Biology subjects

Guinet, C.

Publications and source records attributed to Guinet, C..

8 recordsLinked to original sources

bioRxiv2026

Inter-population connectivity of southern elephant seals and the likely intra-species transmission pathways of high pathogenicity avian influenza

High Pathogenicity Avian Influenza (HPAI) H5N1 clade 2.3.4.4b has spread beyond birds to affect seals across the Southern Ocean and sub-Antarctic region, with southern elephant seals (Mirounga leonina) particularly devastated. The virus, likely introduced via spillover from infected migratory birds, has killed tens of thousands of adult seals and pups throughout most of their range, though Macquarie Island remains unaffected so far. We used twenty years of elephant seal movement data from the southern Indian and Pacific oceans to assess whether seal-to-seal transmission could spread HPAI H5N1 between breeding colonies, despite the vast distances separating them (Marion Island, Iles Crozet, Iles Kerguelen, and Macquarie Island). There was substantial overlap in seals at-sea distributions during their winter post-moult trips, when seals travel for weeks at average speeds of 3.5 km/h. Two transmission pathways were examined: (1) terrestrial "stepping stone" routes, where infected seals could pass the virus between colonies during short intervals to remain infectious were feasible from Marion Island to Kerguelen but not from Kerguelen to Macquarie Island; and (2) at-sea encounters between seals, which occurred frequently enough to enable transmission. The findings suggest that once established at Macquarie Island, the virus could potentially spread further to New Zealands sub-Antarctic islands and mainland New Zealand. While seal-to-seal transmission appears possible, we conclude this is unlikely. Nonetheless, understanding at-sea contact rates enhances knowledge of H5N1 epidemiology and demonstrates the value of combining long-term population monitoring with movement data to understand wildlife disease dynamics.

ecology↗

bioRxiv2026

Dispersal, adaptation and persistence of H5N1 in the sub-Antarctic and Antarctica

High pathogenicity avian influenza virus (HPAIV) H5N1 reached the sub-Antarctic and Antarctica in 2023, subsequently spreading to remote locations within this region where it had devastating impacts on seal, penguin and albatross populations. The threat to marine wildlife over this broad area exemplifies the need to understand H5N1 long-distance dispersal and evolution. We obtained 104 novel viral genomic sequences from samples that we collected at South Georgia, Kerguelen, Crozet, Prince Edward, Falklands/Malvinas Islands and the Antarctic Peninsula in a region spanning 8,000 kilometers. Using recent phylogeographic modeling advances we show that H5N1 spread encompassed numerous transmission events between distant locations, accumulating mammalian-adaptive mutations in the process. Seals are the most affected species, but we reveal that the long-distance eastward virus dispersal better aligns with the long-distance movements of large petrels and albatrosses. The risk of H5N1 endemisation, dispersal to other locations and ongoing evolution are highly concerning.

microbiology↗

bioRxiv2025

Mass mortality events in the sub-Antarctic Indian Ocean caused by long-distance circumpolar spread of highly pathogenic avian influenza H5N1 clade 2.3.4.4b

Since 2020, the outbreak of highly pathogenic avian influenza (HPAI) virus clade 2.3.4.4b has turned into the largest documented panzootic to date, reaching the sub-Antarctic region and Antarctica via the tip of South America in 2023. Here, we describe its recent arrival into the Indian Ocean sub-Antarctic archipelagos of Crozet and Kerguelen, where we first detected the virus in October 2024 in dead southern elephant seals, king penguins, gentoo penguins, brown skuas and kelp gulls. While the panzootic is ongoing, it has already caused unprecedented and alarming mortalities of southern elephant seals. We collected brain swabs from various seal and bird carcasses, subsequently isolated the virus and obtained 25 novel HPAI H5N1 clade 2.3.4.4b sequences. Our phylogenetic and phylogeographic analyses show that there have been independent introductions of the virus to Crozet and Kerguelen, from the distant South Georgia Islands in the Southern Atlantic, and not from the more nearby coasts of South Africa. Our results point to a year-long gap in genomic surveillance in the south polar region, obscuring how HPAI H5N1 clade 2.3.4.4b is spreading in the sub-Antarctic and illustrating the difficulties in tracking pathogen dispersal in the region. Locally, our phylogenetic analyses show that the virus is transmitted between different species. Moreover, our serological analyses show that some southern elephant seal pups had mounted an anti-H5 antibody response. With the spread to Crozet and Kerguelen, HPAI H5N1 2.3.4.4b is moving ever closer to Australia and New Zealand, which currently remain free from infections with this strain, and represents a major threat to the sub-Antarctic wildlife. Our results provide key elements to enable stakeholders to anticipate the arrival and spread of the virus in remote areas of critical wildlife conservation concerns.

