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Anderson et al.’s 2019 paper ‘Close Kin Proximity in Yellowfin Tuna (Thunnus albacares) as a Driver of Population Genetic Structure in the Tropical Western and Central Pacific’ provided observations of genetically related individuals among sampled yellowfin tuna. Resampling of some individuals from the original study produced very different sequencing results when compared with the original dataset, one possible explanation of which is cross-contamination among the original samples. Re-analyses produced no indication of strong population structure, including a very slightly and consistent heterozygosity deficit with only one statistically significant pairwise FST value of 0.002. We identified only one pair of genetically similar individuals that could still be an artefact of lingering contamination. These new results therefore support a highly connected population of yellowfin tuna in the study area, although we do not rule out the potential for local adaptation driven by non-observed loci or genetic sub-structure operating at more contemporary scales.

Knowledge of demographic processes and life history strategies is necessary for the conservation and management of endangered sea turtle populations, but it is difficult to ascertain because of the limited accessibility to marine environments that sea turtles use during the different stages of their life cycle. In such cases, molecular genetics and genomic approaches are useful to assess mating systems and operational sex ratios (OSR), which ultimately influence demography. This pilot study used genome-wide single nucleotide polymorphism (SNP) genetic markers for exploring kinship and mating systems in sea turtles where major obstacles prevent a comprehensive assessment in the wild. We sampled 217 young hawksbill turtles (Eretmochelys imbricata) of unknown parentage that had originally been collected locally from seven nests and were being temporarily kept in captivity by Treasure Island Ltd as part of its captive rearing conservation project at Bounty and Treasure Islands, Fiji, in the South Pacific. The raw dataset comprised 13,573 SNPs, of which we retained 639 SNPs for parentage and relatedness analyses. Our findings from seven different pairs of parents suggest a 1:1 male:female OSR and demonstrate that genome-wide SNP genotyping approaches can be used to infer OSR. Knowledge of OSR can help evaluate the magnitude of the impact of warming temperatures and consequent feminisation in sea turtles. Our approach can complement or substitute field observation of breeding males and nesting females when logistical or budgetary constraints prevent observation of OSR in wild sea turtle populations. This approach allows inference of OSR. Protection of beaches with a higher number of pairs of parents should be prioritised to increase genetic resilience. Conservation actions in rookeries with a female-skewed OSR should be prioritised to address population declines in the long run.

The cultivation of oysters has a significant historical background in the South Pacific region. The cultivation of pearls has been a significant source of livelihood for numerous island nations. Despite the significant cultural, dietary, and subsistence value of bivalve molluscs among Pacific Islanders, there has been limited advancement in the aquaculture of edible oysters in To enable a comprehensive assessment of the viability of cultivating edible oysters in Fiji, an estimation was conducted pertaining to the growth rate of mangrove oysters Magallana bilineata. A total of 105 oyster spat were cultured in Laucala Bay, Suva, Fiji, over the course of one year, from January 25th, 2021 to January 26th, 2022. The investigation documented exponential growth in oysters, with measurements of 87.3 ± 1.0 mm in length, 67.4 ± 0.7 mm in width, 49.8 ± 0.6 mm in depth, and 104.90 ± 22.6 g in weight. The findings of the study indicated the occurrence of positive isometric growth in relations to weight, length, width, and depth. The observed survival rate was 94%. The growth rates observed in oyster farming in Fiji exhibit similarities to those documented in other geographical locations, thereby providing a favourable indication for the progress of oyster aquaculture in the region.

The abundance and identification of microplastics were investigated for the first time in the gills and soft tissues of freshwater mussels (Batissa violacea) harvested from five rivers in Fiji. Microplastics were found in 100% of the mussels sampled from all the rivers. The average site concentration varied from 2.78 ± 0.40 to 6.84 ± 0.89 microplastics per gram of dry weight. The overall average concentration was 5.93 ± 0.39 microplastics per mussel. This is concerning because these mussels, commonly known as kai, are an important source of protein and income for many people. Microplastic concentration in mussels was significantly dependent on sampled location but evenly distributed among tissues. The dominant size of microplastics was <0.4 mm, representing 52 and 50% of all microplastic in gills and soft tissue respectively. Fourier transform infrared spectroscopy in attenuated total reflectance (FTIR–ATR) was used for polymer identification of the isolated microplastics. Nylon was the most dominant type of polymer followed by polyolefins. Freshwater mussels in Fiji are an important component of the artisanal fishery, the diet of local communities and an emerging export commodity. These results showed that freshwater mussels are ingesting microplastics in their natural environment and, thus, they represent a potential health problem for human consumption.

