CITES-listed sharks remain among the top species in the contemporary fin trade

Mercury bioaccumulation in thresher sharks from the eastern tropical Pacific: Influences of body size, maturation stage, and feeding habitat

Sharks, as top order predators, provide a guidance on how contaminants such as mercury bioaccumulate in marine environments. This study assessed the bioaccumulation of mercury (total mercury, THg) in the muscle, liver, red blood cells (RBC), and plasma of pelagic and bigeye thresher sharks (Alopias pelagicus and A. superciliosus) from eastern tropical Pacific. Additionally, the concentration of methylmercury (MeHg) in muscle was also determined to assess risks for human consumption. For both species, muscle THg concentrations (4.05 ± 2.15 and 4.12 ± 1.84 μg g^-1 dry weight for pelagic and bigeye thresher shark) were higher than that in other tissues. THg concentrations for all tissues were significantly correlated with precaudal length, with higher accumulation rates after maturity in pelagic than bigeye thresher sharks, suggesting an associated dietary shift at maturation. Correlations among tissues in both species suggested similar transportation and distribution patterns in internal tissues. The δ¹³C values in muscle, RBC and plasma suggested that habitat shifts influenced Hg accumulation, whereas trophic position, estimated by δ¹⁵N values, had limited effects on patterns of Hg bioaccumulation. Diet shifts towards prey more cephalopods that content higher Hg than small fishes (large fishes: 1.77 μg g^-1; cephalopods: 0.66 μg g^-1 and small fishes 0.48 μg g^-1, dry weight) increased Hg accumulation rates in adult pelagic thresher sharks. Concentrations of MeHg in the muscle of both thresher shark (3.42 ± 1.68 μg g^-1 in A. pelagicus and 3.78 ± 2.13 μg g^-1 in A. superciliosus) exceeded the recommended levels for human consumption. This research provides insight into the factors influencing mercury bioaccumulation in thresher sharks, which are essential for the management and conservation of these species.

Vertical space use and thermal range of the great hammerhead (Sphyrna mokarran), (Rüppell, 1837) in the western North Atlantic

The great hammerhead (Sphyrna mokarran) is a highly mobile, large-bodied shark primarily found in coastal-pelagic and semi-oceanic waters across a circumtropical range. It is a target or by-catch species in multiple fisheries, and as a result, rapid population declines have occurred in many regions. These declines have contributed to the species being assessed as globally critically endangered on the IUCN Red List. Although conservation and management measures have yielded promising results in some regions, such as the United States, high levels of at-vessel and post-release mortality remain a major concern to the species population recovery. This examined the vertical space use and thermal range of pop-off archival satellite-tagged S. mokarran in the western North Atlantic Ocean, expanding the understanding of the ecological niche of this species and providing insight into by-catch mitigation strategies for fisheries managers. The results showed that S. mokarran predominantly used shallow depths (75% of records <30 m) and had a narrow temperature range (89% of records between 23 and 28°C). Individual differences in depth use were apparent, and a strong diel cycle was observed, with sharks occupying significantly deeper depths during the daytime. Furthermore, two individuals were confirmed pregnant with one migrating from the Bahamas to South Carolina, U.S.A., providing further evidence of regional connectivity and parturition off the U.S. East Coast. The findings suggest that S. mokarran may be vulnerable to incidental capture in the western North Atlantic commercial longline fisheries due to substantial vertical overlap between the species and the gear. The results can be incorporated into conservation and management efforts to develop and/or refine mitigation measures focused on reducing the by-catch and associated mortality of this species, which can ultimately aide S. mokarran population recovery in areas with poor conservation status.

