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Catches of South African sardineSardinops sagaxhave declined in recent years from about 200 000 t harvested annually during the period 2002–2006 to less than 100 000 t. Consequently, some companies are now importing sardine from sources elsewhere in the world to meet local demand for canned sardine and bait. This importation has the potential for the introduction of sardine pathogens, in particular the pilchard herpesvirus (PHV), which could have a negative impact on the currently small South African sardine population. The aims of the current study were to determine whether PHV is present in the local sardine population and to assess the extent to which sardine is being imported into the country and whether imported fish are from countries where the virus is known to be endemic. Fish sampled from South Africa’s western (n= 150), southern (n= 182) and eastern (n= 96) putative stocks ofS. sagaxwere analysed for the presence of PHV using real-time quantitative polymerase chain reaction (qPCR). The origin and amount of potentially infected material imported into South Africa during the period 2010–2014 was also assessed. None of the South African sardine collected during this study tested positive for PHV, suggesting that active PHV was not prevalent in the local population ofS. sagaxat the time of this study. Between 56 000 and 71 000 t of frozen sardine was imported annually into South Africa from countries whereS. sagaxoccurs, including some from areas (Australia and New Zealand) where sardine infection by PHV is known to be endemic. Hence, it is plausible that the PHV pathogen, capable of perpetuating infections in local sardine populations, could be imported into South Africa along with the importation of frozen sardine. Should local sardine be naïve to the virus, as suggested by this study, then the population is at risk of infection and precautions against such must be taken. [ABSTRACT FROM AUTHOR]

Spatial and temporal variation in infection of South African sardine, Sardinops sagax , by a metacercarial parasite was examined to test the hypothesis that the South African sardine population comprises multiple stocks. Samples of adult S. sagax were collected monthly from four commercial fishery landing harbours off the west and south coast and three indices of infection (infection prevalence, mean infection intensity and mean parasite abundance) were determined for each sample. Generalized linear models (GLMs) were used to assess the relative importance of putative stock (sardine caught off the west coast were assumed to be from the putative “western” stock whereas those caught off the south coast were assumed to be from the putative “southern” stock), season, year, fish size and all possible two-way interactions, where a binomial distribution was assumed for prevalence and a negative binomial distribution assumed for infection intensity and parasite abundance. The most parsimonious model for each index was selected based on Akaike's Information Criterion, and significant GLMs were derived for all three indices. Putative stock was the most significant contributor to explaining deviance seen in infection intensity and parasite abundance, and was the second most important contributor to explaining deviance seen in infection prevalence, with fish from the putative western stock having significantly ( p < 0.001) higher parasite loads compared to those from the putative southern stock. Temporal variability was also observed, with season and year also contributing significantly to all three models. Despite this temporal variability, the marked spatial difference in the distribution of infection of S. sagax by metacercariae supports the hypothesis of western and southern stocks of sardine off the coast of South Africa. The presence of infected large sardine off the south coast indicates that these putative stocks are not discrete and that some degree of mixing occurs between them, at least from the western to the southern area. [ABSTRACT FROM AUTHOR]

SardineSardinops sagaxdistributed off the west and south coasts of South Africa have traditionally been assumed to comprise a single well-mixed stock for assessment and management purposes. New research, however, lends weight to the possibility of two stocks in this region. A precautionary management approach thus needs to consider the impact of management decisions on the hypothesised two individual stocks as well as on the resource as a whole. As a first step in this process, Bayesian assessments of South African sardine are presented, which compare results for the traditional single-stock hypothesis with those that follow from a new two-mixing-stock hypothesis. Recruits from the west stock are assumed to move to and remain part of the south stock in annual pulses of varying size. This movement is estimated to be appreciable, and to take place from a substantially more productive west stock to the south stock. This immigration makes a greater contribution to the south-stock biomass than do years of above-average south-stock recruitment. Importantly, this two-mixing-stock hypothesis is shown to be consistent with the data available. Further alternative sardine stock-structure hypotheses suggested by the most recent data are discussed. [ABSTRACT FROM AUTHOR]