The current management of the bigeye tuna (Thunnus obesus) fishery in the Western and Central Pacific Ocean (WCPO) is based on a “single-stock” paradigm. We investigated the spatial and temporal distribution of the neutral and potentially adaptive genetic diversity in samples collected from waters near Micronesia, Marshall, Phoenix and Gilbert Islands and French Polynesia using genotyping by sequence and single nucleotide polymorphisms (SNP). Analysis of 144 individuals and 2,682 SNP did not provide any substantial evidence to challenge the current assumption of panmixia in the WCPO using putatively neutral loci. However, there was a signal of potentially adaptive divergence (FST range 0.11–0.24) of samples collected in 2013 in the exclusive economic zone of the Phoenix Islands, possibly because of exposure to differing selective constraints. The geographic origin of these tuna remains to be determined, as the samples originate from tagging cruises that sample large schools of tuna, and some of those tuna have subsequently showed substantial movement. We highly recommend further studies involving large sample sizes of larvae and young-of-the-year across the region and over multiple years to uncover the underlying processes that are potentially driving adaptive divergence and to infer any biological significance it may have on conservation and management of tropical bigeye tuna fishery stock.

Yellowfin tuna, Thunnus albacares, is one of the most important seafood commodities in the world. Despite its great biological and economic importance, conflicting evidence arises from classical genetic and tagging studies concerning the yellowfin tuna population structure at local and global oceanic scales. Access to more powerful and cost effective genetic tools would represent the first step towards resolving the population structure of yellowfin tuna across its distribution range. Using a panel of 939 neutral Single Nucleotide Polymorphisms (SNPs), and the most comprehensive data set of yellowfin samples available so far, we found genetic differentiation among the Atlantic, Indian and Pacific oceans. The genetic stock structure analysis carried out with 33 outlier SNPs, putatively under selection, identified discrete populations within the Pacific Ocean and, for the first time, also within the Atlantic Ocean. Stock assessment approaches that consider genetic differences at neutral and adaptive genomic loci should be routinely implemented to check the status of the yellowfin tuna, prevent illegal trade, and develop more sustainable management measures.

Delineating the stock structure of highly-mobile, wide-ranging fishes subject to exploitation is a challenging task, yet one that is fundamental to optimal fisheries management. A case in point are stocks of skipjack tuna (Katsuwonus pelamis), yellowfin tuna (Thunnus albacares), bigeye tuna (Thunnus obesus) and albacore tuna (Thunnus alalunga) in the Pacific Ocean, which support important commercial, artisanal, subsistence, and recreational fisheries, and contribute roughly 70 % of global commercial tuna catches. Although some spatial and temporal structuring is recognised within these stocks, growing evidence from a range of approaches suggests that the stock structure of each tuna species is more complex than is currently assumed in both stock assessment and climate change models, and in management regimes. In a move towards improving understanding of the stock structure of skipjack, yellowfin, bigeye and South Pacific albacore tunas in the Pacific Ocean, an international workshop was held in Nouméa, New Caledonia, in October 2018 to review knowledge about their movement and stock structure in the region, define and discuss the main knowledge gaps and uncertainties concerning their stock structure, and develop biological sampling approaches to support the provision of this information. Here, we synthesise the discussions of this latter component. For each tuna species, we identify several general sampling considerations needed to reduce uncertainty, including i) the need for broadscale sampling in space, ideally covering each species’ distribution, targeting adults in spawning condition and adopting a phased approach; ii) the need for temporally-repeated sampling of the same geographical areas to assess stability in observed patterns over time; iii) the need to resolve patterns in spatial dynamics, such as those resulting from movements associated with the seasonal extensions of poleward flowing currents, from underlying stock structure, iv) the importance of adop