Effect of body size, feeding ecology and maternal transfer on mercury accumulation of vulnerable silky shark Carcharhinus falciformis in the eastern tropical pacific

The silky shark Carcharhinus falciformis is a large pelagic species distributed in the global oceans and was recently listed as "Vulnerable" by the IUCN because of its decline in population due to overfishing. As an apex predator, the silky shark can accumulate elevated quantities of mercury (Hg), posing a potential risk to its remaining population. In this study, total Hg (THg) concentrations were determined in silky shark muscle, liver, dermis, red blood cells (RBC) and plasma sampled from the eastern tropical Pacific, and δ¹⁵N values were measured to explore the influence of feeding ecology on Hg accumulation. The highest THg concentrations were in muscle (7.81 ± 6.70 μg g^-1 dry weight (dw) or 2.14 ± 1.83 μg g^-1 wet weight (ww)) and liver (7.88 ± 10.22 μg g^-1 dw or 4.66 ± 6.04 μg g^-1 ww) rather than dermis, RBC and plasma. The THg concentrations in all tissue types were significantly correlated with fork length and showed faster accumulation rates after maturity. Maternal THg transfer was observed in silky sharks with embryos having 33.16% and 1.98% in muscle and liver compared with their respective mothers. The potentially harmful THg concentrations in silky shark tissues and embryos may lead to health problems of sharks and consumers. THg concentrations were negatively correlated with δ¹⁵N values for all tissues, indicating likely baseline variations in δ¹⁵N values that reflect changes in the foraging habitats or regions of silky sharks with size or age. Lastly, strong correlations were observed among THg concentrations of all tissue types, indicating that nonlethal sampling of muscle and dermis tissue can be used effectively to quantify THg concentration of other internal tissues.

Shark Fishing vs. Conservation: Analysis and Synthesis

The expanding shark fin market has resulted in intensive global shark fishing and with 90% of teleost fish stocks over-exploited, sharks have become the most lucrative target. As predators, they have high ecological value, are sensitive to fishing pressure, and are in decline, but the secretive nature of the fin trade and difficulties obtaining relevant data, obscure their true status. In consumer countries, shark fin is a luxury item and rich consumers pay high prices with little interest in sustainability or legal trade. Thus, market demand will continue to fuel the shark hunt and those accessible to fishing fleets are increasingly endangered. Current legal protections are not working, as exemplified by the case of the shortfin mako shark, and claims that sharks can be sustainably fished under these circumstances are shown to be misguided. In the interests of averting a catastrophic collapse across the planet’s aquatic ecosystems, sharks and their habitats must be given effective protection. We recommend that all sharks, chimaeras, manta rays, devil rays, and rhino rays be protected from international trade through an immediate CITES Appendix I listing. However, a binding international agreement for the protection of biodiversity in general is what is needed.

Are we there yet? Benchmarking low-coverage nanopore long-read sequencing for the assembling of mitochondrial genomes using the vulnerable silky shark Carcharhinus falciformis

Background

Whole mitochondrial genomes are quickly becoming markers of choice for the exploration of within-species genealogical and among-species phylogenetic relationships. Most often, ‘primer walking’ or ‘long PCR’ strategies plus Sanger sequencing or low-pass whole genome sequencing using Illumina short reads are used for the assembling of mitochondrial chromosomes. In this study, we first confirmed that mitochondrial genomes can be sequenced from long reads using nanopore sequencing data exclusively. Next, we examined the accuracy of the long-reads assembled mitochondrial chromosomes when comparing them to a ‘gold’ standard reference mitochondrial chromosome assembled using Illumina short-reads sequencing.

Results

Using a specialized bioinformatics tool, we first produced a short-reads mitochondrial genome assembly for the silky shark C. falciformis with an average base coverage of 9.8x. The complete mitochondrial genome of C. falciformis was 16,705 bp in length and 934 bp shorter than a previously assembled genome (17,639 bp in length) that used bioinformatics tools not specialized for the assembly of mitochondrial chromosomes. Next, low-pass whole genome sequencing using a MinION ONT pocket-sized platform plus customized de-novo and reference-based workflows assembled and circularized a highly accurate mitochondrial genome in the silky shark Carcharhinus falciformis. Indels at the flanks of homopolymer regions explained most of the dissimilarities observed between the ‘gold’ standard reference mitochondrial genome (assembled using Illumina short reads) and each of the long-reads mitochondrial genome assemblies. Although not completely accurate, mitophylogenomics and barcoding analyses (using entire mitogenomes and the D-Loop/Control Region, respectively) suggest that long-reads assembled mitochondrial genomes are reliable for identifying a sequenced individual, such as C. falciformis, and separating the same individual from others belonging to closely related congeneric species.

