Biology subjects

Jabado, R. W.

Publications and source records attributed to Jabado, R. W..

6 recordsLinked to original sources

bioRxiv2025

Mapping Risk and Resilience Across Indo-Pacific Reefs with Shark Genomescapes

Overfishing has severely depleted marine populations worldwide, including within protected areas. Illegal and unreported fishing are major contributors to this decline. Large-bodied apex predators such as sharks are among the most affected, with overfishing causing dramatic species declines and ecosystem destabilization due to trophic downgrading. Key barriers to effective marine conservation and management include: Data deficiencies that hinder population benchmarks and impact assessments, limited surveillance, allowing illegal fisheries to disproportionately affect apex predators, and insufficient capacity in vulnerable nations to monitor and protect species within their waters. Our study addresses these challenges through a novel genomic framework that enables assessment of shark population diversity and health, while also improving fisheries traceability by detecting instances of illegal fishing across the Indian and Pacific Oceans. We present the Reefshark Genomescape, the first genome-wide reference database for Indo-Pacific reef sharks, an assessment of genetic diversity, structure, and connectivity of two key species across their Indo-Pacific range and geographic assignment of fished individuals using population-specific genetic signatures. We show that grey reef shark (Carcharhinus amblyrhynchos) populations exhibit high genetic diversity, strong population structure, and elevated Fst values, with previously unknown connectivity between the central and western Indian Ocean and clear isolation of populations in the Andaman Sea. In contrast, silvertip sharks (Carcharhinus albimarginatus) display high connectivity, but show genomic signals of declining population health, supporting a reassessment of their IUCN status. Using supervised machine learning with Monte Carlo cross-validation, we assigned geographic origins to fished grey reef sharks with 96% accuracy. These findings provide critical insights into population structure, connectivity, and health of two ecologically important reef shark species, while establishing a robust method for assigning geographic origin. We anticipate this framework will support regional conservation assessments and targeted management. Moreover, by enabling the identification of fishing hotspots and detection of IUU fishing, it lays the groundwork for a broader traceability system in marine ecosystems. Much like the landmark elephant ivory tracing study, our approach has the potential to transform marine conservation globally. Graphical AbstractWe developed the Reefshark Genomescape, a genomic framework for assessing shark population health and fisheries traceability across the Indo-Pacific. Genome-wide data from grey reef and silvertip sharks revealed contrasting patterns, unexpected connectivity, and genomic signals of decline. Geographic assignment of fished individuals reached 96% accuracy, enabling detection of illegal fishing and identification of hotspots. This framework strengthens regional management, supports IUCN reassessments, and lays the foundation for global marine traceability systems. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=175 SRC="FIGDIR/small/676358v2_ufig1.gif" ALT="Figure 1"> View larger version (84K): org.highwire.dtl.DTLVardef@1eafd3aorg.highwire.dtl.DTLVardef@96ebd1org.highwire.dtl.DTLVardef@541d02org.highwire.dtl.DTLVardef@3c9ca2_HPS_FORMAT_FIGEXP M_FIG C_FIG

genomics↗

bioRxiv2024

Population structure and genetic diversity of the Critically Endangered bowmouth guitarfish (Rhina ancylostomus) in the Northwest Indian Ocean

The bowmouth guitarfish (Rhina ancylostomus) is a unique and understudied species of wedgefish with a distribution spanning the Indo-Pacific Oceans. Due to targeted and bycatch fisheries, this species is experiencing serious declines across its range. It is now considered among the most threatened species of elasmobranch. Despite this, species-specific management is limited, particularly around primary fishing hotspots. This is in part due to knowing very little about fundamental population processes. Here, we combine mitochondrial and single nucleotide polymorphism (SNP) data to carry out the first genetic assessment of R. ancylostomus across the Northwest Indian Ocean. We detect genetic differentiation across the northwest range, shaped by both oceanographic barriers and intrinsic dispersal constraints, and uncover a cline in genetic variation from east to west. These findings emphasise the importance of maintaining habitat connectivity while also identifying regions that may require heightened protection. In doing so, our study provides a critical baseline for conservation planning of R. ancylostomus and highlights the value of genomic data in elasmobranch conservation.