Patterns in the co-occurrence of small pelagic fish species within single shoals were investigated using data from 6 814 throws of commercial purse-seiners in South Africa. Assuming that the throw composition reflected the true composition of the assemblage, it was shown that: (1) mixed pelagic assemblages were as prevalent as pure shoals; (2) assemblages of anchovyEngraulis encrasicolusand sardineSardinops sagaxexhibited a seasonal distribution pattern; (3) there was a highly skewed species ratio in terms of abundance by mass; and (4) patterns in the size distributions of two-species shoals were complex and dependent on theL∞and the relative abundance of the species concerned. We hypothesise that the observed patterns reflect the ‘net gain of the subordinate’, whereby fish occurring in small numbers are less conspicuous and/or less energetically attractive for potential predators if they are smaller than the dominant component of the school. If the subordinate fish grow larger than the dominant fish, this advantage persists. Potential sources of bias are alluded to but are not considered to have had a major impact on the conclusions reached, although they may form the basis for further work. [ABSTRACT FROM PUBLISHER]

Myoliquefaction of fish musculature results in customer quality complaints and in huge economic losses, especially with regard to Pacific hake (Merluccius productus), farm-reared Atlantic salmon (Salmo salar), South African pilchards (Sardinops oceliatus) and Cape snoek (Thyrsites atun). Myoliquefaction, or 'jelly flesh', is caused by proteolytic enzymes released by the marine myxosporean parasite, Kudoa thyrsites, after the death of the fish. Currently there are no fast methods of detection for this microscopic parasite, and because myoliquefaction is evident only after 38-56 h post-mortem, infected fish inevitably reach the processor and/or consumer. Several methods of detection have been investigated, but most of these methods are time-consuming and/or result in destruction of the fish, and are thus impractical for fishing vessels and fish processors. Limited research is available on possible means of destroying or inhibiting the post-mortem activity of the parasitic proteolytic enzyme. Means such as manipulating post-mortem pH and temperature control have been suggested; leaving opportunities for research into food technology applications such as cold-chain management and ionising radiation. [ABSTRACT FROM AUTHOR]

de Moor, C. L., Butterworth, D. S., and De Oliveira, J. A. A. 2011. Is the management procedure approach equipped to handle short-lived pelagic species with their boom and bust dynamics? The case of the South African fishery for sardine and anchovy. – ICES Journal of Marine Science, 68: 2075–2085.Worldwide, small shoaling pelagic fish manifest rapid and substantial natural changes in abundance. Is the application of a management procedure (MP), evaluated using simulation tests [i.e. a MP approach otherwise known as management strategy evaluation (MSE)], to recommend total allowable catches (TACs) with constraints desired by industry on the extent of interannual changes viable for such resources, particularly given the customarily lengthy MP evaluation process? This question is examined by considering the rapid boom and then bust situation that arose for the South African fishery for sardine (Sardinops sagax) and anchovy (Engraulis encrasicolus) across the turn of the century. Novel adaptations to the MP in place at the time of the boom allowed enhanced resource use during the boom period without compromising the risk of unintended depletion of the populations. Importantly a two-tier threshold system allowed the normal constraints on the maximum extent of interannual TAC reduction to be modified when TACs rose above the specified thresholds. The general protocol underlying the application of MPs for South African fisheries proved sufficiently flexible for the approach to continue to be applied, despite the unanticipated rapid fish population boom and then bust experienced. [ABSTRACT FROM PUBLISHER]

The annual movement of South African sardine Sardinops sagax up the east coast of South Africa, known as the 'sardine run', was investigated using data from aerial surveys for the period 1988-2005 and compared with remotely sensed sea surface temperature (SST) and chlorophyll a data. Sardine sighting rates were highest within the Waterfall Bluff Bight off the Eastern Cape Coast, where conditions appeared to be most favourable. Sardine and predator sightings decreased significantly northwards of Mdoni on the KwaZulu-Natal (KZN) coast, whereas the proportion of nearshore sightings increased. The causal mechanism for this inshore concentration is suggested to be the influx of warm Agulhas Current water from the Durban Eddy that forces sardine shoreward. Cape gannet Morus capensis, common dolphin Delphinus capensis and sardine distributions were associated, and there was an association between SST and sardine and predator distributions. There was a marked increase in bottlenose dolphin Tursiops aduncus sightings upon commencement of the sardine run, with these dolphins being consid-ered to be a 'migratory' stock that enters KZN waters every winter. [ABSTRACT FROM AUTHOR]

