Phylogeography of sharks and rays: a global review based on life history traits and biogeographic partitions

PeerJ, Год журнала: 2023, Номер 11, С. e15396 - e15396

Опубликована: Июнь 1, 2023

Considerable research exists on the life history traits, evolutionary history, and environmental factors that shape population genetic structure of marine organisms, including sharks rays. Conservation concerns are particularly strong for this group as they highly susceptible to anthropogenic stressors due a combination traits late maturity low fecundity. Here, we provide review synthesis global phylogeography We examined existing data 40 species belonging 17 genera 19 rays 11 genera. Median joining haplotype networks were constructed each mtDNA cytochrome C oxidase subunit I (COI), an Analysis Molecular Variance (AMOVA) was conducted understand patterns diversity across three major ocean basins—the Indian, Atlantic Pacific Oceans. Haplotype showed very shallow coalescence in most species, finding previously reported teleosts. Star topologies predominant among while complex mutational predominated rays, attribute extremely limited dispersal early Population structuring varied amongst groups, apparently differences reproductive philopatry, site fidelity, pelagic habitat, migratory habits, ability. In comparison reef-associated demersal semi lower levels between within basins. As expected, there is variation taxa but also some broad can guide management conservation strategies.

Язык: Английский

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Connections Across Open Water: A Bi‐Organelle, Genomics‐Scale Assessment of Atlantic‐Wide Population Dynamics in a Pelagic, Endangered Apex Predator Shark (Isurus oxyrinchus)

Evolutionary Applications, Год журнала: 2025, Номер 18(1)

Опубликована: Янв. 1, 2025

Large-bodied pelagic sharks are key regulators of oceanic ecosystem stability, but highly impacted by severe overfishing. One such species, the shortfin mako shark (Isurus oxyrinchus), a globally widespread, migratory predator, has undergone dramatic population reductions and is now Endangered (IUCN Red List), with Atlantic Ocean in particular assessed fishery managers as overfished need urgent, improved management attention. Genomic-scale assessments for this apex predator species have not been previously available to inform planning; thus, we investigated genetics across using bi-organelle genomics approach. Complete mitochondrial genome (mitogenome) sequences genome-wide SNPs from distributed revealed contrasting patterns structure marker types. Consistent species' long-distance capabilities, showed high connectivity panmixia overall. In contrast, there was matrilineal genetic Northern Southern Hemispheres, suggesting at least large regional-scale female philopatry. Linkage disequilibrium network analysis indicated that makos possess chromosomal inversion occurs wide, feature may be informative evolutionary investigations concerning adaptations global history iconic species. Mitogenome diversity compared other elasmobranchs mitogenome level, nuclear two other, SNPs. These results support efforts on versus Hemisphere scales preserve their distinctiveness. The overall comparative findings provide baseline future monitoring diversity, called United Nations Convention Biological Diversity, cautious optimism regarding health recovery potential if further declines can halted.

Язык: Английский

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Informing the spatial management of Silky Shark (Carcharhinus falciformis) in the Eastern Pacific Ocean

Reviews in Fish Biology and Fisheries, Год журнала: 2025, Номер unknown

Опубликована: Апрель 30, 2025

Язык: Английский

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Phylogeography of reef fishes across the line Islands: uncovering population structure in a data deficient region

Marine Biology, Год журнала: 2025, Номер 172(7)

Опубликована: Июнь 2, 2025

Язык: Английский

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Genomic insights into the historical and contemporary demographics of the grey reef shark

Heredity, Год журнала: 2022, Номер 128(4), С. 225 - 235

Опубликована: Март 16, 2022

Язык: Английский

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Genomic Assessment of Global Population Structure in a Highly Migratory and Habitat Versatile Apex Predator, the Tiger Shark (Galeocerdo cuvier)

Journal of Heredity, Год журнала: 2021, Номер 112(6), С. 497 - 507

Опубликована: Авг. 9, 2021

Abstract Understanding the population dynamics of highly mobile, widely distributed, oceanic sharks, many which are overexploited, is necessary to aid their conservation management. We investigated global genomics tiger sharks (Galeocerdo cuvier), a circumglobally apex predator displaying remarkable behavioral versatility in its diet, habitat use (near coastal, coral reef, pelagic), and individual movement patterns (spatially resident long-distance migrations). genotyped 242 from 10 globally distributed locations at more than 2000 single nucleotide polymorphisms. Although this species often conducts massive distance migrations, data show strong genetic differentiation both neutral (FST = 0.125–0.144) candidate outlier loci 0.570–0.761) between western Atlantic Indo-Pacific suggesting potential for adaptation environments specific these regions. Within regions, there was mixed support northern southern hemispheres Atlantic, none structure within Indian Ocean. Notably, results demonstrate low level remote Hawaiian archipelago compared with Ocean 0.003–0.005, P < 0.01). Given concerns about biodiversity loss marine ecosystem impacts caused by overfishing midst rapid environmental change, our suggest it imperative that international fishery management prioritize evolutionary genetically differentiated populations unique predator. Furthermore, we targeted attention based on precautionary perspective.

