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Robeck TR, Haghani A, Fei Z, Lindemann DM, Russell J, Herrick KES, Montano G, Steinman KJ, Katsumata E, Zoller JA, Horvath S. Multi-tissue DNA methylation aging clocks for sea lions, walruses and seals. Commun Biol 2023; 6:359. [PMID: 37005462 PMCID: PMC10067968 DOI: 10.1038/s42003-023-04734-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2022] [Accepted: 03/21/2023] [Indexed: 04/04/2023] Open
Abstract
Age determination of wild animals, including pinnipeds, is critical for accurate population assessment and management. For most pinnipeds, current age estimation methodologies utilize tooth or bone sectioning which makes antemortem estimations problematic. We leveraged recent advances in the development of epigenetic age estimators (epigenetic clocks) to develop highly accurate pinniped epigenetic clocks. For clock development, we applied the mammalian methylation array to profile 37,492 cytosine-guanine sites (CpGs) across highly conserved stretches of DNA in blood and skin samples (n = 171) from primarily three pinniped species representing the three phylogenetic families: Otariidae, Phocidae and Odobenidae. We built an elastic net model with Leave-One-Out-Cross Validation (LOOCV) and one with a Leave-One-Species-Out-Cross-Validation (LOSOCV). After identifying the top 30 CpGs, the LOOCV produced a highly correlated (r = 0.95) and accurate (median absolute error = 1.7 years) age estimation clock. The LOSOCV elastic net results indicated that blood and skin clock (r = 0.84) and blood (r = 0.88) pinniped clocks could predict age of animals from pinniped species not used for clock development to within 3.6 and 4.4 years, respectively. These epigenetic clocks provide an improved and relatively non-invasive tool to determine age in skin or blood samples from all pinniped species.
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Affiliation(s)
- Todd R Robeck
- Zoological Operations, SeaWorld Parks and Entertainment, Orlando, FL, USA.
- Species Preservation Lab, SeaWorld Parks and Entertainment, San Diego, CA, USA.
| | - Amin Haghani
- Department of Human Genetics, Gonda Research Center, David Geffen School of Medicine, Los Angeles, CA, USA
- Altos Labs, San Diego, USA
| | - Zhe Fei
- Department of Biostatistics, School of Public Health, University of California-Los Angeles, Los Angeles, CA, USA
| | | | | | | | - Gisele Montano
- Zoological Operations, SeaWorld Parks and Entertainment, Orlando, FL, USA
- Species Preservation Lab, SeaWorld Parks and Entertainment, San Diego, CA, USA
| | - Karen J Steinman
- Species Preservation Lab, SeaWorld Parks and Entertainment, San Diego, CA, USA
| | | | - Joseph A Zoller
- Department of Biostatistics, School of Public Health, University of California-Los Angeles, Los Angeles, CA, USA
| | - Steve Horvath
- Department of Human Genetics, Gonda Research Center, David Geffen School of Medicine, Los Angeles, CA, USA.
- Altos Labs, San Diego, USA.
- Department of Biostatistics, School of Public Health, University of California-Los Angeles, Los Angeles, CA, USA.
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New migration and distribution patterns of Atlantic walruses ( Odobenus rosmarus rosmarus) around Nunavik (Québec, Canada) identified using Inuit Knowledge. Polar Biol 2021; 44:1833-1845. [PMID: 34720377 PMCID: PMC8550009 DOI: 10.1007/s00300-021-02920-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2019] [Revised: 07/16/2021] [Accepted: 07/19/2021] [Indexed: 12/04/2022]
Abstract
Environmental changes are affecting the Arctic at an unprecedented rate, but limited scientific knowledge exists on their impacts on species such as walruses (Odobenus rosmarus). Inuit Traditional and Local Ecological Knowledge (Inuit TEK/LEK) held by Inuit walrus harvesters could shed light on walrus ecology and related environmental changes. Our main objective was to study spatial and temporal changes in Atlantic walrus (Odobenus rosmarus rosmarus) distribution in Nunavik (northern Québec, Canada) using Inuit TEK/LEK. To do so, we documented the knowledge and observations of 33 local hunters and Elders as part of a larger project on Atlantic walruses in Nunavik. We first gathered information on changes in Inuit land use patterns and harvesting practices through time and space, which was a crucial step to avoid potential biases in interpreting local observations on walrus distribution. We found that walrus hunters are now covering smaller hunting areas over shorter time periods, reducing in space and time their observations of Atlantic walruses around Nunavik. While clearly taking these limitations into account, we learned from interviews that some areas abandoned by Atlantic walruses in the past were now being re-occupied. Importantly, Atlantic walruses, which migrate following the melting ice, are now traveling along the eastern coast of Nunavik one month earlier, suggesting that Atlantic walrus migration has changed due to variations in sea-ice coverage around Nunavik. Our study not only highlighted important changes in Atlantic walrus distribution and migration in Nunavik, but also sheds light on the importance of documenting temporal and spatial changes in Inuit land use patterns and harvesting practices to understand the ecology of Arctic species using Inuit Knowledge.