The bull shark (Carcharhinus leucas) is a large, mobile, circumglobally distributed high trophic level predator that inhabits a variety of remote islands and continental coastal habitats, including freshwater environments. Here, we hypothesize that the barriers to dispersal created by large oceanic expanses and deep-water trenches result in a heterogeneous distribution of the neutral genetic diversity between island bull shark populations compared to populations sampled in continental locations connected through continuous coastlines of continental shelves. We analyzed 1,494 high-quality neutral single nucleotide polymorphism (SNP) markers in 215 individual bull sharks from widespread locations across the Indian and Pacific Oceans (South Africa, Indonesia, Western Australia, Papua New Guinea, eastern Australia, New Caledonia, and Fiji). Genomic analyses revealed partitioning between remote insular and continental populations, with the Fiji population being genetically different from all other locations sampled (FST = 0.034–0.044, P < 0.001), and New Caledonia showing marginal isolation (FST = 0.016–0.024, P < 0.001; albeit based on a small sample size) from most sampled sites. Discriminant analysis of principal components (DAPC) identified samples from Fiji as a distinct cluster with all other sites clustering together. Genetic structure analyses (Admixture, fastStructure and AssignPOP) further supported the genetic isolation of bull sharks from Fiji, with the analyses in agreement. The observed differentiation in bull sharks from Fiji makes this site of special interest, as it indicates a lack of migration through dispersal across deep-water trenches and large ocean expanses.

Skipjack tuna (Katsuwonus pelamis) has historically been considered panmictic at the ocean basin scale because of the species’ life history and substantial absolute population size. However, recent advances in population genomics have enabled scientists to demonstrate population structure in other species that were likewise traditionally assumed to be panmictic. Accordingly, we used DArTseq, a proprietary platform of reduced-representation genome sequencing developed by Diversity Arrays Technology (DArTech) to genotype 222 skipjack tuna from 9 sample groups collected across 6 exclusive economic zones (EEZs) and over 6 years in the tropical Western and Central Pacific Ocean. This is one of the most fine-scale population genetics assessments of skipjack tuna to date. We found several statistically significant pairwise FST comparisons using purportedly neutral loci, but very little indication of structure based on observed and expected heterozygosity, effective population size, a Mantel test, AMOVA, numerous genetic clustering and population assignment tests, and exploration of correlation with oceanographic features. Significant pairwise FST values were often shallow and resulted in uncertainty about their biological significance. Furthermore, a test of the hypothesis that the geographic and temporal distribution of the potentially adaptive genetic diversity may depict cryptic fine scale structure using two different outlier detection methods, could not reject panmixia based on estimates of fixation indices and two clustering software. Our results support the presence of a single population of skipjack tuna in the tropical Western and Central Pacific Ocean, but highly recommend the expansion of the study area, in latitude, longitude, and seasonality, before drawing any global conclusions.

Delineating the stock structure of highly-mobile, wide-ranging fishes subject to exploitation is a challenging task, yet one that is fundamental to optimal fisheries management. A case in point are stocks of skipjack tuna (Katsuwonus pelamis), yellowfin tuna (Thunnus albacares), bigeye tuna (Thunnus obesus) and albacore tuna (Thunnus alalunga) in the Pacific Ocean, which support important commercial, artisanal, subsistence, and recreational fisheries, and contribute roughly 70 % of global commercial tuna catches. Although some spatial and temporal structuring is recognised within these stocks, growing evidence from a range of approaches suggests that the stock structure of each tuna species is more complex than is currently assumed in both stock assessment and climate change models, and in management regimes. In a move towards improving understanding of the stock structure of skipjack, yellowfin, bigeye and South Pacific albacore tunas in the Pacific Ocean, an international workshop was held in Nouméa, New Caledonia, in October 2018 to review knowledge about their movement and stock structure in the region, define and discuss the main knowledge gaps and uncertainties concerning their stock structure, and develop biological sampling approaches to support the provision of this information. Here, we synthesise the discussions of this latter component. For each tuna species, we identify several general sampling considerations needed to reduce uncertainty, including i) the need for broadscale sampling in space, ideally covering each species’ distribution, targeting adults in spawning condition and adopting a phased approach; ii) the need for temporally-repeated sampling of the same geographical areas to assess stability in observed patterns over time; iii) the need to resolve patterns in spatial dynamics, such as those resulting from movements associated with the seasonal extensions of poleward flowing currents, from underlying stock structure, iv) the importance of adop

Microplastics (MP) in the marine environment are widely reported. However, MP occurrence in some geographical areas such as from Small Island Developing States (SIDS) is missing. The main aim of this study was to assess MP levels in the urban coastal environment of Suva, the capital of the Republic of Fiji. Microplastics were measured from surface water, sediments and fish gastrointestinal tracts (GI) from three sites adjacent to Suva. In addition, an evaluation on the contribution from the local sewage treatment plant to MP levels was undertaken. In general, low levels of MP in water and sediments were detected, but significant differences were observed among sites. The sewage treatment plant was shown to contribute to MP levels in sediment but not in water. Species ingestion of MP was high and associated with MP in sediments. Fibres and fragments were the predominant type of MP, and fifteen different polymers were detected, with higher percentages of polyethylene, latex and polypropylene. In conclusion, MP were found in Suva coastal environment and these MP were associated to land based human activities.