The nearshore presence of sardine Sardinops sagax on the KwaZulu-Natal (KZN) coast was investi-gated using sightings data collected by the KZN Sharks Board from 1997 to 2007. The spatio-temporal distribution of sardine was described in relation to that of their predators and to environmental conditions, and subjected to generalised linear model (GLM) and generalised additive model (GAM) analyses. Variables describing spatio-temporal conditions performed best in the models (r2 = 0.52) with seasonal effects, specifically June and July, making the greatest contribution towards sardine presence. The contribution of the years 2003, 2006 and 2007, and the KZN North Coast, was signif-icantly lower. The predator variables were highly significant (r2 = 0.48) with Cape gannets Morus capensis, followed by the sharks/gamefish and common dolphins Delphinus capensis, being most closely associated with sardine presence. Environmental variables were not as influential in the GLM models (r2 = 0.23), but some variables were useful in describing conditions favouring sardine presence, namely calm current conditions, light north-westerly land breezes and stable atmospheric conditions. Increasing sea surface temperature (SST), moderate north to south currents, large swells and turbid water had a negative impact upon sardine presence. North-easterly and north-westerly winds and north to south currents had a cooling effect upon nearshore SSTs, whereas south-easterly winds and increasing air temperatures caused nearshore warming. Results are discussed in the context of developing an understanding of the mechanisms that govern fine-scale movements of sardine shoals during the KZN sardine run, with a view to predicting such movements. [ABSTRACT FROM AUTHOR]

Pelagic eggs of marine fish were collected weekly from shelf waters at Park Rynie on the KwaZulu-Natal south coast from 1987 to 2007 to investigate seasonal and annual patterns in the abundance of sardine Sardinops sagax eggs. After a sudden appearance in June each year, sardine eggs were found persistently throughout the winter-spring period before disappearing in early summer. From changes in the cross-shelf distribution of eggs, it is inferred that sardine shoals are close inshore in June, as they arrive in KwaZulu-Natal waters from the south, then the shoals disperse offshore and thereafter return inshore before their return migration southward in early summer. The period 2001-2007 yielded significantly fewer eggs than the previous 14 years of the study. [ABSTRACT FROM AUTHOR]

Shark catches in the protective nets set off the beaches of KwaZulu-Natal (KZN), South Africa, are strongly influenced by the sardine run, the winter influx of shoals of Sardinops sagax from the south-west. The effect of the sardine run, which is highly variable from year to year, is greatest in June and July at beaches south of Durban. Total annual shark catch and effort are presented for the period 1952-2005, and total monthly shark catch on the KZN south coast for the period May-August, 1965-2005. Measures to reduce catches of sharks associated with the sardine run have been introduced and have been increasingly successful. Reliable species-specific catch data are available for the period 1978-2005 only. For this period, the spatio-temporal distribution of each of 14 species of shark and the frequency of occurrence of sardine in their diets is documented. Occurrence varies according to species, as does the apparent influence of the sardine run on shark distribution. During June and July on the KZN south coast, sardine were found in the diet of all but two species and frequency of occurrence was 40% or greater in eight species. The presence of copper or bronze whaler sharks Carcharhinus brachyurus in KZN waters appears to be strongly associated with the sardine run, as does that of certain life-history stages of dusky sharks C. obscurus. Spinner sharks C. brevipinna and smooth hammerhead sharks Sphyrna lewini are caught in greater numbers in summer than in winter, but appear to shift their spatial distribution seasonally to feed on sardine. [ABSTRACT FROM AUTHOR]

Opportunistic observations to determine the relative abundance and distribution of marine mammal and seabird predators of sardine Sardinops sagax were carried out during a dedicated multidisciplinary research survey off the South African east coast in June and July of 2005 that was timed to coincide with the annual sardine run. Associations between different predator species, between predators and clupeoids, and between predators and oceanographic variables, were examined. Species' distributions were primarily separated by latitude and distance from shore. Bryde's whale Balaenoptera edeni, African penguin Spheniscus demersus, Cape cormorant Phalacrocorax capensis and West Coast round herring Etrumeus whiteheadi were predominantly found in the cool southern part of the survey region. Peak sardine run activity occurred within 4 km of shore at the northward limit of a strip of cool water (<21 °C) stretching along the East Coast. The principal predators associated with this activity were common dolphins Delphinus capensis and Cape gannets Morus capensis, and their nearshore distribution was associated with sardine and East Coast round herring E. teres. Few clupeoids were encountered along the KwaZulu-Natal continental shelf, although patches of high sardine abundance were recorded near the shore immediately south of Durban. It is clear that during the 2005 survey the sardine run terminated in this region, probably as a result of the nearshore intrusion of warm water from the Agulhas Current. [ABSTRACT FROM AUTHOR]