Язык: Английский

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Indo‐Pacific origins of silky shark fins in major shark fin markets highlights supply chains and management bodies key for conservation

Conservation Letters, Год журнала: 2020, Номер 14(3)

Опубликована: Дек. 8, 2020

Abstract The silky shark is the second most common in Southeast Asia's dried fin markets and managed Atlantic Ocean by International Commission for Conservation of Tuna (ICCAT) three Indo‐Pacific regional fisheries management organizations (RMFOs). reports ∼ 7% global landings but there a moratorium on export their fins. During 4‐year period (2014–2017) we used genetic differentiation observed between sharks to assess contribution individuals fins randomly obtained two largest world, Hong Kong Guangzhou, China ( N = 604). We did not detect any either market despite robust sampling effort with an estimated 99.8% these markets. These findings indicate that supply chains Guangzhou primarily originate are mainly under purview Regional Fisheries Management Organizations. Our results consistent possibility ICCAT parties have achieved high compliance ban sharks. suggest research monitoring improvements could enhance our understanding trade enable better management.

Язык: Английский

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Cross ocean-basin population genetic dynamics in a pelagic top predator of high conservation concern, the oceanic whitetip shark, Carcharhinus longimanus

Conservation Genetics, Год журнала: 2024, Номер 25(3), С. 677 - 695

Опубликована: Янв. 13, 2024

Язык: Английский

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Genomic population structure of great hammerhead sharks (Sphyrna mokarran) across the Indo-Pacific

Marine and Freshwater Research, Год журнала: 2024, Номер 75(6)

Опубликована: Апрель 10, 2024

Context Currently, little information exists describing the population structure of great hammerhead sharks (Sphyrna mokarran) in Australian waters. Aims This study used single nucleotide polymorphisms to investigate fine-scale S. mokarran across Indo-Pacific. Methods DNA was extracted from 235 individuals six locations and a Red Sea outgroup. Population parameters were calculated visualised test structuring locations. Key results No observed for However, occurred all when compared Conclusions Findings suggest stock is most likely found Results provide key understanding broad range movements help define scale management required preserve genetic diversity this species. The between Australia indicates limited gene flow movement. Implications indicate that large-scale could be occurring facilitate mixing. Future research focusing on individual tagging corroborate would highly beneficial determine how far (and often) are dispersing, note where cross-jurisdictional management, including neighbouring regions Indo-West Pacific–Oceania region, critical.

Язык: Английский

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

BMC Genomics, Год журнала: 2022, Номер 23(1)

Опубликована: Апрель 22, 2022

Whole mitochondrial genomes are quickly becoming markers of choice for the exploration within-species genealogical and among-species phylogenetic relationships. Most often, 'primer walking' or 'long PCR' strategies plus Sanger sequencing low-pass whole genome using Illumina short reads used assembling chromosomes. In this study, we first confirmed that can be sequenced from long nanopore data exclusively. Next, examined accuracy long-reads assembled chromosomes when comparing them to a 'gold' standard reference chromosome short-reads sequencing.Using specialized bioinformatics tool, produced assembly silky shark C. falciformis with an average base coverage 9.8x. The complete was 16,705 bp in length 934 shorter than previously (17,639 length) tools not MinION ONT pocket-sized platform customized de-novo reference-based workflows circularized highly accurate Carcharhinus falciformis. Indels at flanks homopolymer regions explained most dissimilarities observed between (assembled reads) each assemblies. Although completely accurate, mitophylogenomics barcoding analyses (using entire mitogenomes D-Loop/Control Region, respectively) suggest reliable identifying individual, such as falciformis, separating same individual others belonging closely related congeneric species.This study confirms With further development, technology test situ mislabeling fin fishing industry thus, improve surveillance protocols, law enforcement, regulation fishery. This will also assist transferring high-throughput middle- low-income countries so international scientists explore population genomics sharks inclusive research strategies. Lastly, recommend assemblers instead other developed bacterial and/or nuclear genomes.

Язык: Английский

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