientists had envisioned just a few years ago, and the potential impact of climate change on world food production is quite alarming. Nowhere is the sense of alarm more keenly felt than among those who study the warming of the world's oceans. Evidence of the dire effects of climate change on fisheries and fish farming has now mounted to such an extent that the need for a book such as this has become urgent. A landmark publication devoted exclusively to how climate change is affecting and is likely to affect commercially vital fisheries and aquaculture operations globally, Climate Change Impacts on Fisheries and Aquaculture provides scientists and fishery managers with a summary of and reference point for information on the subject which has been gathered thus far. Covers an array of critical topics and assesses reviews of climate change impacts on fisheries and aquaculture from many countries, including Japan, Mexico, South Africa, Australia, Chile, US, UK, New Zealand, Pacific Islands, India and others Features chapters on the effects of climate change on pelagic species, cod, lobsters, plankton, macroalgae, seagrasses and coral reefs Reviews the spread of diseases, economic and social impacts, marine aquaculture and adaptation in aquaculture under climate change Includes special reports on the Antarctic Ocean, the Caribbean Sea, the Arctic Ocean and the Mediterranean Sea Extensive references throughout the book make this volume both a comprehensive text for general study and a reference/guide to further research for fisheries scientists, fisheries managers, aquaculture personnel, climate change specialists, aquatic invertebrate and vertebrate biologists, physiologists, marine biologists, economists, environmentalist biologists and planners

Isolation and validation of microsatellite markers from a depleted South African sciaenid species, the dusky kob (Argyrosomus japonicus), by means of the FIASCO/454 approach

The dusky kob (Argyrosomus japonicus) is a large, estuarine-dependent sciaenid fish that has been severely depleted in South African waters and that, in recent years, has received considerable attention from the local fish farming industry. Discovery and application of appropriate molecular markers is necessary to improve the understanding of wild population structure, assist the effectiveness of broodstock and breeding programmes, and ensure monitoring of potential interactions between wild and farmed fish. The present study uses a recently tested approach that combines the FIASCO enrichment protocol with 454 GS-FLX Next Generation Sequencing, to identify large numbers of microsatellite-containing sequences at a low cost and high discovery rate from the dusky kob genome. Following the FIASCO enrichment (targeting specifically tetranucleotide repeats), 2,355 potential tetranucleotide microsatellites (perfect repeat motifs including eight or more repeat units flanked by regions for primer design) were identified from 1/5th of a single 454 lane. From these sequences, a test panel of 60 potential markers was selected for validation. A total of eight (13 %) markers were successfully amplified from a test sample of wild dusky kob individuals and showed high levels of polymorphism (observed heterozygosity per locus ranging between 0.375 and 0.905). Cross-species amplification of seven of these markers was also successfully carried out in another closely related and commercially important South African sciaenid species, the silver kob (A. inodorus). The microsatellite markers developed in the present study are readily available tools suitable to address genetic variability of Argyrosomus species of southern Africa.</p

Isolation and validation of microsatellite markers from a depleted South African sciaenid species, the dusky kob (Argyrosomus japonicus), by means of the FIASCO/454 approach

Please cite as follows:Mirimin, L. et al. 2013. Isolation and validation of microsatellite markers from a depleted South African sciaenid species, the dusky kob (Argyrosomus japonicus), by means of the FIASCO/454 approach. Conservation Genetics Resources, 5(3): 841-844, doi:10.1007/s12686-013-9922-8.The original publication is available at http://link.springer.com/journal/12686The dusky kob (Argyrosomus japonicus) is a large, estuarine-dependent sciaenid fish that has been severely depleted in South African waters and that, in recent years, has received considerable attention from the local fish farming industry. Discovery and application of appropriate molecular markers is necessary to improve the understanding of wild population structure, assist the effectiveness of broodstock and breeding programmes, and ensure monitoring of potential interactions between wild and farmed fish. The present study uses a recently tested approach that combines the FIASCO enrichment protocol with 454 GS-FLX Next Generation Sequencing, to identify large numbers of microsatellite-containing sequences at a low cost and high discovery rate from the dusky kob genome. Following the FIASCO enrichment (targeting specifically tetranucleotide repeats), 2,355 potential tetranucleotide microsatellites (perfect repeat motifs including eight or more repeat units flanked by regions for primer design) were identified from 1/5th of a single 454 lane. From these sequences, a test panel of 60 potential markers was selected for validation. A total of eight (13 %) markers were successfully amplified from a test sample of wild dusky kob individuals and showed high levels of polymorphism (observed heterozygosity per locus ranging between 0.375 and 0.905). Cross-species amplification of seven of these markers was also successfully carried out in another closely related and commercially important South African sciaenid species, the silver kob (A. inodorus). The microsatellite markers developed in the present study are readily available tools suitable to address genetic variability of Argyrosomus species of southern Africa.Department of Agriculture, Forestry and Fisheries (DAFF)Post-prin