1
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Grimwood RM, Waller SJ, Wierenga JR, Lim L, Dubrulle J, Holmes EC, Geoghegan JL. Viromes of Antarctic fish resemble the diversity found at lower latitudes. Virus Evol 2024; 10:veae050. [PMID: 39071139 PMCID: PMC11282168 DOI: 10.1093/ve/veae050] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2024] [Revised: 06/09/2024] [Accepted: 07/10/2024] [Indexed: 07/30/2024] Open
Abstract
Antarctica harbours some of the most isolated and extreme environments on Earth, concealing a largely unexplored and unique component of the global animal virosphere. To understand the diversity and evolutionary histories of viruses in these polar species, we determined the viromes of gill metatranscriptomes from 11 Antarctic fish species with 248 samples collected from the Ross Sea region spanning the Perciformes, Gadiformes, and Scorpaeniformes orders. The continent's shift southward and cooling temperatures >20 million years ago led to a reduction in biodiversity and subsequent radiation of some marine fauna, such as the notothenioid fishes. Despite decreased host species richness in polar regions, we revealed a surprisingly complex virome diversity in Ross Sea fish, with the types and numbers of viruses per host species and individuals sampled comparable to that of fish in warmer marine environments with higher host community diversity. We also observed a higher number of closely related viruses likely representing instances of recent and historic host-switching events among the Perciformes (all notothenioids) than in the Gadiformes, suggesting that rapid speciation events within this order generated closely related host species with few genetic barriers to cross-species transmission. Additionally, we identified novel genomic variation in an arenavirus with a split nucleoprotein sequence containing a stable helical structure, indicating potential adaptation of viral proteins to extreme temperatures. These findings enhance our understanding of virus evolution and virus-host interactions in response to environmental shifts, especially in less diverse ecosystems that are more vulnerable to the impacts of anthropogenic and climate changes.
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Affiliation(s)
- Rebecca M Grimwood
- Department of Microbiology and Immunology, University of Otago, Dunedin 9016, New Zealand
| | - Stephanie J Waller
- Department of Microbiology and Immunology, University of Otago, Dunedin 9016, New Zealand
| | - Janelle R Wierenga
- Department of Microbiology and Immunology, University of Otago, Dunedin 9016, New Zealand
| | - Lauren Lim
- Sydney Institute for Infectious Diseases, School of Medical Sciences, The University of Sydney, Camperdown, NSW 2006, Australia
| | - Jérémy Dubrulle
- Department of Microbiology and Immunology, University of Otago, Dunedin 9016, New Zealand
| | - Edward C Holmes
- Sydney Institute for Infectious Diseases, School of Medical Sciences, The University of Sydney, Camperdown, NSW 2006, Australia
| | - Jemma L Geoghegan
- Department of Microbiology and Immunology, University of Otago, Dunedin 9016, New Zealand
- Institute of Environmental Science and Research, Wellington 5018, New Zealand
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2
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Costa VA, Holmes EC. Diversity, evolution, and emergence of fish viruses. J Virol 2024; 98:e0011824. [PMID: 38785422 PMCID: PMC11237817 DOI: 10.1128/jvi.00118-24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/25/2024] Open
Abstract
The production of aquatic animals has more than doubled over the last 50 years and is anticipated to continually increase. While fish are recognized as a valuable and sustainable source of nutrition, particularly in the context of human population growth and climate change, the rapid expansion of aquaculture coincides with the emergence of highly pathogenic viruses that often spread globally through aquacultural practices. Here, we provide an overview of the fish virome and its relevance for disease emergence, with a focus on the insights gained through metagenomic sequencing, noting potential areas for future study. In particular, we describe the diversity and evolution of fish viruses, for which the majority have no known disease associations, and demonstrate how viruses emerge in fish populations, most notably at an expanding domestic-wild interface. We also show how wild fish are a powerful and tractable model system to study virus ecology and evolution more broadly and can be used to identify the major factors that shape vertebrate viromes. Central to this is a process of virus-host co-divergence that proceeds over many millions of years, combined with ongoing cross-species virus transmission.
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Affiliation(s)
- Vincenzo A. Costa
- Sydney Institute for Infectious Diseases, School of Medical Sciences, The University of Sydney, Sydney, New South Wales, Australia
| | - Edward C. Holmes
- Sydney Institute for Infectious Diseases, School of Medical Sciences, The University of Sydney, Sydney, New South Wales, Australia
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3
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Costa VA, Ronco F, Mifsud JCO, Harvey E, Salzburger W, Holmes EC. Host adaptive radiation is associated with rapid virus diversification and cross-species transmission in African cichlid fishes. Curr Biol 2024; 34:1247-1257.e3. [PMID: 38428417 DOI: 10.1016/j.cub.2024.02.008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2023] [Revised: 12/18/2023] [Accepted: 02/06/2024] [Indexed: 03/03/2024]
Abstract
Adaptive radiations are generated through a complex interplay of biotic and abiotic factors. Although adaptive radiations have been widely studied in the context of animal and plant evolution, little is known about how they impact the evolution of the viruses that infect these hosts, which in turn may provide insights into the drivers of cross-species transmission and hence disease emergence. We examined how the rapid adaptive radiation of the cichlid fishes of African Lake Tanganyika over the last 10 million years has shaped the diversity and evolution of the viruses they carry. Through metatranscriptomic analysis of 2,242 RNA sequencing libraries, we identified 121 vertebrate-associated viruses among various tissue types that fell into 13 RNA and 4 DNA virus groups. Host-switching was commonplace, particularly within the Astroviridae, Metahepadnavirus, Nackednavirus, Picornaviridae, and Hepacivirus groups, occurring more frequently than in other fish communities. A time-calibrated phylogeny revealed that hepacivirus diversification was not constant throughout the cichlid radiation but accelerated 2-3 million years ago, coinciding with a period of rapid cichlid diversification and niche packing in Lake Tanganyika, thereby providing more closely related hosts for viral infection. These data depict a dynamic virus ecosystem within the cichlids of Lake Tanganyika, characterized by rapid virus diversification and frequent host jumping, and likely reflecting their close phylogenetic relationships that lower the barriers to cross-species virus transmission.
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Affiliation(s)
- Vincenzo A Costa
- Sydney Institute for Infectious Diseases, School of Medical Sciences, The University of Sydney, Sydney, NSW 2006, Australia
| | - Fabrizia Ronco
- Natural History Museum, University of Oslo, 0562 Oslo, Norway
| | - Jonathon C O Mifsud
- Sydney Institute for Infectious Diseases, School of Medical Sciences, The University of Sydney, Sydney, NSW 2006, Australia
| | - Erin Harvey
- Sydney Institute for Infectious Diseases, School of Medical Sciences, The University of Sydney, Sydney, NSW 2006, Australia
| | - Walter Salzburger
- Zoological Institute, Department of Environmental Sciences, University of Basel, Vesalgasse 1, 4051 Basel, Switzerland
| | - Edward C Holmes
- Sydney Institute for Infectious Diseases, School of Medical Sciences, The University of Sydney, Sydney, NSW 2006, Australia.
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4
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Détrée C, Navarro JM, Figueroa A, Cardenas L. Acclimation of the Antarctic sea urchin Sterechinus neumayeri to warmer temperatures involves a modulation of cellular machinery. MARINE ENVIRONMENTAL RESEARCH 2023; 188:105979. [PMID: 37099993 DOI: 10.1016/j.marenvres.2023.105979] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2022] [Revised: 03/25/2023] [Accepted: 04/09/2023] [Indexed: 06/11/2023]
Abstract
Global warming is threatening marine Antarctic fauna, which has evolved in isolation in a cold environment for millions of years. Facing increasing temperatures, marine Antarctic invertebrates can either tolerate or develop adaptations to these changes. On a short timescale, their survival and resistance to warming will be driven by the efficiency of their phenotypic plasticity through their capacity for acclimation. The current study aims at evaluating the capacity for acclimation of the Antarctic sea urchin Sterechinus neumayeri to predicted ocean warming scenarios (+2, RCP 2.6 and + 4 °C, RCP 8.5, IPCC et al., 2019) and deciphering the subcellular mechanisms underlying their acclimation. A combination of transcriptomics, physiological (e.g. growth rate, gonad growth, ingestion rate and oxygen consumption), and behavioral-based approaches were used on individuals incubated at 1, 3 and, 5 °C for 22 weeks. Mortality was low at warmer temperatures (20%) and oxygen consumption and ingestion rate seemed to reach a stable state around 16 weeks suggesting that S. neumayeri might be able to acclimate to warmer temperatures (until 5 °C). Transcriptomic analyses highlighted adjustments of the cellular machinery with the activation of replication, recombination, and repair processes as well as cell cycle and division and repression of transcriptional and signal transduction mechanisms and defense processes. These results suggest that acclimation to warmer scenarios might require more than 22 weeks for the Antarctic Sea urchins S. neumayeri but that projections of climate change for the end of the century may not strongly affect the population of S. neumayeri of this part of the Antarctic.