Fourteen juvenile scalloped hammerhead sharks (Sphyrna lewini; SHS) were captured between November and December 2014 in the Rewa Delta in Fiji, and assessed for intestinal microflora characterisation using 16S rRNA amplicon sequencing by Illumina Miseq. The microbial population revealed a fluctuating dominance between the Enterobacteriaceae and Vibrionaceae families, namely Citrobacter and Photobacterium spp. Other related marine operational taxonomic units were closely related to Afipia felis, Chloroflexus aggregans, Psychrobacter oceani, Pontibacter actiniarum and Shigella sonnei. Two sharks had distinctive profiles that were dominated by known pathogens, namely Aeromonas salmonicida and Klebsiella pneumonia. The presence of a Methanosaeta species, and of Shigella and Psychrobacter, would suggest sewage contamination because of a spill that occurred on the 6 of December 2014. This study successfully establishes a baseline for future research.

Decades of study have attempted to describe the population genetic structure of tuna species, including a significant number of studies focused on yellowfin (Thunnus albacares). Very often, analyses do not agree on how many stocks exist per species, and where their boundaries lie. This is possibly because studies vary so much across numerous variables, such as the geographic range covered in a study, the number and type of genetic markers used, and the number of sites sampled. This meta-analysis of 22 yellowfin studies attempts to standardize and isolate the key variables to assessing the strength of correlation with the resulting number of populations a study observes. Overall trends across the studies suggest that genetic markers with a high probability of being under selective constraints, or are located in coding regions, are more or less likely to sense population structure depending on geographic range coverage. Alternatively, when assessing neutral or non-coding genomic regions, studies also benefit from (i) more polymorphic and numerous loci, and (ii) increasing the number of sampling locations analyzed, both of which increase the statistical power of an analysis. Finally, trends were clearest when groups of accurately identified coding and non-coding, or neutral and non-neutral, studies were further subdivided by whether they used mitochondrial or nuclear DNA, confirming that analyses of the two genomes should not be compared directly. Our meta-analysis provides concrete support for long held assumptions about the relationships between population genetics study parameters and outcomes, and provides guidance for future studies on how to maximize the likelihood of identifying population structure where it exists.

The oceanic early life histories of three species of tropical anguillid glass eels, namely Anguilla marmorata, Anguilla megastoma and Anguilla obscura, recruiting to Viti Levu, Fiji Islands, in the western South Pacific, were studied using otolith microstructures of 94 individuals. A. megastoma had the shortest leptocephalus duration, age at recruitment and metamorphosis stage (mean ± s.d. 104.7 ± 7.2, 141.3 ± 8.7 and 36.6 ± 8.5 days respectively), followed by A. marmorata (September-October recruitment peak: 113.0 ± 11.9, 115.1 ± 8.3 and 39.2 ± 11.1 days respectively; April recruitment peak: 152.2 ± 13.5, 154.0 ± 12.5 and 38.9 ± 10.1 days respectively) and A. obscura (118.0 ± 10.2, 168.4 ± 16.5 and 49.6 ± 12.5 days respectively). A. obscura also had the shortest oceanic glass eel duration of (12.2 ± 3.4 days), followed by both peaks of A. marmorata (23.3 ± 3.2 and 20.2 ± 3.3 days) and A. megastoma (20.7 ± 6.7 days). Otolith increment rates during the leptocephalus stage did not differ significantly among the three species, but there were significant differences between the leptocephalus duration and metamorphosis stage of A. megastoma compared with A. marmorata and A. obscura, as well as in the oceanic glass eel duration of A. obscura compared with A. marmorata and A. megastoma. There were also significant differences in the age at recruitment among all three species. Back-calculated hatch dates suggest separate peak seasonal spawning periods for each of the three species.