evolutionary biology↗

bioRxiv2021

Post-2020 Kunming 30% target can easily protect all endemic sharks and rays in the Western Indian Ocean and more

Sharks and rays are possibly the most threatened Class of marine fishes and their declines can be halted if protected areas are optimised to benefit these species. We identify spatial priorities for all 63 endemic sharks and rays in the marine biodiversity hotspot, the Western Indian Ocean (WIO). Collectively, while the WIO nations currently surpass the 10% Aichi ocean protection target, this amounts to a dismal protection of only 1.57% of each species distribution range. We show that the entire ranges of all endemics can be achieved by protecting 11% of EEZs of WIO nations, well within reach of the new 30% of oceans by 2030 target. Regional management bodies exist, which if taken advantage of to implement shark and ray management, provide opportunities to implement more efficient management across the region. We recommend key management actions to implement and explicit incentivisation of international cooperation in the post-2020 biodiversity framework. Science for SocietyThe past decade has seen massive growth in the establishment of marine protected areas (MPAs), driven by the Aichi biodiversity target of protecting 10% of all ocean areas. This expansion of MPAs, however, has largely occurred in areas residual to extractive uses, often coinciding with less threatened areas of lower conservation value. This coming decade will see a further push to ensure 30% of the oceans are protected by 2030. It is important to understand how existing and future MPAs should be placed to benefit threatened biodiversity. Currently this is unclear for sharks and rays, comprising a species group that is the most evolutionarily distinct vertebrate radiation in the world and also one of the most threatened. We identify both regional and national conservation priorities for expanding marine protected areas to benefit all 63 endemic sharks and rays occurring in the Western Indian Ocean region. We find that the region has already exceeded the 10% ocean protection target, but this amounts to an average of only 1.57% protection of the distribution ranges of these species. We show that protecting the top 10% priority sites will conserve almost half of the geographic range of each species yet require only 1.16% of the total EEZ - a tiny fraction of the 30% by 2030 target. We also show that regional collaboration among all nations can result in more spatially efficient conservation priorities. We recommend that the post-2020 biodiversity framework needs to explicitly incentivise regional cooperation between nations to efficiently achieve urgent targets and maximise benefits to biodiversity.

ecology↗

bioRxiv2020

Catch composition and life history characteristics of sharks and rays (Elasmobranchii) landed in the Andaman and Nicobar Islands, India.

ABSTRACTThe scientific literature on the diversity and biological characteristics of sharks and rays from the Andaman and Nicobar Archipelago fishing grounds is scarce and compromised by species misidentifications. We carried out systematic fish landing surveys in South Andamans from January 2017 to May 2018, a comprehensive and cost-effective way to fill this data gap. We sampled 5,742 individuals representing 57 shark and ray species. Of the 36 species of sharks and 21 species of rays landed, six species of sharks - Loxodon macrorhinus, Carcharhinus amblyrhynchos, Sphyrna lewini, Carcharhinus albimarginatus, Carcharhinus brevipinna, and Paragaelus randalli dominated landings and comprised 83.35 % of shark landings, while three species of rays were most abundant – Pateobatis jenkinsii, Himantura leoparda and H. tutul, and comprised 48.82 % of ray landings. We report size extensions for seven shark species as well as three previously unreported ray species, increasing the known diversity for the islands and for India. For sharks, mature individuals of small-bodied species (63.48 % males of total landings of species less than 1.5 m total length) and immature individuals of larger species (84.79 % males of total landings of species larger than 1.5 m total length) were mostly landed; whereas for rays, mature individuals were predominantly landed (80.71 % males of total landings) likely reflecting differences in fishing patterns as well as habitat preferences and life history stages across species. Further, juvenile sharks and gravid females were landed in large quantities which might be unsustainable in the long-term. Landings were female-biased in C. amblyrhynchos, S. lewini and P. jenkinsii, and male-biased in L. macrorhinus and H. leoparda, indicating either spatio-temporal or gear specific sexual segregation in these species. Understanding these nuances - the composition and biology of sharks and rays landed in different fisheries seasonally will inform future conservation and fishery management measures for these species in the Andaman and Nicobar Islands.View Full Text

zoology↗

bioRxiv2019

The thin edge of the wedge: extremely high extinction risk in wedgefishes and giant guitarfishes