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Affiliation(s)
- Camille Détrée
- Centro FONDAP de Investigación de Ecosistemas Marinos de Altas Latitudes (IDEAL), Valdivia, Chile.
| | - Jorge M Navarro
- Centro FONDAP de Investigación de Ecosistemas Marinos de Altas Latitudes (IDEAL), Valdivia, Chile; Instituto de Ciencias Marinas y Limnologicas, Facultad de Ciencias, Universidad Austral de Chile, Valdivia, Chile
| | - Alvaro Figueroa
- Instituto de Ciencias Ambientales y Evolutivas, Facultad de Ciencias, Universidad Austral de Chile, Valdivia, Chile
| | - Leyla Cardenas
- Centro FONDAP de Investigación de Ecosistemas Marinos de Altas Latitudes (IDEAL), Valdivia, Chile; Instituto de Ciencias Ambientales y Evolutivas, Facultad de Ciencias, Universidad Austral de Chile, Valdivia, Chile
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5
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Parker E, Near TJ. Phylogeny Reconciles Classification in Antarctic Plunderfishes. ICHTHYOLOGY & HERPETOLOGY 2022. [DOI: 10.1643/i2021126] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Elyse Parker
- Department of Ecology & Evolutionary Biology, Yale University, P.O. Box 208106, New Haven, Connecticut 06520; (EP) chantal.
| | - Thomas J. Near
- Department of Ecology & Evolutionary Biology, Yale University, P.O. Box 208106, New Haven, Connecticut 06520; (EP) chantal.
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6
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The mitochondrial genome of the red icefish (Channichthys rugosus) casts doubt on its species status. Polar Biol 2022; 45:1541-1552. [DOI: 10.1007/s00300-022-03083-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2022] [Revised: 06/30/2022] [Accepted: 08/31/2022] [Indexed: 11/27/2022]
Abstract
AbstractAntarctic notothenioid fishes are recognised as one of the rare examples of adaptive radiation in the marine system. Withstanding the freezing temperatures of Antarctic waters, these fishes have diversified into over 100 species within no more than 10–20 million years. However, the exact species richness of the radiation remains contested. In the genus Channichthys, between one and nine species are recognised by different authors. To resolve the number of Channichthys species, genetic information would be highly valuable; however, so far, only sequences of a single species, C. rhinoceratus, are available. Here, we present the nearly complete sequence of the mitochondrial genome of C. rugosus, obtained from a formalin-fixed museum specimen sampled in 1974. This sequence differs from the mitochondrial genome of C. rhinoceratus in no more than 27 positions, suggesting that the two species may be synonymous.
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7
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DNA barcoding provides insights into Fish Diversity and Molecular Taxonomy of the Amundsen Sea. CONSERV GENET RESOUR 2022. [DOI: 10.1007/s12686-022-01273-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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8
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Trokhymets V, Savytskiy O, Zinkovskyi A, Gupalo O, Dykyy I, Lutsenko D, Berezkina A, La Mesa M. Species composition, distribution and relative abundance of the inshore fish community off the Argentine Islands, Bellingshausen Sea. Polar Biol 2022. [DOI: 10.1007/s00300-022-03040-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Abstract
AbstractIn the last three decades, several interdisciplinary studies investigated the marine ecosystems off the West Antarctic Peninsula (WAP), one of the most impacted areas of the Southern Ocean by the global warming. Although the extent of near-shore habitats along the WAP is wider than elsewhere in Antarctica, the coastal fish communities have been rarely studied. Complementing these previous studies, we provide new data on the species composition, population structure and relative abundance of the inshore fish community living off the Argentine Islands (Bellingshausen Sea). Fish samples were caught all the year round during four different periods spread over ten years (from 2006 to 2017). The fish fauna consisted of fourteen high-Antarctic and low-Antarctic species of notothenioids, most of them belonging to the Nototheniidae. Notothenia coriiceps was by far the most abundant species, followed in decreasing abundance by Chaenocephalus aceratus, Notothenia rossii, Trematomus newnesi and Trematomus bernacchii. Our findings provide context for future ecological studies as this area represents either a spawning and nursery area for multiple species in this study. More generally, the inshore waters off the Argentine Islands represent the southern limit of distribution for several low-Antarctic species, and our results provide critical baseline data for assessing possible disruptions in population dynamics driven by the ongoing climate change.
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9
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Camp AL, Brainerd EL. A new conceptual framework for the musculoskeletal biomechanics and physiology of ray-finned fishes. J Exp Biol 2022; 225:jeb243376. [PMID: 35258609 PMCID: PMC8987723 DOI: 10.1242/jeb.243376] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Suction feeding in ray-finned fishes requires substantial muscle power for fast and forceful prey capture. The axial musculature located immediately behind the head has been long known to contribute some power for suction feeding, but recent XROMM and fluoromicrometry studies found nearly all the axial musculature (over 80%) provides effectively all (90-99%) of the power for high-performance suction feeding. The dominance of axial power suggests a new framework for studying the musculoskeletal biomechanics of fishes: the form and function of axial muscles and bones should be analysed for power production in feeding (or at least as a compromise between swimming and feeding), and cranial muscles and bones should be analysed for their role in transmitting axial power and coordinating buccal expansion. This new framework is already yielding novel insights, as demonstrated in four species for which suction power has now been measured. Interspecific comparisons suggest high suction power can be achieved in different ways: increasing the magnitude of suction pressure or the rate of buccal volume change, or both (as observed in the most powerful of these species). Our framework suggests that mechanical and evolutionary interactions between the head and the body, and between the swimming and feeding roles of axial structures, may be fruitful areas for continued study.
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Affiliation(s)
- Ariel L. Camp
- Department of Musculoskeletal and Ageing Science, Institute of Life Course and Medical Sciences, University of Liverpool, Liverpool, L7 8TX, UK
- Department of Ecology, Evolution and Organismal Biology, Brown University, Providence, RI 02912, USA
| | - Elizabeth L. Brainerd
- Department of Ecology, Evolution and Organismal Biology, Brown University, Providence, RI 02912, USA
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10
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Choi E, Kim SH, Lee SJ, Jo E, Kim J, Kim JH, Parker SJ, Chi YM, Park H. A First Genome Survey and Genomic SSR Marker Analysis of Trematomus loennbergii Regan, 1913. Animals (Basel) 2021; 11:3186. [PMID: 34827918 PMCID: PMC8614269 DOI: 10.3390/ani11113186] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Revised: 11/01/2021] [Accepted: 11/04/2021] [Indexed: 11/17/2022] Open
Abstract
Trematomus loennbergii Regan, 1913, is an evolutionarily important marine fish species distributed in the Antarctic Ocean. However, its genome has not been studied to date. In the present study, whole genome sequencing was performed using next-generation sequencing (NGS) technology to characterize its genome and develop genomic microsatellite markers. The 25-mer frequency distribution was estimated to be the best, and the genome size was predicted to be 815,042,992 bp. The heterozygosity, average rate of read duplication, and sequencing error rates were 0.536%, 0.724%, and 0.292%, respectively. These data were used to analyze microsatellite markers, and a total of 2,264,647 repeat motifs were identified. The most frequent repeat motif was di-nucleotide with 87.00% frequency, followed by tri-nucleotide (10.45%), tetra-nucleotide (1.94%), penta-nucleotide (0.34%), and hexa-nucleotide (0.27%). The AC repeat motif was the most abundant motif among di-nucleotides and among all repeat motifs. Among microsatellite markers, 181 markers were selected and PCR technology was used to validate several markers. A total of 15 markers produced only one band. In summary, these results provide a good basis for further studies, including evolutionary biology studies and population genetics of Antarctic fish species.
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Affiliation(s)
- Eunkyung Choi
- Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul 02841, Korea; (E.C.); (S.H.K.); (S.J.L.); (E.J.); (J.K.)
| | - Sun Hee Kim
- Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul 02841, Korea; (E.C.); (S.H.K.); (S.J.L.); (E.J.); (J.K.)
- Greenwitch Co., 20, Jeungpyeong 2 Sandan-ro, Doan-myeon, Jeungpyeong-gun 27902, Korea
| | - Seung Jae Lee
- Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul 02841, Korea; (E.C.); (S.H.K.); (S.J.L.); (E.J.); (J.K.)
| | - Euna Jo
- Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul 02841, Korea; (E.C.); (S.H.K.); (S.J.L.); (E.J.); (J.K.)
| | - Jinmu Kim
- Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul 02841, Korea; (E.C.); (S.H.K.); (S.J.L.); (E.J.); (J.K.)
| | - Jeong-Hoon Kim
- Korea Polar Research Institute (KOPRI), Yeonsu-gu, Incheon 21990, Korea;
| | - Steven J. Parker
- National Institute of Water & Atmospheric Research Ltd. (NIWA), 217 Akersten Street Port Nelson, Nelson 7001, New Zealand;
| | - Young-Min Chi
- Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul 02841, Korea; (E.C.); (S.H.K.); (S.J.L.); (E.J.); (J.K.)
| | - Hyun Park
- Division of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul 02841, Korea; (E.C.); (S.H.K.); (S.J.L.); (E.J.); (J.K.)