Sharks constitute one of the most threatened clades (Selachimorpha) of all marine fish, and substantial management efforts are required to help the recovery of their populations worldwide. Despite its significant impact on population dynamics and conservation, sharks’ reproductive and philopatric behavior has received little attention in fisheries management. The scalloped hammerhead shark (Sphyrna lewini), an endangered species listed on the IUCN’s Red List and on the CITES’ Appendix II, is an apex predator that potentially exhibits female philopatry to mating grounds. We reconstructed, for the first time in an open ocean species, the relationship among 166 juvenile individuals caught in a recently discovered aggregation of the Rewa Delta, Fiji, and determined the sample population’s mating system using 6,437 SNPs. Using two software packages, COLONY2 and SNP PEDIGREE, results revealed very high consistency in the identification of full and half sib. Moreover, COLONY2 allowed us to identify an equal breeding sex ratio for each cohort analyzed for this population (1.04:1; 1.02:1), as well as several cases of multiple paternity and numerous matings of the same male with different females suggesting polygynandry for this species. These findings reveal additional information about the complex life history of the scalloped hammerhead shark.

Coastal and estuarine systems provide critical shark habitats due to their relatively high productivity and shallow, protected waters. The young (neonates, young-of-the-year, and juveniles) of many coastal shark species occupy a diverse range of habitats and areas where they experience environmental variability, including acute and seasonal shifts in local salinities and temperatures. Although the location and functioning of essential shark habitats has been a focus in recent shark research, there is a paucity of data from the South Pacific. In this study, we document the temporal and spatial distribution, age class composition, and environmental parameters of young bull sharks (Carcharhinus leucas) in the Rewa, Sigatoka, and Navua Rivers, Fiji's three largest riverine systems. One hundred and seventy-two young bull sharks were captured in fisheries-independent surveys from January 2016 to April 2018. The vast majority of the captures were neonates. Seasonality in patterns of occurrence of neonate individuals suggests a defined parturition period during summer. Environmental parameters between the Rewa and the Sigatoka River differed significantly, as did the recorded young bull sharks abundance. According to the surveys, young bull sharks occur in all three rivers with the Rewa River likely representing essential habitat for newly born bull sharks. These results enhance the understanding of bull shark ecology in Fiji and provide a scientific basis for the implementation of local conservation strategies that contribute to the protection of critical habitats.

Albacore tuna (Thunnus alalunga) has a distinctly complex life history in which juveniles and adults separate geographically but at times inhabit the same spaces sequentially. The species also migrates long distances and presumably experiences varied regimes of physical stress over a lifetime. There are, therefore, many opportunities for population structure to arise based on stochastic differences or environmental factors that promote local adaptation. However, with the extent of mobility consistently demonstrated by tagged individuals, there is also a strong argument for panmixia within an ocean basin. It is important to confirm such assumptions from a population genetics standpoint for this species in particular because albacore is one of the principal market tuna species that sustains massive global fisheries and yet is also a slow-growing temperate tuna. Consequently, we used 1,837 neutral SNP loci and 89 loci under potential selection to analyze population genetic structure among five sample groups collected from the western and central South Pacific. We found no evidence to challenge panmixia at neutral loci, but strong indications of structuring at adaptive loci. One population sample, from French Polynesia in 2004, was particularly differentiated. Unfortunately, the current study cannot infer whether the divergence is geographic or temporal, or possibly caused by sample distribution. We encourage future studies to include potentially adaptive loci and to continue fine-scale observations within an ocean basin, and not to assume genome-wide panmixia.

Recent studies argue for the presence of genetic population structure in yellowfin tuna (Thunnus albacares) in all oceans. However, the persistence of family groups has never been considered a viable mechanism of structure, nor has it been measured. We analyzed genetic similarity among 280 yellowfin tunas from seven population samples collected in the Western and Central Pacific Ocean (WCPO) using single nucleotide polymorphisms, and found population structure that was significantly explained by the presence of 96 individuals involved in 332 half or full sib dyads. We found significantly higher mean and median relatedness between individuals from the same sample groups, compared to individuals from different groups; and high relatedness between individuals caught at the same fish-aggregating device (FAD) than between those caught in the wider exclusive economic zone (EEZ). Alternatively, the EEZ of the Federated States of Micronesia may harbor exceptionally large numbers of close kin. We conclude that yellowfin directly school with related individuals through their first year, and at least demonstrate tightly overlapping regional fidelity as adults. These results may explain, to some extent, the patterns of population genetic structure recently observed in yellowfin tuna.