Conclusions

This study confirms that mitochondrial genomes can be sequenced from long-reads nanopore sequencing data exclusively. With further development, nanopore technology can be used to quickly test in situ mislabeling in the shark fin fishing industry and thus, improve surveillance protocols, law enforcement, and the regulation of this fishery. This study will also assist with the transferring of high-throughput sequencing technology to middle- and low-income countries so that international scientists can explore population genomics in sharks using inclusive research strategies. Lastly, we recommend assembling mitochondrial genomes using specialized assemblers instead of other assemblers developed for bacterial and/or nuclear genomes.

International socioeconomic inequality drives trade patterns in the global wildlife market

The wildlife trade is a major cause of species loss and a pathway for disease transmission. Socioeconomic drivers of the wildlife trade are influential at the local scale yet rarely accounted for in multinational agreements aimed at curtailing international trade in threatened species. In recent decades (1998-2018), approximately 421,000,000 threatened (i.e., CITES-listed) wild animals were traded between 226 nations/territories. The global trade network was more highly connected under conditions of greater international wealth inequality, when rich importers may have a larger economic advantage over poorer exporting nations/territories. Bilateral trade was driven primarily by socioeconomic factors at the supply end, with wealthier exporters likely to supply more animals to the global market. Our findings suggest that international policies for reducing the global wildlife trade should address inequalities between signatory states, possibly using incentive/compensation-driven programs modeled after other transnational environmental initiatives (e.g., REDD+).

Genomics versus mtDNA for resolving stock structure in the silky shark (Carcharhinus falciformis)

Conservation genetic approaches for elasmobranchs have focused on regions of the mitochondrial genome or a handful of nuclear microsatellites. High-throughput sequencing offers a powerful alternative for examining population structure using many loci distributed across the nuclear and mitochondrial genomes. These single nucleotide polymorphisms are expected to provide finer scale and more accurate population level data; however, there have been few genomic studies applied to elasmobranch species. The desire to apply next-generation sequencing approaches is often tempered by the costs, which can be offset by pooling specimens prior to sequencing (pool-seq). In this study, we assess the utility of pool-seq by applying this method to the same individual silky sharks, Carcharhinus falciformis, previously surveyed with the mtDNA control region in the Atlantic and Indian Oceans. Pool-seq methods were able to recover the entire mitochondrial genome as well as thousands of nuclear markers. This volume of sequence data enabled the detection of population structure between regions of the Atlantic Ocean populations, undetected in the previous study (inter-Atlantic mitochondrial SNPs FST values comparison ranging from 0.029 to 0.135 and nuclear SNPs from 0.015 to 0.025). Our results reinforce the conclusion that sampling the mitochondrial control region alone may fail to detect fine-scale population structure, and additional sampling across the genome may increase resolution for some species. Additionally, this study shows that the costs of analyzing 4,988 loci using pool-seq methods are equivalent to the standard Sanger-sequenced markers and become less expensive when large numbers of individuals (>300) are analyzed.

Mercury and arsenic in processed fins from nine of the most traded shark species in the Hong Kong and China dried seafood markets: The potential health risks of shark fin soup

Shark fin is one of Asia's most valued dried seafood products, with over 80 shark species traded in Hong Kong [HK]. We analyzed processed shark fins from mainland China and HK markets (n = 267) for mercury, methyl‑mercury, and arsenic, to inform consumers, policy makers and public health officials on the health risks of ingesting fins from nine of the most common shark species in the fin trade. Fins from all species frequently exceed Hg limits established by HK authorities. Most of the mercury found is in the form of methyl‑mercury (69.0 ± 33.5%). Five species surpass methyl‑mercury PTWIs and blue shark fins can exceed inorganic arsenic BMDL_0.5. Species-of-origin was a significant predictor of heavy metal concentrations, with higher mercury concentrations associated with coastal sharks and lower arsenic levels found with increasing shark trophic level. Species-specific labeling would help consumers avoid shark fin products that pose the highest health risk.