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11
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Borko Š, Trontelj P, Seehausen O, Moškrič A, Fišer C. A subterranean adaptive radiation of amphipods in Europe. Nat Commun 2021; 12:3688. [PMID: 34140494 PMCID: PMC8211712 DOI: 10.1038/s41467-021-24023-w] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2020] [Accepted: 06/01/2021] [Indexed: 02/05/2023] Open
Abstract
Adaptive radiations are bursts of evolutionary species diversification that have contributed to much of the species diversity on Earth. An exception is modern Europe, where descendants of ancient adaptive radiations went extinct, and extant adaptive radiations are small, recent and narrowly confined. However, not all legacy of old radiations has been lost. Subterranean environments, which are dark and food-deprived, yet buffered from climate change, have preserved ancient lineages. Here we provide evidence of an entirely subterranean adaptive radiation of the amphipod genus Niphargus, counting hundreds of species. Our modelling of lineage diversification and evolution of morphological and ecological traits using a time-calibrated multilocus phylogeny suggests a major adaptive radiation, comprised of multiple subordinate adaptive radiations. Their spatio-temporal origin coincides with the uplift of carbonate massifs in South-Eastern Europe 15 million years ago. Emerging subterranean environments likely provided unoccupied, predator-free space, constituting ecological opportunity, a key trigger of adaptive radiation. This discovery sheds new light on the biodiversity of Europe.
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Affiliation(s)
- Špela Borko
- SubBio Lab, Biotechnical Faculty, University of Ljubljana, Ljubljana, Slovenia.
| | - Peter Trontelj
- SubBio Lab, Biotechnical Faculty, University of Ljubljana, Ljubljana, Slovenia
| | - Ole Seehausen
- Aquatic Ecology and Evolution, Institute of Ecology and Evolution, University of Bern, Bern, Switzerland
- Department of Fish Ecology and Evolution, Centre for Ecology, Evolution, and Biogeochemistry, Swiss Federal Institute of Aquatic Science and Technology (EAWAG), Kastanienbaum, Switzerland
| | - Ajda Moškrič
- SubBio Lab, Biotechnical Faculty, University of Ljubljana, Ljubljana, Slovenia
- Agricultural institute of Slovenia, Ljubljana, Slovenia
| | - Cene Fišer
- SubBio Lab, Biotechnical Faculty, University of Ljubljana, Ljubljana, Slovenia
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12
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Thermal responses of two sub-Antarctic notothenioid fishes, the black southern cod Patagonotothen tessellata (Richardson, 1845) and the Magellan plunderfish Harpagifer bispinis (Forster, 1801), from southern South America. Polar Biol 2021. [DOI: 10.1007/s00300-021-02852-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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13
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Moles J, Derkarabetian S, Schiaparelli S, Schrödl M, Troncoso JS, Wilson NG, Giribet G. An approach using ddRADseq and machine learning for understanding speciation in Antarctic Antarctophilinidae gastropods. Sci Rep 2021; 11:8473. [PMID: 33875688 PMCID: PMC8055997 DOI: 10.1038/s41598-021-87244-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2020] [Accepted: 03/25/2021] [Indexed: 02/02/2023] Open
Abstract
Sampling impediments and paucity of suitable material for molecular analyses have precluded the study of speciation and radiation of deep-sea species in Antarctica. We analyzed barcodes together with genome-wide single nucleotide polymorphisms obtained from double digestion restriction site-associated DNA sequencing (ddRADseq) for species in the family Antarctophilinidae. We also reevaluated the fossil record associated with this taxon to provide further insights into the origin of the group. Novel approaches to identify distinctive genetic lineages, including unsupervised machine learning variational autoencoder plots, were used to establish species hypothesis frameworks. In this sense, three undescribed species and a complex of cryptic species were identified, suggesting allopatric speciation connected to geographic or bathymetric isolation. We further observed that the shallow waters around the Scotia Arc and on the continental shelf in the Weddell Sea present high endemism and diversity. In contrast, likely due to the glacial pressure during the Cenozoic, a deep-sea group with fewer species emerged expanding over great areas in the South-Atlantic Antarctic Ridge. Our study agrees on how diachronic paleoclimatic and current environmental factors shaped Antarctic communities both at the shallow and deep-sea levels, promoting Antarctica as the center of origin for numerous taxa such as gastropod mollusks.
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Affiliation(s)
- Juan Moles
- Museum of Comparative Zoology, Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA, 02138, USA.
- SNSB-Bavarian State Collection of Zoology, Münchhausenstrasse 21, 81247, Munich, Germany.
- Biozentrum Ludwig Maximilians University and GeoBio-Center LMU Munich, Munich, Germany.
| | - Shahan Derkarabetian
- Museum of Comparative Zoology, Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA, 02138, USA
| | - Stefano Schiaparelli
- DiSTAV, University of Genoa, C.so Europa 26, 16132, Genoa, Italy
- Italian National Antarctic Museum (MNA, Section of Genoa), Viale Benedetto XV n. 5, 16132, Genoa, Italy
| | - Michael Schrödl
- SNSB-Bavarian State Collection of Zoology, Münchhausenstrasse 21, 81247, Munich, Germany
- Biozentrum Ludwig Maximilians University and GeoBio-Center LMU Munich, Munich, Germany
| | - Jesús S Troncoso
- Departamento de Ecoloxía e Bioloxía Animal, Universidade de Vigo, Campus Lagoas-Marcosende s/n, 36200, Vigo, Spain
| | - Nerida G Wilson
- Collections and Research, Western Australian Museum, Welshpool DC, Locked Bag 49, Perth, WA, 6986, Australia
- School of Biological Sciences, University of Western Australia, 35 Stirling Hwy, Crawley, WA, 6009, Australia
| | - Gonzalo Giribet
- Museum of Comparative Zoology, Department of Organismic and Evolutionary Biology, Harvard University, 26 Oxford Street, Cambridge, MA, 02138, USA
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14
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Choi E, Im TE, Lee SJ, Jo E, Kim J, Kim SH, Chi YM, Kim JH, Park H. The complete mitochondrial genome of Trematomus loennbergii (Perciformes, Nototheniidae). MITOCHONDRIAL DNA PART B-RESOURCES 2021; 6:1032-1033. [PMID: 33796728 PMCID: PMC7995823 DOI: 10.1080/23802359.2021.1899070] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The complete mitochondrial genome of Trematomus loennbergii was studied using NGS technology with PacBio platform. The mitochondrial genome size was 19,374bp and it had 13 protein-coding genes, 22 tRNAs and 2 rRNAs. There were 4 types of stop codons which were TAA, TAG, AGG and T(AA) but start codon type was only one (ATG). The contents of GC were 44.09% and AT contents were 55.91%. To conduct phylogenetic analysis, 12 species in 3 families were used. The result suggested that T. loennbergii was close to Pagothenia borchgrevinki in Nototheniidae. This study would provide a fundamental data for molecular evolution of T. loennbergii.
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Affiliation(s)
- Eunkyung Choi
- College of Life Sciences and Biotechnology, Korea University, Seoul, Korea
| | - Tae-Eul Im
- College of Life Sciences and Biotechnology, Korea University, Seoul, Korea
| | - Seung Jae Lee
- College of Life Sciences and Biotechnology, Korea University, Seoul, Korea
| | - Euna Jo
- College of Life Sciences and Biotechnology, Korea University, Seoul, Korea
| | - Jinmu Kim
- College of Life Sciences and Biotechnology, Korea University, Seoul, Korea
| | - Sun Hee Kim
- College of Life Sciences and Biotechnology, Korea University, Seoul, Korea.,Greenwitch Co, Chungcheongbuk-do, Korea
| | - Young Min Chi
- College of Life Sciences and Biotechnology, Korea University, Seoul, Korea
| | - Jeong-Hoon Kim
- Division of Polar Life Science, Korea Polar Research Institute, Incheon, Korea
| | - Hyun Park
- College of Life Sciences and Biotechnology, Korea University, Seoul, Korea
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15
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Friedlander AM, Goodell W, Salinas-de-León P, Ballesteros E, Berkenpas E, Capurro AP, Cárdenas CA, Hüne M, Lagger C, Landaeta MF, Muñoz A, Santos M, Turchik A, Werner R, Sala E. Spatial patterns of continental shelf faunal community structure along the Western Antarctic Peninsula. PLoS One 2020; 15:e0239895. [PMID: 33002046 PMCID: PMC7529263 DOI: 10.1371/journal.pone.0239895] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2020] [Accepted: 09/15/2020] [Indexed: 11/22/2022] Open
Abstract
Knowledge of continental shelf faunal biodiversity of Antarctica is patchy and as such, the ecology of this unique ecosystem is not fully understood. To this end, we deployed baited cameras at 20 locations along ~ 500 km of the Western Antarctic Peninsula (WAP) at depths from 90 to 797 m. We identified 111 unique taxa, with mud bottom accounting for 90% of the dominant (≥ 50% cover) habitat sampled. Amphipoda comprised 41% of the total maximum number of individuals per camera deployment (MaxN) and occurred on 75% of deployments. Excluding this taxon, the highest MaxN occurred around King George/25 de Mayo Island and was driven primarily by the abundance of krill (Euphausiidae), which accounted for 36% of total average MaxN among deployments around this island. In comparison, krill comprised 22% of total average MaxN at Deception Island and only 10% along the peninsula. Taxa richness, diversity, and evenness all increased with depth and depth explained 18.2% of the variation in community structure among locations, which may be explained by decreasing ice scour with depth. We identified a number of Vulnerable Marine Ecosystem taxa, including habitat-forming species of cold-water corals and sponge fields. Channichthyidae was the most common fish family, occurring on 80% of all deployments. The Antarctic jonasfish (Notolepis coatsorum) was the most frequently encountered fish taxa, occurring on 70% of all deployments and comprising 25% of total MaxN among all deployments. Nototheniidae was the most numerically abundant fish family, accounting for 36% of total MaxN and was present on 70% of the deployments. The WAP is among the fastest warming regions on Earth and mitigating the impacts of warming, along with more direct impacts such as those from fishing, is critical in providing opportunities for species to adapt to environmental change and to preserve this unique ecosystem.