O_LIThe process of understanding the rapid global decline of sawfishes (Pristidae) has revealed great concern for their relatives, the wedgefishes (Rhinidae) and giant guitarfishes (Glaucostegidae), not least because all three families are targeted for their high-value and internationally-traded white fins.\nC_LIO_LIThe objective of this study was to assess the extinction risk of all 10 wedgefishes and 6 giant guitarfishes by applying the International Union for Conservation of Nature (IUCN) Red List Categories and Criteria, and to summarise their biogeography and habitat, life history, exploitation, use and trade, and population status.\nC_LIO_LIWedgefishes and giant guitarfishes have overtaken sawfishes as the most imperilled marine fish families globally, with all but one of the 16 species facing an extremely high risk of extinction due to a combination of traits - limited biological productivity, presence in shallow waters overlapping with some of the most intense and increasing coastal fisheries in the world, and over-exploitation in target and bycatch fisheries driven by the need for animal protein and food security in coastal communities and trade in meat and high-value fins.\nC_LIO_LITwo species with very restricted ranges, the Clown Wedgefish (Rhynchobatus cooki) of the Indo-Malay Archipelago and the False Shark Ray (Rhynchorhina mauritaniensis) of Mauritania may be very close to extinction.\nC_LIO_LIOnly the Eyebrow Wedgefish (Rhynchobatus palpebratus) is not assessed as Critically Endangered, due to it occurring primarily in Australia where fishing pressure is low, and some management measures are in place. Australia represents a lifeboat for the three wedgefish and one giant guitarfish species occurring there.\nC_LIO_LITo conserve populations and permit recovery, a suite of measures will be required which will need to include species protection, spatial management, bycatch mitigation, and harvest and international trade management, all of which will be dependent on effective enforcement.\nC_LI

ecology↗

bioRxiv2018

Phylogenomics and species delimitation of mobulid rays reveals cryptic diversity and a new species of manta ray

Practical biodiversity conservation relies on delineation of biologically meaningful units, particularly with respect to global conventions and regulatory frameworks. Traditional approaches have typically relied on morphological observation, resulting in artificially broad delineations and non-optimal species units for conservation. More recently, species delimitation methods have been revolutionised with High-Throughput Sequencing approaches, allowing study of diversity within species radiations using genome-wide data. The highly mobile elasmobranchs, manta and devil rays (Mobula spp.), are threatened globally by targeted and bycatch fishing pressures resulting in recent protection under several global conventions. However, a lack of global data, morphological similarities, a succession of recent taxonomic changes and ineffectual traceability measures combine to impede development and implementation of a coherent and enforceable conservation strategy. Here, we generate genome-wide Single Nucleotide Polymorphism (SNP) data from among the most globally and taxonomically representative set of mobulid tissues. The resulting phylogeny and delimitation of species units represents the most comprehensive assessment of mobulid diversity with molecular data to date. We find a mismatch between current species classifications, and optimal species units for effective conservation. Specifically, we find robust evidence for an undescribed species of manta ray in the Gulf of Mexico and show that species recently synonymised are reproductively isolated. Further resolution is achieved at the population level, where cryptic diversity is detected in geographically distinct populations, and indicates potential for future traceability work determining regional location of catch. We estimate the optimal species tree and uncover substantial incomplete lineage sorting, where standing variation in extinct ancestral populations is identified as a driver of phylogenetic uncertainty, with further conservation implications. Our study provides a framework for molecular genetic species delimitation that is relevant to wide-ranging taxa of conservation concern, and highlights the potential for genomic data to support effective management, conservation and law enforcement strategies.

genomics↗