This paper provides an introduction to, and overview of, the natural phenomenon known as the KwaZulu-Natal sardine run. Previous literature on this topic and hypotheses about the reasons why, and the mechanisms how, the run occurs are briefly synthesised and described. Papers contributing to this suite that detail more recent work on a variety of aspects of the sardine run, ranging from physical oceanography through sardine biology and ecology to socio-economic and ecological consequences, are outlined. Such studies will lead to improved understanding of the factors that regulate the timing and intensity of the run, which may permit predictions of whether it will occur, when fish will arrive on the KZN beaches, and how long it will persist. Such predictions would have substantial benefits for this ecologically and economically important event. [ABSTRACT FROM AUTHOR]

Catches of sardine Sardinops sagax made by the beach-seine fishery off the KwaZulu-Natal (KZN) coast during the annual winter sardine run have been sampled intermittently since 1951, and a substantial amount of data on various biological characteristics of sardine caught off KZN now exists. Information on length frequency distributions, mean caudal length (CL), length-mass relationships, condition factor (CF), age distributions, sex ratio, gonad maturity and diet have been collated and are presented in this paper. Sardine caught off the KZN coast during the past six decades had a mean CL of 17.4 cm (SD 2.0) and have shown a significant increasing trend in mean CL through time; had substantially lower mass-at-length compared to fish that did not participate in the sardine run; have shown two distinct periods of decrease in CF between 1979 and 2005; ranged in age from 1 to 7 years but were numerically dominated by younger fish (1-, 2- or 3-year-olds); had a 1:1 sex ratio and gonads that were predominantly actively developing and undergoing maturation and vitellogenesis; and had a diet dominated by zooplankton, primarily calanoid and harpactacoid copepods and fish eggs. These characteristics, together with some information on meristic and morphological characteristics of sardine caught off KZN, are compared to characteristics of sardine from elsewhere off South Africa's coast to assess the possibility that the former may be a distinct stock or a functionally discrete adult assemblage. Significant differences in characteristics such as CF, vertebral count and body shape were found, supporting the hypothesis that KZN sardine represent a distinct stock or a functionally discrete adult assemblage. However, small sample sizes and plausible alternative explanations for these differences weaken, but do not invalidate, this hypothesis, and further work is needed to answer this question. [ABSTRACT FROM AUTHOR]

The term 'sardine run' is part of the cultural heritage of the South African nation and refers to a natural phenomenon that is well known to the general public but still poorly understood from an ecological perspective. This lack of understanding has stimulated numerous hypotheses, often contradictory, that try to explain why (ultimate factors) and how (proximate factors) the run occurs. Here, we provide a new definition of the term sardine run, review the various hypotheses about the run, and propose ways to test those hypotheses. Where possible, the results of tests that have been conducted thus far are presented and discussed. Our interpretation of the causes is that the sardine run most likely corresponds to a seasonal (early austral winter) reproductive migration of a genetically distinct subpopulation of sardine that moves along the coast from the eastern Agulhas Bank to the coast of KwaZulu-Natal (KZN) as far as Durban and sometimes beyond, in most years if not in every year. This eastward migration is constrained close to the coast by the thermal preference of sardine and the strong and warm offshore Agulhas Current. The run is facilitated by the presence of a band of cooler coastal water and by the occurrence of Natal Pulses and break-away eddies that enable sardine shoals to overcome their habitat restrictions. These enabling mechanisms are most important in the area where the shelf is at its narrowest and feature most prominently off Waterfall Bluff, which has led to the coining of the 'Waterfall Bluff gateway hypothesis'. Based on the collection of eggs off the KZN coast, sardine remain there for several months and their westward, return migration during late winter to spring is nearly always unnoticeable because it likely occurs at depth as the fish avoid warmer surface waters. Years in which the sardine run is not detected by coastal observers could reflect either its real absence due to high water temperatures and/or other hydrographic barriers, or an eastward migration that is farther offshore and possibly deeper and is enabled by hydrographical anomalies. [ABSTRACT FROM AUTHOR]