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Affiliation(s)
- Alan M. Friedlander
- Pristine Seas, National Geographic Society, Washington, DC, United States of America
- Hawaiʿi Institute of Marine Biology, University of Hawaiʿi, Kāneʻohe, Hawaiʿi, United States of America
- * E-mail:
| | - Whitney Goodell
- Pristine Seas, National Geographic Society, Washington, DC, United States of America
- Hawaiʿi Institute of Marine Biology, University of Hawaiʿi, Kāneʻohe, Hawaiʿi, United States of America
| | - Pelayo Salinas-de-León
- Pristine Seas, National Geographic Society, Washington, DC, United States of America
- Charles Darwin Research Station, Charles Darwin Foundation, Puerto Ayora, Galápagos, Ecuador
| | | | - Eric Berkenpas
- Exploration Technology, National Geographic Society, Washington, DC, United States of America
| | - Andrea P. Capurro
- Instituto Antártico Argentino/Dirección Nacional del Antártico/Cancilleria Argentina, Buenos Aires, Argentina
| | - César A. Cárdenas
- Departamento Científico, Instituto Antártico Chileno, Punta Arenas, Chile
| | | | - Cristian Lagger
- Instituto de Diversidad y Ecología Animal (IDEA), CONICET-UNC and Facultad de Ciencias Exactas, Físicas y Naturales, Universidad Nacional de Córdoba, Córdoba, Argentina
| | - Mauricio F. Landaeta
- Laboratorio de Ictioplancton (LABITI), Escuela de Biología Marina, Facultad de Ciencias del Mar y de Recursos Naturales, Universidad de Valparaíso, Viña del Mar, Chile
| | - Alex Muñoz
- Pristine Seas, National Geographic Society, Washington, DC, United States of America
| | - Mercedes Santos
- Instituto Antártico Argentino/Dirección Nacional del Antártico/Cancilleria Argentina, Buenos Aires, Argentina
| | - Alan Turchik
- Exploration Technology, National Geographic Society, Washington, DC, United States of America
| | - Rodolfo Werner
- The Pew Charitable Trusts & Antarctic and Southern Ocean Coalition, Washington, DC, United States of America
| | - Enric Sala
- Pristine Seas, National Geographic Society, Washington, DC, United States of America
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16
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Thermal sensitivity of cell metabolism of different Antarctic fish species mirrors organism temperature tolerance. Polar Biol 2020. [DOI: 10.1007/s00300-020-02752-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
AbstractDespite cold adaptation, Antarctic fish show lower growth than expected from the van’t Hoff’s Q10 rule. Protein synthesis is one of the main energy-consuming processes, which is downregulated under energy deficiency. Considering the effect of temperature on growth performance, we tested if temperature-dependent cellular energy allocation to protein synthesis correlates with temperature-dependent whole-animal growth and thus thermal tolerance. Cell respiration and energy expenditure for protein synthesis were determined in hepatocytes of the circumpolar-distributed Antarctic eelpout Pachycara brachycephalum after warm acclimation (0 °C vs 5 °C) and, of two notothenioids the sub-Antarctic Lepidonotothen squamifrons and the high-Antarctic icefish Chionodraco hamatus. We used intermittent-flow respirometry to analyse cellular response to acute warming from 5 to 10 °C (P. brachycephalum) and from 1 to 5 °C (L. squamifrons, C. hamatus). Warming-induced rise in respiration was similar between 0- and 5 °C-acclimated P. brachycephalum and between L. squamifrons and C. hamatus. Irrespective of acclimation, warming decreased energy expenditure for protein synthesis in P. brachycephalum, which corresponds to reduced whole-animal growth at temperatures > 5 °C. Warming doubled energy expenditure for protein synthesis in L. squamifrons but had no effect on C. hamatus indicating that L. squamifrons might benefit from warmer waters. The species-specific temperature effect on energy expenditure for protein synthesis is discussed to mirror thermal sensitivity of whole-animal growth performance, thereby paralleling the degree of cold adaptation. Clearly more data are necessary including measurements at narrower temperature steps particularly for C. hamatus and an increased species’ number per ecotype to reinforce presented link between cellular and whole-animal thermal sensitivity.
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17
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Deli Antoni MY, Delpiani SM, González-Castro M, Blasina GE, Spath MC, Depiani GE, Ashikaga FY, Cruz VP, Oliveira C, de Astarloa JMD. Comparative populational study of Lepidonotothen larseni and L. nudifrons (Teleostei: Nototheniidae) from the Antarctic Peninsula and the South Shetland Islands, Antarctica. Polar Biol 2019. [DOI: 10.1007/s00300-019-02540-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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18
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Shishido CM, Woods HA, Lane SJ, Toh MWA, Tobalske BW, Moran AL. Polar gigantism and the oxygen-temperature hypothesis: a test of upper thermal limits to body size in Antarctic pycnogonids. Proc Biol Sci 2019; 286:20190124. [PMID: 30966982 PMCID: PMC6501676 DOI: 10.1098/rspb.2019.0124] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2019] [Accepted: 03/19/2019] [Indexed: 11/12/2022] Open
Abstract
The extreme and constant cold of the Southern Ocean has led to many unusual features of the Antarctic fauna. One of these, polar gigantism, is thought to have arisen from a combination of cold-driven low metabolic rates and high oxygen availability in the polar oceans (the 'oxygen-temperature hypothesis'). If the oxygen-temperature hypothesis indeed underlies polar gigantism, then polar giants may be particularly susceptible to warming temperatures. We tested the effects of temperature on performance using two genera of giant Antarctic sea spiders (Pycnogonida), Colossendeis and Ammothea, across a range of body sizes. We tested performance at four temperatures spanning ambient (-1.8°C) to 9°C. Individuals from both genera were highly sensitive to elevated temperature, but we found no evidence that large-bodied pycnogonids were more affected by elevated temperatures than small individuals; thus, these results do not support the predictions of the oxygen-temperature hypothesis. When we compared two species, Colossendeis megalonyx and Ammothea glacialis, C. megalonyx maintained performance at considerably higher temperatures. Analysis of the cuticle showed that as body size increases, porosity increases as well, especially in C. megalonyx, which may compensate for the increasing metabolic demand and longer diffusion distances of larger animals by facilitating diffusive oxygen supply.
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Affiliation(s)
- Caitlin M. Shishido
- Department of Biology, University of Hawai‘i at Mānoa, Honolulu, HI 96822, USA
| | - H. Arthur Woods
- Division of Biological Sciences, University of Montana, Missoula, MT 59812, USA
| | - Steven J. Lane
- Division of Biological Sciences, University of Montana, Missoula, MT 59812, USA
| | - Ming Wei A. Toh
- Department of Biology, University of Hawai‘i at Mānoa, Honolulu, HI 96822, USA
| | - Bret W. Tobalske
- Division of Biological Sciences, University of Montana, Missoula, MT 59812, USA
| | - Amy L. Moran
- Department of Biology, University of Hawai‘i at Mānoa, Honolulu, HI 96822, USA
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19
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Metabolic responses in Antarctic Nototheniidae brains subjected to thermal stress. Brain Res 2019; 1708:126-137. [PMID: 30527682 DOI: 10.1016/j.brainres.2018.12.004] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2018] [Revised: 11/08/2018] [Accepted: 12/04/2018] [Indexed: 12/23/2022]
Abstract
Antarctic Nototheniidae is an attractive group for studying metabolic and physiological responses at high temperatures. The present work investigated the metabolic responses of the carbohydrate metabolism and antioxidant system to thermal stress at 8 °C (for 2-144 h) in the brains of Notothenia rossii and Notothenia coriiceps. In N. coriiceps, glycogenolysis was essential in the first hours of exposure (2 h) at 8 °C and, in addition to inhibiting glucose-6-phosphatase activity, was important for activating the pentose phosphate pathway. In N. rossii, anaerobic metabolism was reduced in the first hours of exposure (2 and 6 h) at 8 °C, followed by reduced hexokinase activity, suggesting energy regulation between neurons and astrocytes. The antioxidant system results indicated the importance of the actions of the glutathione-dependent antioxidant enzymes glutathione-S-transferase and glutathione peroxidase as well as those of catalase in N. coriiceps and the action of glutathione-S-transferase, glutathione peroxidase and glutathione reductase in N. rossii, especially during the first 12 h of thermal stress exposure. These results indicate tissue-specific patterns and species-specific responses to this stress.