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Damage of the ocular surface from indoor suntanning-Insights from in vivo confocal microscopy. Cont Lens Anterior Eye 2021; 44:101438. [PMID: 33840575 DOI: 10.1016/j.clae.2021.03.005] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2020] [Revised: 03/12/2021] [Accepted: 03/22/2021] [Indexed: 12/25/2022]
Abstract
PURPOSE To evaluate the ocular surface at the microstructural level of adults who habitually undertake indoor-suntanning utilising in vivo confocal microscopy. METHODS Participants were prospectively recruited and enrolled into either а study group (n = 75) with a history UV indoor tanning, or a control group (n = 75) with no prior history of artificial tanning. The study group participated in voluntary tanning sessions performed with standard equipment and maintained their usual routine for eye protection. Slit lamp biomicroscopy and in vivo confocal microscopy were performed at baseline before undertaking a series of suntanning sessions (10 sessions of 10 min duration over a 15 day period), within three days after the last session, and four weeks after the last session. Control group participants were examined at baseline and 8 weeks later and did not participate in tanning sessions. RESULTS All participants were female with a mean age of 25 ± 4 years and 24 ± 4 years in the study and control groups, respectively. No clinically significant changes were observed in either group over time using slit lamp biomicroscopy (all p ≥ 0.05), however, statistically significant differences were observed between the study and the control group for all corneal layers imaged using confocal microscopy (all p ≤ 0.03). Characteristic cystic conjunctival lesions with dark centres and bright borders were observed in 95% of the study group before and in 100% after the suntanning sessions. CONCLUSION Indoor suntanning resulted in statistically significant microstructural changes in the cornea and the bulbar conjunctiva that are undetectable with slit lamp biomicroscopy.
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Henri DA, Martinez-Levasseur LM, Weetaltuk S, Mallory ML, Gilchrist HG, Jean-Gagnon F. Inuit knowledge of Arctic Terns (Sterna paradisaea) and perspectives on declining abundance in southeastern Hudson Bay, Canada. PLoS One 2020; 15:e0242193. [PMID: 33201915 PMCID: PMC7671561 DOI: 10.1371/journal.pone.0242193] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2020] [Accepted: 10/28/2020] [Indexed: 11/18/2022] Open
Abstract
The Arctic Tern (Sterna paradisaea; takatakiaq in Inuttitut) breeds in the circumpolar Arctic and undertakes the longest known annual migration. In recent decades, Arctic Tern populations have been declining in some parts of their range, and this has been a cause of concern for both wildlife managers and Indigenous harvesters. However, limited scientific information is available on Arctic Tern abundance and distribution, especially within its breeding range in remote areas of the circumpolar Arctic. Knowledge held by Inuit harvesters engaged in Arctic Tern egg picking can shed light on the ecology, regional abundance and distribution of this marine bird. We conducted individual interviews and a workshop involving 12 Inuit harvesters and elders from Kuujjuaraapik, Nunavik (northern Québec), Canada, to gather their knowledge of Arctic Tern cultural importance, ecology, and stewardship. Interview contributors reported a regional decline in Arctic Tern numbers which appeared in the early 2000s on nesting islands near Kuujjuaraapik. Six possible factors were identified: (1) local harvest through egg picking; (2) nest disturbance and predation; (3) abandonment of tern nesting areas (i.e., islands that have become connected to the mainland due to isostatic rebound); (4) climate change; (5) natural abundance cycles within the Arctic Tern population; and (6) decline of the capelin (Mallotus villosus) in the region. Recommendations from Inuit contributors related to Arctic Tern stewardship and protection included: (1) conduct more research; (2) let nature take its course; (3) conduct an awareness campaign; (4) implement an egg picking ban; (5) coordinate local egg harvest; (6) start ‘tern farming’; (7) protect Arctic Terns across their migration route; and (8) harvest foxes predating on terns. Our study highlighted complementarities between Inuit knowledge and ecological science, and showed that Inuit harvesters can make substantial contributions to ongoing and future Arctic tern research and management initiatives.