microbiology↗

bioRxiv2023

Spies of the deep: an animal-borne active sonar and bioluminescence tag to characterise mesopelagic prey size and behaviour in distinct oceanographic domains

Mesopelagic fish, a central component of marine trophic networks, play a fundamental role in marine ecosystems. However, as they live in highly inaccessible environments, little information is currently available on their ecology, especially on the influence of oceanographic parameters on their distribution. The emergence of biologging technologies has made it possible to use deep-diving predators as bio-samplers of their environment in under-sampled regions. In this work, we deployed an innovati ve miniaturised sonar tag that combines active acoustics with high-resolution GPS, pressure, movement and light sensors on Southern elephant seals, a deep-diving predator feeding on mesopelagic prey. Seals were also equipped with oceanographic tags, allowing us to explore the functional relationships between oceanographic parameters, distribution and ecology of mesopelagic prey targeted by seals and the seals foraging behaviour. We highlighted strong vertical differences in prey characteristics and behaviour, with larger, more evasive and less bioluminescent prey in deeper waters. Moreover, prey encountered in warmer waters were found deeper, were more evasive and displayed a more marked diel vertical migration behaviour compared to prey encountered in colder waters, suggesting that prey accessibility and characteristics differ according to oceanographic domains. This study highlights the usefulness of the sonar-bioluminescence tag to infer mesopelagic prey distribution and habitat when deployed on deep-diving predators such as elephant seals.

ecology↗

bioRxiv2023

Sealing the deal - Antarctic fur seals' active hunting tactics to capture small evasive prey revealed by miniature sonar tags

Fine-scale interactions between predators and their prey are key factors determining both predators hunting efficiency and prey survival. The ability to adopt hunting tactics that minimise the risk of triggering an escape reaction from the prey is crucial for an efficient foraging, and is contingent to detection capabilities and locomotor performances of both predators and prey. In this study, we aimed at describing fine-scale predator-prey interactions in female Antarctic fur seals (Arctocephalus gazella, AFS hereafter), a small pinniped foraging on evasive prey. Our objectives were (1) to describe characteristics of prey targeted by female AFS to assess prey selection in this species; (2) to estimate the timing of prey detection by AFS and prey reaction to the AFS approach, and (3) to describe AFS hunting tactics, i.e. fine-scale AFS posture and swimming activity during prey capture events. In fine, we seek to better understand AFSs efficiency at exploiting their small prey. To do so, we used data recorded by a newly developed sonar tag that combines active acoustics with ultra-high resolution movement sensors to study simultaneously the fine-scale behaviour of both AFS and prey during predator-prey interactions. We analysed more than 1200 prey capture events in eight female AFS and showed that AFS and their prey detect each other at the same time, i.e. 1-2 seconds before the strike, forcing AFS to display reactive fast-moving chases to capture their prey. Prey detection was consistently followed by bursts of accelerations from AFS, which lasted longer for evasive prey. We suggest that the ability of AFS to perform bursts of accelerations may allow them to target evasive prey. This active hunting tactics is likely very energy-consuming but might be compensated by the consumption of highly nutritious prey.

ecology↗

bioRxiv2023

A matter of life and death - Hunting tactics of Southern elephant seals (Mirounga leonina) and anti-predatory behaviours of their prey