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20
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Recent diversification in an ancient lineage of Notothenioid fishes (Bovichtus: Notothenioidei). Polar Biol 2019. [DOI: 10.1007/s00300-019-02489-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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21
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Auvinet J, Graça P, Ghigliotti L, Pisano E, Dettaï A, Ozouf-Costaz C, Higuet D. Insertion Hot Spots of DIRS1 Retrotransposon and Chromosomal Diversifications among the Antarctic Teleosts Nototheniidae. Int J Mol Sci 2019; 20:ijms20030701. [PMID: 30736325 PMCID: PMC6387122 DOI: 10.3390/ijms20030701] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2018] [Revised: 01/30/2019] [Accepted: 02/03/2019] [Indexed: 12/17/2022] Open
Abstract
By their faculty to transpose, transposable elements are known to play a key role in eukaryote genomes, impacting both their structuration and remodeling. Their integration in targeted sites may lead to recombination mechanisms involved in chromosomal rearrangements. The Antarctic fish family Nototheniidae went through several waves of species radiations. It is a suitable model to study transposable element (TE)-mediated mechanisms associated to genome and chromosomal diversifications. After the characterization of Gypsy (GyNoto), Copia (CoNoto), and DIRS1 (YNoto) retrotransposons in the genomes of Nototheniidae (diversity, distribution, conservation), we focused on their chromosome location with an emphasis on the three identified nototheniid radiations (the Trematomus, the plunderfishes, and the icefishes). The strong intrafamily TE conservation and wide distribution across species of the whole family suggest an ancestral acquisition with potential secondary losses in some lineages. GyNoto and CoNoto (including Hydra and GalEa clades) mostly produced interspersed signals along chromosomal arms. On the contrary, insertion hot spots accumulating in localized regions (mainly next to centromeric and pericentromeric regions) highlighted the potential role of YNoto in chromosomal diversifications as facilitator of the fusions which occurred in many nototheniid lineages, but not of the fissions.
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Affiliation(s)
- Juliette Auvinet
- Laboratoire Evolution Paris Seine, Sorbonne Université, CNRS, Univ Antilles, Institut de Biologie Paris Seine (IBPS), F-75005 Paris, France.
| | - Paula Graça
- Laboratoire Evolution Paris Seine, Sorbonne Université, CNRS, Univ Antilles, Institut de Biologie Paris Seine (IBPS), F-75005 Paris, France.
| | - Laura Ghigliotti
- Istituto per lo Studio degli Impatti Antropici e la Sostenibilità in Ambiente Marino (IAS), National Research Council (CNR), 16149 Genoa, Italy.
| | - Eva Pisano
- Istituto per lo Studio degli Impatti Antropici e la Sostenibilità in Ambiente Marino (IAS), National Research Council (CNR), 16149 Genoa, Italy.
| | - Agnès Dettaï
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Museum National d'Histoire Naturelle, CNRS, Sorbonne Université, EPHE, 57, rue Cuvier, 75005 Paris, France.
| | - Catherine Ozouf-Costaz
- Laboratoire Evolution Paris Seine, Sorbonne Université, CNRS, Univ Antilles, Institut de Biologie Paris Seine (IBPS), F-75005 Paris, France.
| | - Dominique Higuet
- Laboratoire Evolution Paris Seine, Sorbonne Université, CNRS, Univ Antilles, Institut de Biologie Paris Seine (IBPS), F-75005 Paris, France.
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Museum National d'Histoire Naturelle, CNRS, Sorbonne Université, EPHE, 57, rue Cuvier, 75005 Paris, France.
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22
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Brijs J, Axelsson M, Rosengren M, Jutfelt F, Gräns A. Extreme blood boosting capacity of an Antarctic fish represents an adaptation to life in a sub-zero environment. J Exp Biol 2019; 223:jeb.218164. [DOI: 10.1242/jeb.218164] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2019] [Accepted: 12/18/2019] [Indexed: 11/20/2022]
Abstract
Blood doping, the practice of boosting the oxygen carrying capacity of blood, is an illegal strategy used by human athletes to enhance aerobic capacity and athletic performance. Interestingly, the practice of boosting blood oxygen carrying capacity is also naturally prevalent in the animal kingdom via the splenic release of stored erythrocytes. Here we demonstrate that an Antarctic notothenioid fish, the bald notothen (Pagothenia borchgrevinki), is a master of this practice. Due to the sub-zero environment these fish inhabit, they sequester a large proportion of erythrocytes in the spleen during times of inactivity to reduce the energetic and physiological costs associated with continuously pumping highly viscous blood around the body. However, in response to metabolically demanding situations (i.e. exercise and feeding), these fish contract the spleen to eject stored erythrocytes into circulation, which boosts blood oxygen carrying capacity by up to 207% (c.f. exercise-induced increases of ∼40-60% in a range of other vertebrates and ∼5-25% in blood-doping athletes). By evaluating cardiorespiratory differences between splenectomized (unable to release erythrocytes from the spleen) and sham-operated individuals, we demonstrate the metabolic benefits (i.e. aerobic scope increased 103%) and the cardiovascular trade-offs (i.e. ventral aortic blood pressure and cardiac workload increased 12% and 30%, respectively) associated with the splenic blood boosting strategy. In conclusion, this strategy provides bald notothens with an extraordinary facultative aerobic scope that enables an active lifestyle in the extreme Antarctic marine environment, while minimizing the energetic and physiological costs of transporting highly viscous blood during times of reduced energetic demand.
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Affiliation(s)
- Jeroen Brijs
- Department of Animal Environment and Health, Swedish University of Agricultural Sciences, Gothenburg, 405 30, Sweden
| | - Michael Axelsson
- Department of Biological and Environmental Sciences, University of Gothenburg, Gothenburg, 405 30, Sweden
| | - Malin Rosengren
- Department of Marine Sciences, University of Gothenburg, Gothenburg, 405 30, Sweden
| | - Fredrik Jutfelt
- Department of Biology, Norwegian University of Science and Technology, Trondheim, 7491, Norway
| | - Albin Gräns
- Department of Animal Environment and Health, Swedish University of Agricultural Sciences, Gothenburg, 405 30, Sweden
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23
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Near TJ, MacGuigan DJ, Parker E, Struthers CD, Jones CD, Dornburg A. Phylogenetic analysis of Antarctic notothenioids illuminates the utility of RADseq for resolving Cenozoic adaptive radiations. Mol Phylogenet Evol 2018; 129:268-279. [PMID: 30195039 DOI: 10.1016/j.ympev.2018.09.001] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2018] [Revised: 08/31/2018] [Accepted: 09/01/2018] [Indexed: 10/28/2022]
Abstract
Notothenioids are a clade of ∼120 species of marine fishes distributed in extreme southern hemisphere temperate near-shore habitats and in the Southern Ocean surrounding Antarctica. Over the past 25 years, molecular and morphological approaches have redefined hypotheses of relationships among notothenioid lineages as well as their relationships among major lineages of percomorph teleosts. These phylogenies provide a basis for investigation of mechanisms of evolutionary diversification within the clade and have enhanced our understanding of the notothenioid adaptive radiation. Despite extensive efforts, there remain several questions concerning the phylogeny of notothenioids. In this study, we deploy DNA sequences of ∼100,000 loci obtained using RADseq to investigate the phylogenetic relationships of notothenioids and to assess the utility of RADseq loci for lineages that exhibit divergence times ranging from the Paleogene to the Quaternary. The notothenioid phylogenies inferred from the RADseq loci provide unparalleled resolution and node support for several long-standing problems including, (1) relationships among species of Trematomus, (2) resolution of Indonotothenia cyanobrancha as the sister lineage of Trematomus, (3) the deep paraphyly of Nototheniidae, (4) the paraphyly of Lepidonotothen s.l., (5) paraphyly of Artedidraco, and 6) the monophyly of the Bathydraconidae. Assessment of site rates demonstrates that RADseq loci are similar to mtDNA protein coding genes and exhibit peak phylogenetic informativeness at the time interval during which the major Antarctic notothenioid lineages originated and diversified. In addition to providing a well-resolved phylogenetic hypothesis for notothenioids, our analyses quantify the predicted utility of RADseq loci for Cenozoic phylogenetic inferences.