Abstract: In the 2000s, there were large increases in the numbers of swift terns Thalasseus bergii breeding in the Western and Eastern Cape Provinces of South Africa, which are most plausibly attributed to good recruitment and to an increase in the proportion of mature birds breeding. Numbers increased coincidentally with a greatly increased abundance of two of the main prey species of swift terns, sardine Sardinops sagax and anchovy Engraulis encrasicolus, and remained high as these resources decreased. After 2005, numbers of swift terns breeding in the north and central portions of the Western Cape decreased, whereas numbers breeding farther south in that province increased. This followed displacements to the south and east of sardine and anchovy. In southern Africa, swift terns show low fidelity to breeding localities, which enables a rapid adjustment of the location of breeding to an altered availability of prey. For two seabirds that feed mainly on sardine and anchovy, but once breeding show high fidelity to colonies, African penguin Spheniscus demersus and Cape gannet Morus capensis, proportions breeding in the south and east also increased, but there were substantial decreases in overall numbers breeding in the Western Cape. [Copyright &y& Elsevier]

Hydroacoustic surveys off the coast of South Africa over the early years of the 21st century indicated that both the sardine Sardinops sagax and anchovy Engraulis encrasicolus populations had simultaneously reached record abundances. The South African pelagic fishery is regulated using an Operational Management Procedure (OMP). The OMP in use at that time had been developed using data from the two populations prior to this rapid and substantial increase in abundances. This paper documents the revised assessments that were urgently required to provide a basis to update the OMP. These assessments resulted in a changed perception of the status and productivity of these populations. In particular, estimates of the stock-recruitment relationships and the extent of variation about them, which play a key role in evaluating risk when developing OMPs, altered substantially from estimates derived from earlier assessments. [ABSTRACT FROM AUTHOR]

The bulk ore carrier MV Treasure sank between Robben and Dassen islands off western South Africa in June 2000. Although releasing less oil than the Apollo Sea spill six years earlier, the number of African penguins Spheniscus demersus oiled (approximately 19 000) in the Treasure spill was almost double the number oiled in the Apollo Sea incident. The majority of oiled penguins was collected from Robben Island. The capture, stabilisation and transport of oiled penguins following the Treasure spill were substantially more successful than during the Apollo Sea rescue operation and resulted in an increase in the percentage of oiled penguins that were released back to the wild. In addition to the 19 000 oiled penguins that were caught, 19 500 un-oiled birds (12 345 from Dassen Island) were evacuated to Cape Recife, 800 km to the east, to prevent them from becoming contaminated. The evacuated birds returned rapidly to Dassen Island and many resumed breeding soon after their return. The restoration success (proportion of birds observed at Dassen Island that were recorded breeding) was substantially greater for evacuated birds than for de-oiled birds. Lightly oiled birds that were released without being cleaned had lower survival rates and were less successfully restored into the breeding population than de-oiled birds, especially if more than 5% of their body was covered in oil. Reproduction exerted a greater cost to de-oiled birds than to evacuated birds. A total of 1 787 orphaned chicks was hand-reared at two separate facilities on the mainland and were released at Robben and Dassen islands. The chicks did not necessarily return to the colony at which they were released. The survival rates and restoration success of chicks reared at the two facilities differed, probably as a result of one group being overfed. Despite the death of about 2 000 African penguins in the Treasure spill, and the substantial disturbance that resulted from the rescue operation, the penguin colonies at Robben and Dassen islands increased by 18% and 26% respectively in the year following the spill. This increase was attributed to a significant increase in the biomass of anchovy Engraulis encrasicolus and sardine Sardinops sagax in 2001. These findings highlight the importance of preventing oil spills in the first place, and in the event of a large oil spill, the conservation value of evacuating un-oiled penguins to minimise their risk of becoming contaminated. [ABSTRACT FROM AUTHOR]

The biomass of small pelagic fish species off the coast of South Africa has been monitored since 1984 using hydro-acoustic survey techniques. These time-series of spawner biomass and recruitment estimates form the basis for management of both the South African sardine Sardinops sagax and anchovy Engraulis encrasicolus resources and are central to the setting of annual total allowable catch levels. However, these survey estimates have, for the most part, been treated as relative indices as there are several biases inherent in acoustic survey methodology that remain difficult to quantify. Advances in acoustic technology together with an improved understanding of the major sources of survey errors have enabled estimation of and correction for biases such as receiver saturation, acoustic signal attenuation and target strength. Incorporation of these corrections over the entire time-series has resulted in an improved accuracy of acoustic survey estimates and substantial changes to the biomass estimates of both species, without jeopardising the requirement that the time-series remains comparable throughout its duration. Furthermore, the resultant decrease in the level of uncertainty associated with these abundance estimates has rendered improved utilisation of these resources possible. [ABSTRACT FROM AUTHOR]