Species composition of the largest shark fin retail-market in mainland China

Species-specific monitoring through large shark fin market surveys has been a valuable data source to estimate global catches and international shark fin trade dynamics. Hong Kong and Guangzhou, mainland China, are the largest shark fin markets and consumption centers in the world. We used molecular identification protocols on randomly collected processed fin trimmings (n = 2000) and non-parametric species estimators to investigate the species composition of the Guangzhou retail market and compare the species diversity between the Guangzhou and Hong Kong shark fin retail markets. Species diversity was similar between both trade hubs with a small subset of species dominating the composition. The blue shark (Prionace glauca) was the most common species overall followed by the CITES-listed silky shark (Carcharhinus falciformis), scalloped hammerhead shark (Sphyrna lewini), smooth hammerhead shark (S. zygaena) and shortfin mako shark (Isurus oxyrinchus). Our results support previous indications of high connectivity between the shark fin markets of Hong Kong and mainland China and suggest that systematic studies of other fin trade hubs within Mainland China and stronger law-enforcement protocols and capacity building are needed.

Using DNA Barcoding to Investigate Patterns of Species Utilisation in UK Shark Products Reveals Threatened Species on Sale

Many shark populations are in decline, primarily due to overexploitation. In response, conservation measures have been applied at differing scales, often severely restricting sales of declining species. Therefore, DNA barcoding was used to investigate sales of shark products in fishmongers and fish and chip takeaways in England. The majority of samples were identified as Spiny Dogfish (Squalus acanthias), which is critically endangered in the Northeast Atlantic and landings have been prohibited (although there is evidence of importation of this species). Significant differences in the species sold between retailer types were also identified, suggesting differing supply chains. The results underline issues surrounding the use of 'umbrella' sales terms where many species are labelled with the same designation. This denies consumer choice as purchasers cannot easily avoid declining species or those associated with high levels of toxicants. For the first time in Europe, minibarcodes are also used to identify species from dried shark fins. Despite a small sample size, analysis of UK wholesaler fins identified threatened sharks, including the endangered and CITES listed Scalloped Hammerhead (Sphyrna lewini). This highlights the global nature of the damaging trade in endangered shark species, in which Europe and the UK have a continuing role.

Multiplex real-time PCR assay to detect illegal trade of CITES-listed shark species

The Convention on International Trade in Endangered Species of Wild Fauna and Flora (CITES) is a multilateral environmental agreement to ensure that the international trade of threatened species is either prohibited (Appendix I listed species) or being conducted legally, sustainably, and transparently (Appendix II listed species). Twelve threatened shark species exploited for their fins, meat, and other products have been listed under CITES Appendix II. Sharks are often traded in high volumes, some of their products are visually indistinguishable, and most importing/exporting nations have limited capacity to detect illicit trade and enforce the regulations. High volume shipments often must be screened after only a short period of detainment (e.g., a maximum of 24 hours), which together with costs and capacity issues have limited the use of DNA approaches to identify illicit trade. Here, we present a reliable, field-based, fast (<4 hours), and cost effective ($0.94 USD per sample) multiplex real-time PCR protocol capable of detecting nine of the twelve sharks listed under CITES in a single reaction. This approach facilitates detection of illicit trade, with positive results providing probable cause to detain shipments for more robust forensic analysis. We also provide evidence of its application in real law enforcement scenarios in Hong Kong. Adoption of this approach can help parties meet their CITES requirements, avoiding potential international trade sanctions in the future.