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Affiliation(s)
- Thomas J Near
- Department of Ecology & Evolutionary Biology, Yale University, P.O. Box 208106, New Haven, CT 06520, USA; Peabody Museum of Natural History, Yale University, New Haven, CT 06520, USA.
| | - Daniel J MacGuigan
- Department of Ecology & Evolutionary Biology, Yale University, P.O. Box 208106, New Haven, CT 06520, USA
| | - Elyse Parker
- Department of Ecology & Evolutionary Biology, Yale University, P.O. Box 208106, New Haven, CT 06520, USA
| | - Carl D Struthers
- Museum of New Zealand Te Papa Tongarewa, Wellington, New Zealand
| | - Christopher D Jones
- Antarctic Ecosystem Research Division, NOAA Southwest Fisheries Science Center, La Jolla, CA 92037, USA
| | - Alex Dornburg
- North Carolina Museum of Natural Sciences, Raleigh, NC 27601, USA
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24
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Cradles and museums of Antarctic teleost biodiversity. Nat Ecol Evol 2017; 1:1379-1384. [DOI: 10.1038/s41559-017-0239-y] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2017] [Accepted: 06/15/2017] [Indexed: 11/08/2022]
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25
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Verheye ML, Backeljau T, d'Udekem d'Acoz C. Locked in the icehouse: Evolution of an endemic Epimeria (Amphipoda, Crustacea) species flock on the Antarctic shelf. Mol Phylogenet Evol 2017; 114:14-33. [PMID: 28528744 DOI: 10.1016/j.ympev.2017.05.013] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2017] [Revised: 05/12/2017] [Accepted: 05/14/2017] [Indexed: 11/24/2022]
Abstract
The Antarctic shelf's marine biodiversity has been greatly influenced by the climatic and glacial history of the region. Extreme temperature changes led to the extinction of some lineages, while others adapted and flourished. The amphipod genus Epimeria is an example of the latter, being particularly diverse in the Antarctic region. By reconstructing a time-calibrated phylogeny based on mitochondrial (COI) and nuclear (28S and H3) markers and including Epimeria species from all oceans, this study provides a temporal and geographical framework for the evolution of Antarctic Epimeria. The monophyly of this genus is not supported by Bayesian Inference, as Antarctic and non-Antarctic Epimeria form two distinct well-supported clades, with Antarctic Epimeria being a sister clade to two stilipedid species. The monophyly of Antarctic Epimeria suggests that this clade evolved in isolation since its origin. While the precise timing of this origin remains unclear, it is inferred that the Antarctic lineage arose from a late Gondwanan ancestor and hence did not colonize the Antarctic region after the continent broke apart from the other fragments of Gondwanaland. The initial diversification of the clade occurred 38.04Ma (95% HPD [48.46Ma; 28.36Ma]) in a cooling environment. Adaptation to cold waters, along with the extinction of cold-intolerant taxa and resulting ecological opportunities, likely led to the successful diversification of Epimeria on the Antarctic shelf. However, there was neither evidence of a rapid lineage diversification early in the clade's history, nor of any shifts in diversification rates induced by glacial cycles. This suggests that a high turnover rate on the repeatedly scoured Antarctic shelf could have masked potential signals of diversification bursts.
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Affiliation(s)
- Marie L Verheye
- Royal Belgian Institute of Natural Sciences, OD Taxonomy and Phylogeny, rue Vautier 29, 1000 Brussels, Belgium; Catholic University of Louvain-la-Neuve, Department of Biology, Marine Biology Laboratory, Croix du Sud 3 bte L7.06.04, 1348 Louvain-la-Neuve, Belgium.
| | - Thierry Backeljau
- Royal Belgian Institute of Natural Sciences, OD Taxonomy and Phylogeny, rue Vautier 29, 1000 Brussels, Belgium; University of Antwerp, Evolutionary Ecology Group, Universiteitsplein 1, 2160 Antwerp, Belgium
| | - Cédric d'Udekem d'Acoz
- Royal Belgian Institute of Natural Sciences, OD Taxonomy and Phylogeny, rue Vautier 29, 1000 Brussels, Belgium
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26
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Garbuz DG, Evgen’ev MB. The evolution of heat shock genes and expression patterns of heat shock proteins in the species from temperature contrasting habitats. RUSS J GENET+ 2017. [DOI: 10.1134/s1022795417010069] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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27
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Ferreira MF, Varela ML, Lo Nostro F, Ansaldo M, Genovese G. Reproductive aspects of Notothenia rossii and N. coriiceps (Perciformes, Nototheniidae) at Potter Cove, 25 de Mayo (King George) Island during austral summer. Polar Biol 2016. [DOI: 10.1007/s00300-016-1918-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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28
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Assemblage characteristics and diet of fish in the shallow coastal waters of James Ross Island, Antarctica. Polar Biol 2016. [DOI: 10.1007/s00300-016-1896-z] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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29
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Todgham AE, Crombie TA, Hofmann GE. The effect of temperature adaptation on the ubiquitin-proteasome pathway in notothenioid fishes. J Exp Biol 2016; 220:369-378. [DOI: 10.1242/jeb.145946] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2016] [Accepted: 11/07/2016] [Indexed: 01/09/2023]
Abstract
There is an accumulating body of evidence suggesting that the sub-zero Antarctic marine environment places physiological constraints on protein homeostasis. Levels of ubiquitin (Ub)-conjugated proteins, 20S proteasome activity and mRNA expression of many proteins involved in both the ubiquitin (Ub) tagging of damaged proteins as well as the different complexes of the 26S proteasome were measured to examine whether there is thermal compensation of the Ub-proteasome pathway in Antarctic fishes to better understand the efficiency of the protein degradation machinery in polar species. Both Antarctic (Trematomus bernacchii, Pagothenia borchgrevinki) and non-Antarctic (Notothenia angustata, Bovichtus variegatus) notothenioids were included in this study to investigate the mechanisms of cold adaptation of this pathway in polar species. Overall, there were significant differences in the levels of Ub-conjugated proteins between the Antarctic notothenioids and B. variegatus, with N. angustata possessing levels very similar to the Antarctic fishes. Proteasome activity in the gills of Antarctic fishes demonstrated a high degree of temperature compensation such that activity levels were similar to activities measured in their temperate relatives at ecologically relevant temperatures. A similar level of thermal compensation of proteasome activity was not present in the liver of two Antarctic fishes. Higher gill proteasome activity is likely due in part to higher cellular levels of proteins involved in the Ub-proteasome pathway, as evidenced by high mRNA expression of relevant genes. Reduced activity of the Ub-proteasome pathway does not appear to be the mechanism responsible for elevated levels of denatured proteins in Antarctic fishes, at least in the gills.
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Affiliation(s)
- Anne E. Todgham
- Department of Animal Science, University of California, Davis, USA
| | | | - Gretchen E. Hofmann
- Department of Ecology, Evolution and Marine Biology, University of California, Santa Barbara, USA
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30
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Cascella K, Jollivet D, Papot C, Léger N, Corre E, Ravaux J, Clark MS, Toullec JY. Diversification, evolution and sub-functionalization of 70kDa heat-shock proteins in two sister species of antarctic krill: differences in thermal habitats, responses and implications under climate change. PLoS One 2015; 10:e0121642. [PMID: 25835552 PMCID: PMC4383606 DOI: 10.1371/journal.pone.0121642] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2014] [Accepted: 02/03/2015] [Indexed: 01/28/2023] Open
Abstract
BACKGROUND A comparative thermal tolerance study was undertaken on two sister species of Euphausiids (Antarctic krills) Euphausia superba and Euphausia crystallorophias. Both are essential components of the Southern Ocean ecosystem, but occupy distinct environmental geographical locations with slightly different temperature regimes. They therefore provide a useful model system for the investigation of adaptations to thermal tolerance. METHODOLOGY/PRINCIPAL FINDING Initial CTmax studies showed that E. superba was slightly more thermotolerant than E. crystallorophias. Five Hsp70 mRNAs were characterized from the RNAseq data of both species and subsequent expression kinetics studies revealed notable differences in induction of each of the 5 orthologues between the two species, with E. crystallorophias reacting more rapidly than E. superba. Furthermore, analyses conducted to estimate the evolutionary rates and selection strengths acting on each gene tended to support the hypothesis that diversifying selection has contributed to the diversification of this gene family, and led to the selective relaxation on the inducible C form with its possible loss of function in the two krill species. CONCLUSIONS The sensitivity of the epipelagic species E. crystallorophias to temperature variations and/or its adaptation to cold is enhanced when compared with its sister species, E. superba. These results indicate that ice krill could be the first of the two species to be impacted by the warming of coastal waters of the Austral ocean in the coming years due to climate change.