Stage-dependent spatial distributions of anchovy Engraulis encrasicolus, sardine Sardinops sagax and round herring Etrumeus whiteheadi eggs over the western Agulhas Bank South Africa were examined from samples collected at a fine-scale (1.8 km) resolution using a continuous underway fish egg sampler (CUFES). Spatial structure in egg distributions was assessed using variograms for three developmental stage groups (early-, middle- and late-stage eggs), and indices of aggregation were also computed for those stage groups. No early- or middle-stage anchovy eggs were collected, but indices of aggregation showed that early-stage sardine eggs were more aggregated than those of round herring, suggesting that adult sardine have a more contiguous distribution during spawning than have round herring. Middle-stage eggs were equally aggregated, whereas late-stage eggs were aggregated differently in all three species. Fitted empirical variograms showed that early-stage sardine eggs have low small-scale variability (nugget effect) (⩽10% of total variance) compared with round herring eggs (⩾50% of total variance). The autocorrelation range of both those species extends to 3.7 km. Middlestage sardine eggs have a low nugget effect (⩽10%) compared with round herring eggs (⩽50%), with autocorrelation ranges of 7.4 km and 5.6 km respectively. Late-stage anchovy eggs have a lower nugget effect (⩽20%) than that of sardine (⩽50%) and round herring (⩾100%) eggs, with autocorrelation ranges of 3.7 km for all three species. The spatial structures of the eggs of the three species were heterogeneous at the sampling scale used, indicating differences in spatial organisation of the adults during spawning. The spatial variability of the eggs of the three species is not well captured using the sampling strategy during current ichthyoplankton surveys in the southern Benguela, in which stations are spaced 18.5 km apart. [ABSTRACT FROM AUTHOR]

Abstract: A particle-tracking individual-based model (IBM) coupled with a 3-D hydrodynamic model was used to investigate how spatial variability in spawning and nursery grounds may influence transport and retention of sardine (Sardinops sagax) eggs and larvae in the southern Benguela ecosystem. A temperature-dependent Bělehrádek development model based on laboratory growth data was used to determine the duration of one egg and two larval stages. Successful transport/retention depended on each particle''s stage of development rather than its age. Results show that recruitment could occur in two distinct nursery areas on the west and south coasts of South Africa. Three viable recruitment ‘systems’ were identified: two are retention-based (spawned and retained on the west coast (WC–WC) or the south coast (SC–SC)) and one is transport-based (spawned on the south coast and transported to the west coast (SC–WC)). In the WC–WC system, the vertical distribution of eggs influenced retention; at intermediate depths of spawning (25–50 m) eggs avoided both offshore Ekman drift and deep cold water. In the SC–SC system, the area of spawning was important; >50% of eggs from the eastern Agulhas Bank (EAB) were retained in the south coast nursery grounds, whereas very few eggs were transported there from west of Cape Agulhas. In the SC–WC system, area of spawning was also important; 40% of the eggs spawned on the western Agulhas Bank (WAB) were transported to the west coast nursery ground. Sardine life history strategy could be divided between two main systems: the west coast system (spawning on the WAB and WC, and recruiting to the WC) and the Agulhas Bank system (spawning on the central and eastern Agulhas Bank, and recruiting to the SC). [Copyright &y& Elsevier]

During austral winter, the southern and eastern coastlines of South Africa witness one of the largest animal migrations on the planet, the KwaZulu-Natal sardine run. Hundreds of millions of temperate sardines, Sardinops sagax, form large shoals that migrate north-east towards the subtropical Indian Ocean. Recent studies have highlighted the role that genetic and environmental factors play in sardine run formation. In the present study, we used massively parallel sequencing to assemble and annotate the first reference transcriptome from the liver cells of South African sardines, and to investigate the functional content and transcriptomic diversity. A total of 1,310,530 transcripts with an N50 of 1578 bp were assembled de novo. Several genes and core biochemical pathways that modulate energy production, energy storage, digestion, secretory processes, immune responses, signaling, regulatory processes, and detoxification were identified. The functional content of the liver transcriptome from six individuals that participated in the 2019 sardine run demonstrated heterogeneous levels of variation. Data presented in the current study provide new insights into the complex function of the liver transcriptome in South African sardines. [ABSTRACT FROM AUTHOR]