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Affiliation(s)
- Dominique A. Henri
- Wildlife Research Division, Environment and Climate Change Canada, Montréal, Québec, Canada
- * E-mail:
| | | | - Salamiva Weetaltuk
- Local Nunavimmi Umajulivijiit Katujaqatigininga, Kuujjuaraapik, Québec, Canada
| | - Mark L. Mallory
- Biology Department, Acadia University, Wolfville, Nova Scotia, Canada
| | - H. Grant Gilchrist
- Wildlife Research Division, National Wildlife Research Centre, Environment and Climate Change Canada, Ottawa, Ontario, Canada
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Martinez-Levasseur LM, Simard M, Furgal CM, Burness G, Bertrand P, Suppa S, Avard E, Lemire M. Towards a better understanding of the benefits and risks of country food consumption using the case of walruses in Nunavik (Northern Quebec, Canada). THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 719:137307. [PMID: 32143094 DOI: 10.1016/j.scitotenv.2020.137307] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2019] [Revised: 02/12/2020] [Accepted: 02/12/2020] [Indexed: 06/10/2023]
Abstract
Food insecurity affects Inuit communities. One solution is to consume locally harvested foods, named country foods. However, some country foods are not eaten as often as before, and pressures including contaminants and environmental changes threaten the health of Arctic fauna, thus its suitability for local consumption. By combining Inuit Knowledge with laboratory data, our study assessed the benefits and risks of walrus consumption by Inuit in Nunavik, Québec, Canada. It aimed to increase understanding of: 1) the hunt of healthy Atlantic walruses (Odobenus rosmarus rosmarus); 2) the safe preparation of walruses; 3) the nutritional benefits and risks of consuming walruses. To do so, we interviewed 34 hunters and Elders from Nunavik. Levels of mercury, omega-3 polyunsaturated fatty acids and selenium were evaluated from locally harvested walruses. Through the Nunavik Trichinellosis Prevention Program, a total of 755 Atlantic walrus samples, collected between 1994 and 2013, were tested for Trichinella nativa. Information on botulism was reviewed. While interviews informed on how to select healthy walruses and prepare them for consumption, laboratory analyses revealed that walruses had elevated levels of omega-3 fatty acids and selenium but low levels of mercury compared to some other wildlife. Only 3% of the 755 walruses were infected with T. nativa. Most walruses' infections were found within individuals from the South East Hudson Bay stock, where Inuit have thus decided to stop hunting since mid-2000s. Finally, although the number of outbreaks of trichinellosis related to the consumption of walruses has significantly reduced in Nunavik, botulism could continue to be an issue when igunaq (i.e. aged walrus) is not properly prepared. With the support of the Nunavik Trichinellosis Prevention Program and transmission of Inuit knowledge on igunaq preparation, the consumption of Atlantic walruses has the potential to help address issues related to food insecurity in Nunavik in the future.
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Affiliation(s)
- Laura M Martinez-Levasseur
- Department of Biology, Trent University, Peterborough, Ontario K9L 0G2, Canada; Indigenous Environmental Studies & Sciences Program, Trent University, Peterborough, Ontario K9L 0G2, Canada.
| | - M Simard
- Nunavik Research Centre, Makivik Corporation, Kuujjuaq, Québec J0M 1C0, Canada
| | - C M Furgal
- Indigenous Environmental Studies & Sciences Program, Trent University, Peterborough, Ontario K9L 0G2, Canada
| | - G Burness
- Department of Biology, Trent University, Peterborough, Ontario K9L 0G2, Canada
| | - P Bertrand
- Department of Biology and Center for Northern Studies, Université du Québec, Rimouski, QC G5L 3A1, Canada; Norwegian Polar Institute, Fram Centre, Tromsø 9296, Norway
| | - S Suppa
- Nunavik Research Centre, Makivik Corporation, Kuujjuaq, Québec J0M 1C0, Canada
| | - E Avard
- Nunavik Research Centre, Makivik Corporation, Kuujjuaq, Québec J0M 1C0, Canada
| | - M Lemire
- Département de médecine sociale et préventive, Université Laval, Québec City, Québec, Canada; Axe Santé des populations et pratiques optimales en santé, Centre de recherche du CHU de Québec, Université Laval, 1050 Chemin Ste-Foy, Québec City, Québec G1S 4L8, Canada
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Lauriano E, Pergolizzi S, Aragona M, Spanò N, Guerrera M, Capillo G, Faggio C. Merkel cells immunohistochemical study in striped dolphin (Stenella coeruleoalba) skin. Tissue Cell 2019; 56:1-6. [DOI: 10.1016/j.tice.2018.11.003] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2018] [Revised: 10/30/2018] [Accepted: 11/17/2018] [Indexed: 01/26/2023]
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Challenges and strategies when mapping local ecological knowledge in the Canadian Arctic: the importance of defining the geographic limits of participants’ common areas of observations. Polar Biol 2017. [DOI: 10.1007/s00300-016-2071-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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