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Affiliation(s)
- Kévin Cascella
- Sorbonne Universités, UPMC Université Paris 06, UMR 7144 CNRS, Equipe ABICE, Station Biologique de Roscoff, 29680 Roscoff, France
- CNRS, UMR 7144, Adaptation et Diversité en Milieu Marin, Station Biologique de Roscoff, 29680 Roscoff, France
| | - Didier Jollivet
- Sorbonne Universités, UPMC Université Paris 06, UMR 7144 CNRS, Equipe ABICE, Station Biologique de Roscoff, 29680 Roscoff, France
- CNRS, UMR 7144, Adaptation et Diversité en Milieu Marin, Station Biologique de Roscoff, 29680 Roscoff, France
| | - Claire Papot
- Université de Lille1, CNRS UMR8198, Ecoimmunology of Marine Annelids, 59655 Villeneuve d’Ascq, France
| | - Nelly Léger
- Sorbonne Universités, UPMC Université Paris 06, UMR 7208 CNRS, Equipe AMEX, 75005 Paris, France
- CNRS 7208, BOREA, UPMC Université Paris 06, 75005 Paris, France
| | - Erwan Corre
- Sorbonne Universités, UPMC Université Paris 06, FR 2424 CNRS, ABiMS, Analysis and Bioinformatics for Marine Science, Station Biologique de Roscoff, 29680 Roscoff, France
- CNRS, FR 2424, Station Biologique de Roscoff, 29680 Roscoff, France
| | - Juliette Ravaux
- Sorbonne Universités, UPMC Université Paris 06, UMR 7208 CNRS, Equipe AMEX, 75005 Paris, France
- CNRS 7208, BOREA, UPMC Université Paris 06, 75005 Paris, France
| | - Melody S. Clark
- British Antarctic Survey, Natural Environment Research Council, High Cross, Madingley Road, Cambridge, CB3 0ET, United Kingdom
| | - Jean-Yves Toullec
- Sorbonne Universités, UPMC Université Paris 06, UMR 7144 CNRS, Equipe ABICE, Station Biologique de Roscoff, 29680 Roscoff, France
- CNRS, UMR 7144, Adaptation et Diversité en Milieu Marin, Station Biologique de Roscoff, 29680 Roscoff, France
- * E-mail:
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Low level of genetic divergence between Harpagifer fish species (Perciformes: Notothenioidei) suggests a Quaternary colonization of Patagonia from the Antarctic Peninsula. Polar Biol 2014. [DOI: 10.1007/s00300-014-1623-6] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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32
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Effect of temperature acclimation on the liver antioxidant defence system of the Antarctic nototheniids Notothenia coriiceps and Notothenia rossii. Comp Biochem Physiol B Biochem Mol Biol 2014; 172-173:21-8. [DOI: 10.1016/j.cbpb.2014.02.003] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2013] [Revised: 02/25/2014] [Accepted: 02/27/2014] [Indexed: 11/21/2022]
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Convey P, Chown SL, Clarke A, Barnes DKA, Bokhorst S, Cummings V, Ducklow HW, Frati F, Green TGA, Gordon S, Griffiths HJ, Howard-Williams C, Huiskes AHL, Laybourn-Parry J, Lyons WB, McMinn A, Morley SA, Peck LS, Quesada A, Robinson SA, Schiaparelli S, Wall DH. The spatial structure of Antarctic biodiversity. ECOL MONOGR 2014. [DOI: 10.1890/12-2216.1] [Citation(s) in RCA: 232] [Impact Index Per Article: 23.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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Brown A, Thatje S. Explaining bathymetric diversity patterns in marine benthic invertebrates and demersal fishes: physiological contributions to adaptation of life at depth. Biol Rev Camb Philos Soc 2014; 89:406-26. [PMID: 24118851 PMCID: PMC4158864 DOI: 10.1111/brv.12061] [Citation(s) in RCA: 92] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2012] [Revised: 08/01/2013] [Accepted: 08/14/2013] [Indexed: 12/01/2022]
Abstract
Bathymetric biodiversity patterns of marine benthic invertebrates and demersal fishes have been identified in the extant fauna of the deep continental margins. Depth zonation is widespread and evident through a transition between shelf and slope fauna from the shelf break to 1000 m, and a transition between slope and abyssal fauna from 2000 to 3000 m; these transitions are characterised by high species turnover. A unimodal pattern of diversity with depth peaks between 1000 and 3000 m, despite the relatively low area represented by these depths. Zonation is thought to result from the colonisation of the deep sea by shallow-water organisms following multiple mass extinction events throughout the Phanerozoic. The effects of low temperature and high pressure act across hierarchical levels of biological organisation and appear sufficient to limit the distributions of such shallow-water species. Hydrostatic pressures of bathyal depths have consistently been identified experimentally as the maximum tolerated by shallow-water and upper bathyal benthic invertebrates at in situ temperatures, and adaptation appears required for passage to deeper water in both benthic invertebrates and demersal fishes. Together, this suggests that a hyperbaric and thermal physiological bottleneck at bathyal depths contributes to bathymetric zonation. The peak of the unimodal diversity-depth pattern typically occurs at these depths even though the area represented by these depths is relatively low. Although it is recognised that, over long evolutionary time scales, shallow-water diversity patterns are driven by speciation, little consideration has been given to the potential implications for species distribution patterns with depth. Molecular and morphological evidence indicates that cool bathyal waters are the primary site of adaptive radiation in the deep sea, and we hypothesise that bathymetric variation in speciation rates could drive the unimodal diversity-depth pattern over time. Thermal effects on metabolic-rate-dependent mutation and on generation times have been proposed to drive differences in speciation rates, which result in modern latitudinal biodiversity patterns over time. Clearly, this thermal mechanism alone cannot explain bathymetric patterns since temperature generally decreases with depth. We hypothesise that demonstrated physiological effects of high hydrostatic pressure and low temperature at bathyal depths, acting on shallow-water taxa invading the deep sea, may invoke a stress-evolution mechanism by increasing mutagenic activity in germ cells, by inactivating canalisation during embryonic or larval development, by releasing hidden variation or mutagenic activity, or by activating or releasing transposable elements in larvae or adults. In this scenario, increased variation at a physiological bottleneck at bathyal depths results in elevated speciation rate. Adaptation that increases tolerance to high hydrostatic pressure and low temperature allows colonisation of abyssal depths and reduces the stress-evolution response, consequently returning speciation of deeper taxa to the background rate. Over time this mechanism could contribute to the unimodal diversity-depth pattern.
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Affiliation(s)
- Alastair Brown
- Ocean and Earth Science, University of Southampton, National Oceanography Centre SouthamptonEuropean Way, Southampton, SO14 3ZH, U.K.
| | - Sven Thatje
- Ocean and Earth Science, University of Southampton, National Oceanography Centre SouthamptonEuropean Way, Southampton, SO14 3ZH, U.K.
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35
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Peck LS, Morley SA, Richard J, Clark MS. Acclimation and thermal tolerance in Antarctic marine ectotherms. J Exp Biol 2014; 217:16-22. [DOI: 10.1242/jeb.089946] [Citation(s) in RCA: 148] [Impact Index Per Article: 14.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Antarctic marine species have evolved in one of the coldest and most temperature-stable marine environments on Earth. They have long been classified as being stenothermal, or having a poor capacity to resist warming. Here we show that their ability to acclimate their physiology to elevated temperatures is poor compared with species from temperate latitudes, and similar to those from the tropics. Those species that have been demonstrated to acclimate take a very long time to do so, with Antarctic fish requiring up to 21–36 days to acclimate, which is 2–4 times as long as temperate species, and invertebrates requiring between 2 and 5 months to complete whole-animal acclimation. Investigations of upper thermal tolerance (CTmax) in Antarctic marine species have shown that as the rate of warming is reduced in experiments, CTmax declines markedly, ranging from 8 to 17.5°C across 13 species at a rate of warming of 1°C day−1, and from 1 to 6°C at a rate of 1°C month−1. This effect of the rate of warming on CTmax also appears to be present at all latitudes. A macrophysiological analysis of long-term CTmax across latitudes for marine benthic groups showed that both Antarctic and tropical species were less resistant to elevated temperatures in experiments and thus had lower warming allowances (measured as the difference between long-term CTmax and experienced environmental temperature), or warming resistance, than temperate species. This makes them more at risk from warming than species from intermediate latitudes. This suggests that the variability of environmental temperature may be a major factor in dictating an organism's responses to environmental change.
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Affiliation(s)
- Lloyd S. Peck
- British Antarctic Survey, High Cross, Madingley Road, Cambridge CB3 0ET, UK
| | - Simon A. Morley
- British Antarctic Survey, High Cross, Madingley Road, Cambridge CB3 0ET, UK
| | - Joëlle Richard
- European Institute of Marine Studies, Marine Environmental Sciences Laboratory LEMAR UMR6539, Rue Dumont D'Urville, 29280 Plouzané, France
| | - Melody S. Clark
- British Antarctic Survey, High Cross, Madingley Road, Cambridge CB3 0ET, UK
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36
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Corrigan LJ, Horton T, Fotherby H, White TA, Hoelzel AR. Adaptive Evolution of Deep-Sea Amphipods from the Superfamily Lysiassanoidea in the North Atlantic. Evol Biol 2013. [DOI: 10.1007/s11692-013-9255-2] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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37
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Lautrédou AC, Hinsinger D, Gallut C, Cheng CH, Berkani M, Ozouf-Costaz C, Cruaud C, Lecointre G, Dettai A. Phylogenetic footprints of an Antarctic radiation: The Trematominae (Notothenioidei, Teleostei). Mol Phylogenet Evol 2012; 65:87-101. [DOI: 10.1016/j.ympev.2012.05.032] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2011] [Revised: 05/11/2012] [Accepted: 05/25/2012] [Indexed: 10/28/2022]
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Cloning and characterization of a Δ9-desaturase gene of the Antarctic fish Chionodraco hamatus and Trematomus bernacchii. J Comp Physiol B 2012; 183:379-92. [PMID: 23007833 DOI: 10.1007/s00360-012-0702-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2012] [Revised: 07/30/2012] [Accepted: 08/04/2012] [Indexed: 11/27/2022]
Abstract
Chionodraco hamatus and Trematomus bernacchii are perciforms, members of the fish suborder Notothenioidei that live in the Antarctic Ocean and experience very cold and persistent environmental temperature. These fish have biochemical and molecular features that allow them to live at these extreme cold temperatures. Fine tuning of the level of unsaturated fatty acids content in membrane is a key mechanism of living organisms to adapt to cold and high temperatures. Desaturases are key enzymes that synthesize unsaturated fatty acyl-CoAs from saturated fatty acids. We cloned and sequenced a Δ(9)-desaturase gene and its cDNA of C. hamatus, and the cDNA of T. bernacchii. The coded proteins are virtually identical and share homology to other Δ(9)-desaturase fish sequences. These proteins contain, in the first trans-membrane domain, two cysteine residues that may form a disulfur bond present in the corresponding membrane region of Δ(9)-desaturase proteins of other Antarctic fish but not in Eleginops maclovinus that experiences higher environmental temperatures and in all other Δ(9)-desaturase genes of mammals present in data bases. C. hamatus Δ(9)-desaturase gene complements a Saccharomyces cerevisiae mutant lacking Δ(9)-desaturase (Ole1) gene. Analysis of sequence homology of the trans-membrane domains of Δ(9)-desaturase and the cytoplasmic region of the same proteins of Antarctic fish, non-Antarctic fish and mammals suggest that the significant differences found in the homologous sequences of the first trans-membrane domain may be due to the specific lipid content of their membrane.