For air-breathing marine predators that must save energy during dives, the ability to adopt hunting tactics that minimise the risk of triggering an escape reaction from the prey is crucial for an efficient foraging. Female Southern elephant seals (Mirounga leonina, SES hereafter) forage on small mesopelagic prey that they must hunt almost continuously to meet their high-energy requirements. Here we aimed at understanding how these large time-limited deep-divers can efficiently exploit their small sized prey. To do so, we used data recorded by a new biologger, the sonar tag, deployed on SES during their post-breeding foraging trips. This tag combines an active acoustic sensor with ultra-high-resolution movement and bioluminescence sensors, offering a unique opportunity to simultaneously describe SES hunting tactics to capture their prey and defence mechanisms employed by prey. We analysed more than 5,800 prey capture events in nine SES and show that they adopt a "stalking" hunting behaviour allowing them to get as close as possible to their prey before attacking. The ability of SES to adopt stealth approach tactics, minimising the risk of initiating a flight reaction from their prey, might be a key factor in the success of this far-ranging generalist predator.

ecology↗

bioRxiv2021

Long distance runners in the marine realm: New insights into genetic diversity, kin relationships and social fidelity of Indian Ocean male sperm whales

BackgroundAdult male sperm whales (Physeter macrocephalus) are long distance runners of the marine realm, feeding in high latitudes and mating in tropical and subtropical waters where stable social groups of females and immatures live. Several areas of uncertainty still limit our understanding of their social and breeding behaviour, in particular concerning the potential existence of geographical and/or social fidelities. In this study, using underwater observation and sloughed-skin sampling, we looked for male social fidelity to a specific matrilineal sperm whale group near Mauritius. In addition, we captured a wider picture of kin relationships and genetic diversity of male sperm whales in the Indian Ocean thanks to biopsies of eight unique individuals taken in a feeding ground near the Kerguelen and Crozet Archipelagos (Southern Indian Ocean). ResultsTwenty-six adult male sperm whales, of which 13 were sampled, were identified when socializing with adult females and immatures off Mauritius. Long-term underwater observation recorded several noteworthy social interactions between adult males and adult females and/or immatures. We identified seven possible male recaptures over different years (three by direct observation, and four at the gametic level), which supports a certain level of male social fidelity. Several first- and second-degree kin relationships were highlighted between members of the social unit and adult males, confirming that some of the adult males observed in Mauritian waters are reproductive. Male social philopatry to their natal group can be excluded, as none of the males sampled shared the haplotype characteristic of the matrilineal social group. Mitochondrial DNA control region haplotype and nucleotide diversities calculated over the 21 total male sperm whales sampled were similar to values found by others in the Indian Ocean. ConclusionsOur study strongly supports the existence of some levels of male sperm whale social fidelity, not directed to their social group of birth, in the Indian Ocean. Males sampled in breeding and feeding grounds are linked by kin relationships. Our results support a model of male mediated gene flow occurring at the level of the whole Indian Ocean, likely interconnected with large-scale geographical fidelity to ocean basin, and a small-scale social fidelity to matrilineal social groups.

ecology↗

bioRxiv2019

Killer whale genomes reveal a complex history of recurrent admixture and vicariance

Reconstruction of the demographic and evolutionary history of populations assuming a consensus tree-like relationship can mask more complex scenarios, which are prevalent in nature. An emerging genomic toolset, which has been most comprehensively harnessed in the reconstruction of human evolutionary history, enables molecular ecologists to elucidate complex population histories. Killer whales have limited extrinsic barriers to dispersal and have radiated globally, and are therefore a good candidate model for the application of such tools. Here, we analyse a global dataset of killer whale genomes in a rare attempt to elucidate global population structure in a non-human species. We identify a pattern of genetic homogenisation at lower latitudes and the greatest differentiation at high latitudes, even between currently sympatric lineages. The processes underlying the major axis of structure include high drift at the edge of species range, likely associated with founder effects and allelic surfing during post-glacial range expansion. Divergence between Antarctic and non-Antarctic lineages is further driven by ancestry segments with up to four-fold older coalescence time than the genome-wide average; relicts of a previous vicariance during an earlier glacial cycle. Our study further underpins that episodic gene flow is ubiquitous in natural populations, and can occur across great distances and after substantial periods of isolation between populations. Thus, understanding the evolutionary history of a species requires comprehensive geographic sampling and genome-wide data to sample the variation in ancestry within individuals.

evolutionary biology↗