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39
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40
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Comparative population genetics of seven notothenioid fish species reveals high levels of gene flow along ocean currents in the southern Scotia Arc, Antarctica. Polar Biol 2012. [DOI: 10.1007/s00300-012-1155-x] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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41
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42
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Buoyancy of sub-Antarctic notothenioids including the sister lineage of all other notothenioids (Bovichtidae). Polar Biol 2011. [DOI: 10.1007/s00300-011-1037-7] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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43
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Branco S, Ree RH. Serpentine soils do not limit mycorrhizal fungal diversity. PLoS One 2010; 5:e11757. [PMID: 20668696 PMCID: PMC2909254 DOI: 10.1371/journal.pone.0011757] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2010] [Accepted: 06/24/2010] [Indexed: 12/02/2022] Open
Abstract
BACKGROUND Physiologically stressful environments tend to host depauperate and specialized biological communities. Serpentine soils exemplify this phenomenon by imposing well-known constraints on plants; however, their effect on other organisms is still poorly understood. METHODOLOGY/PRINCIPAL FINDINGS We used a combination of field and molecular approaches to test the hypothesis that serpentine fungal communities are species-poor and specialized. We conducted surveys of ectomycorrhizal fungal diversity from adjacent serpentine and non-serpentine sites, described fungal communities using nrDNA Internal Transcribed Spacer (ITS) fragment and sequence analyses, and compared their phylogenetic community structure. Although we detected low fungal overlap across the two habitats, we found serpentine soils to support rich fungal communities that include representatives from all major fungal lineages. We failed to detect the phylogenetic signature of endemic clades that would result from specialization and adaptive radiation within this habitat. CONCLUSIONS/SIGNIFICANCE Our results indicate that serpentine soils do not constitute an extreme environment for ectomycorrhizal fungi, and raise important questions about the role of symbioses in edaphic tolerance and the maintenance of biodiversity.
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Affiliation(s)
- Sara Branco
- Committee on Evolutionary Biology, University of Chicago, Chicago, Illinois, United States of America.
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44
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González-Wevar CA, Nakano T, Cañete JI, Poulin E. Molecular phylogeny and historical biogeography of Nacella (Patellogastropoda: Nacellidae) in the Southern Ocean. Mol Phylogenet Evol 2010; 56:115-24. [DOI: 10.1016/j.ympev.2010.02.001] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2009] [Revised: 01/29/2010] [Accepted: 02/01/2010] [Indexed: 10/19/2022]
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45
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Larmuseau MH, Huyse T, Vancampenhout K, Van Houdt JK, Volckaert FA. High molecular diversity in the rhodopsin gene in closely related goby fishes: A role for visual pigments in adaptive speciation? Mol Phylogenet Evol 2010; 55:689-98. [DOI: 10.1016/j.ympev.2009.10.007] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2009] [Revised: 10/02/2009] [Accepted: 10/06/2009] [Indexed: 10/20/2022]
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46
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Thorne MAS, Burns G, Fraser KPP, Hillyard G, Clark MS. Transcription profiling of acute temperature stress in the Antarctic plunderfish Harpagifer antarcticus. Mar Genomics 2010; 3:35-44. [PMID: 21798195 DOI: 10.1016/j.margen.2010.02.002] [Citation(s) in RCA: 56] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2009] [Revised: 02/03/2010] [Accepted: 02/11/2010] [Indexed: 11/15/2022]
Abstract
Harpagifer antarcticus (the Antarctic plunderfish), a shallow-water benthic fish distributed around the Antarctic Peninsula, is a member of the notothenioid family, one of whose adaptations to the cold waters of Antarctica has been the loss of the classic heat shock response. In order to gain a more comprehensive understanding of the effects of temperature stress on H. antarcticus, we constructed a liver cDNA library and a 10,371 feature microarray. This was hybridized with material from a time course series of animals held at 6°C for 48h. The resulting expression profiles show that this fish displays the classical vertebrate acute inflammatory response. There was also a pronounced signal for increased energy requirements via up-regulation of genes involved in the β oxidation of fatty acids and also a strong signature of response to oxidative stress. Genes in the latter category did not include the "classic" antioxidants such as glutathione S-transferase, but genes involved in the production of reducing potential in the form of NADPH, peroxisome proliferation via peroxisomal acyl co-enzyme A oxidase 1 and genes known to be up-regulated by hypoxia-inducible factor 1 (HIF1). These identifications provide clear support for oxygen being the whole animal limiting factor at least in acute short-term temperature challenges. The classical heat shock proteins were not up-regulated during this trial, although numerous clones for each were present on the gene chip, confirming the lack of this response in this species. These data significantly increase our knowledge of the cellular stress response from animals in this unique environment.
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Affiliation(s)
- M A S Thorne
- British Antarctic Survey, Natural Environment Research Council, High Cross, Madingley Road, Cambridge, UK
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47
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Giordano D, Russo R, Coppola D, di Prisco G, Verde C. Molecular adaptations in haemoglobins of notothenioid fishes. JOURNAL OF FISH BIOLOGY 2010; 76:301-318. [PMID: 20738709 DOI: 10.1111/j.1095-8649.2009.02528.x] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
Abstract
Since haemoglobins of all animal species have the same haem group, differences in their properties, including oxygen affinity, electrophoretic mobility and pH sensitivity, must result from the interaction of the prosthetic group with specific amino-acid residues in the primary structure. For this reason, fish globins have been the subject of extensive studies in recent years, not only for their structural characteristics, but also because they offer the possibility to investigate the evolutionary history of these ancient molecules in marine and freshwater species living in a great variety of environmental conditions. This review summarizes the current knowledge on the structure, function and phylogeny of haemoglobins of notothenioid fishes. On the basis of crystallographic analysis, the evolution of the Root effect is analysed. Adaptation of the oxygen transport system in notothenioids seems to be based on evolutionary changes, involving levels of biological organization higher than the structure of haemoglobin. These include changes in the rate of haemoglobin synthesis or in regulation by allosteric effectors, which affect the amount of oxygen transported in blood. These factors are thought to be more important for short-term response to environmental challenges than previously believed.
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Affiliation(s)
- D Giordano
- Institute of Protein Biochemistry, CNR, Via Pietro Castellino 111, I-80131 Naples, Italy
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48
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Hill J, Egginton S. Control of Branchial Artery Tone in Fish: Effects of Environmental Temperature and Phylogeny. Physiol Biochem Zool 2010; 83:33-42. [DOI: 10.1086/648469] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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49
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Abstract
Absolute barriers to dispersal are not common in marine systems, and the prevalence of planktonic larvae in marine taxa provides potential for gene flow across large geographic distances. These observations raise the fundamental question in marine evolutionary biology as to whether geographic and oceanographic barriers alone can account for the high levels of species diversity observed in marine environments such as coral reefs, or whether marine speciation also operates in the presence of gene flow between diverging populations. In this respect, the ecological hypothesis of speciation, in which reproductive isolation results from divergent or disruptive natural selection, is of particular interest because it may operate in the presence of gene flow. Although important insights into the process of ecological speciation in aquatic environments have been provided by the study of freshwater fishes, comparatively little is known about the possibility of ecological speciation in marine teleosts. In this study, the evidence consistent with different aspects of the ecological hypothesis of speciation is evaluated in marine fishes. Molecular approaches have played a critical role in the development of speciation hypotheses in marine fishes, with a role of ecology suggested by the occurrence of sister clades separated by ecological factors, rapid cladogenesis or the persistence of genetically and ecologically differentiated species in the presence of gene flow. Yet, ecological speciation research in marine fishes is still largely at an exploratory stage. Cases where the major ingredients of ecological speciation, namely a source of natural divergent or disruptive selection, a mechanism of reproductive isolation and a link between the two have been explicitly documented are few. Even in these cases, specific predictions of the ecological hypothesis of speciation remain largely untested. Recent developments in the study of freshwater fishes illustrate the potential for molecular approaches to address specific questions related to the ecological hypothesis of speciation such as the nature of the genes underlying key ecological traits, the magnitude of their effect on phenotype and the mechanisms underlying their differential expression in different ecological contexts. The potential provided by molecular studies is fully realized when they are complemented with alternative (e.g. ecological, theoretical) approaches.
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Affiliation(s)
- O Puebla
- Smithsonian Tropical Research Institute, Apartado Postal 0843-03092, Balboa, Ancon, Republic of Panama.
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50
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La Mesa M, Caputo V, Eastman JT. Some reproductive traits of the Tristan klipfish, Bovichtus diacanthus (Carmichael 1819) (Notothenioidei: Bovichtidae) from Tristan da Cunha (South Atlantic). Polar Biol 2009. [DOI: 10.1007/s00300-009-0710-6] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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