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Bilyk KT, Zhuang X, Papetti C. Positive and Relaxed Selective Pressures Have Both Strongly Influenced the Evolution of Cryonotothenioid Fishes during Their Radiation in the Freezing Southern Ocean. Genome Biol Evol 2023; 15:evad049. [PMID: 36951069 PMCID: PMC10078794 DOI: 10.1093/gbe/evad049] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2022] [Revised: 03/02/2023] [Accepted: 03/14/2023] [Indexed: 03/24/2023] Open
Abstract
Evolution in the chronic cold of the Southern Ocean has had a profound influence on the physiology of cryonotothenioid fishes. However, the suite of genetic changes underlying the physiological gains and losses in these fishes is still poorly surveyed. By identifying the genomic signatures of selection, this study aims to identify the functional classes of genes that have been changed following two major physiological transitions: the onset of freezing temperatures and the loss of hemoproteins. Looking at the changes that followed the onset of freezing temperatures, positive selective pressure was found among a set of broadly acting gene regulatory factors, suggesting a route through which cryonotothenioid gene expression has been retooled for life in the cold. Further, genes related to the cell cycle and cellular adhesion were found under positive selection suggesting that both present key challenges to life in freezing waters. By contrast, genes showing signatures of the relaxation of selective pressure showed a narrower biological impact, acting on genes related to mitochondrial function. Finally, although chronic cold-water temperatures appear correlated with substantial genetic change, the loss of hemoproteins resulted in little observable change in protein-coding genes relative to their red-blooded relatives. Combined, the influence of positive and relaxed selection shows that long-term exposure to cold has led to profound changes in cryonotothenioid genomes that may make it challenging for them to adapt to a rapidly changing climate.
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Affiliation(s)
- Kevin T Bilyk
- Department of Biology, Montclair State University, New Jersey
| | - Xuan Zhuang
- Department of Biological Sciences, University of Arkansas, Fayetteville
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Blasiak R, Jouffray JB, Amon DJ, Moberg F, Claudet J, Søgaard Jørgensen P, Pranindita A, Wabnitz CCC, Österblom H. A forgotten element of the blue economy: marine biomimetics and inspiration from the deep sea. PNAS NEXUS 2022; 1:pgac196. [PMID: 36714844 PMCID: PMC9802412 DOI: 10.1093/pnasnexus/pgac196] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
The morphology, physiology, and behavior of marine organisms have been a valuable source of inspiration for solving conceptual and design problems. Here, we introduce this rich and rapidly expanding field of marine biomimetics, and identify it as a poorly articulated and often overlooked element of the ocean economy associated with substantial monetary benefits. We showcase innovations across seven broad categories of marine biomimetic design (adhesion, antifouling, armor, buoyancy, movement, sensory, stealth), and use this framing as context for a closer consideration of the increasingly frequent focus on deep-sea life as an inspiration for biomimetic design. We contend that marine biomimetics is not only a "forgotten" sector of the ocean economy, but has the potential to drive appreciation of nonmonetary values, conservation, and stewardship, making it well-aligned with notions of a sustainable blue economy. We note, however, that the highest ambitions for a blue economy are that it not only drives sustainability, but also greater equity and inclusivity, and conclude by articulating challenges and considerations for bringing marine biomimetics onto this trajectory.
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Affiliation(s)
- Robert Blasiak
- To whom correspondence should be addressed: Robert Blasiak, Stockholm Resilience Centre, Stockholm University, 106 91, Stockholm, Sweden.
| | | | - Diva J Amon
- SpeSeas, D'Abadie, Trinidad and Tobago,Marine Science Institute, University of California, Santa Barbara, CA 93106, USA
| | - Fredrik Moberg
- Stockholm Resilience Centre, Stockholm University, 106 91 Stockholm, Sweden
| | - Joachim Claudet
- National Center for Scientific Research, PSL Université Paris, CRIOBE, CNRS-EPHE-UPVD, Maison de l'Océan, 195 rue Saint-Jacques, 75005 Paris, France
| | - Peter Søgaard Jørgensen
- Stockholm Resilience Centre, Stockholm University, 106 91 Stockholm, Sweden,The Global Economic Dynamics and the Biosphere Academy Program, Royal Swedish Academy of Science, 104 05 Stockholm, Sweden
| | - Agnes Pranindita
- Stockholm Resilience Centre, Stockholm University, 106 91 Stockholm, Sweden
| | - Colette C C Wabnitz
- Stanford Center for Ocean Solutions, Stanford University, 473 Via Ortega, Stanford, CA 94305, USA,Institute for the Oceans and Fisheries, The University of British Columbia, 2202 Main Mall, Vancouver, BC V6T1Z4, Canada
| | - Henrik Österblom
- Stockholm Resilience Centre, Stockholm University, 106 91 Stockholm, Sweden,Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1, Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan,South American Institute for Resilience and Sustainability Studies, CP 20200 Maldonado, Uruguay
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Ebanks B, Katyal G, Lucassen M, Papetti C, Chakrabarti L. Proteomic analysis of the ATP synthase interactome in notothenioids highlights a pathway that inhibits ceruloplasmin production. Am J Physiol Regul Integr Comp Physiol 2022; 323:R181-R192. [PMID: 35639858 PMCID: PMC9291420 DOI: 10.1152/ajpregu.00069.2022] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Antarctic notothenioids have unique adaptations that allow them to thrive in sub-zero Antarctic waters. Within the suborder Notothenioidei, species of the family Channichthyidae (icefish) lack haemoglobin and in some instances myoglobin too. In studies of mitochondrial function of notothenioids, few have focussed specifically on ATP synthase. In this study, we find that the icefish Champsocephalus gunnari has a significantly higher level of ATP synthase subunit α expression than in red-blooded Notothenia rossii, but a much smaller interactome than the other species. We characterise the interactome of ATP synthase subunit a in two red-blooded species Trematomus bernacchii, N. rossii, and in the icefish Chionodraco rastrospinosus, and C. gunnari and find that in comparison with the other species, reactome enrichment for C. gunnari lacks chaperonin-mediated protein folding, and fewer oxidative-stress-associated proteins are present in the identified interactome of C. gunnari. Reactome enrichment analysis also identifies a transcript-specific translational silencing pathway for the iron oxidase protein ceruloplasmin, which has previously been reported in studies of icefish as distinct from other red-blooded fish and vertebrates in its activity and RNA transcript expression. Ceruloplasmin protein expression is detected by Western blot in the liver of T. bernacchii, but not in N. rossii, C. rastrospinosus, and C. gunnari. We suggest that the translation of ceruloplasmin transcripts is silenced by the identified pathway in icefish notothenioids, which is indicative of altered iron metabolism and Fe(II) detoxification.
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Affiliation(s)
- Brad Ebanks
- School of Veterinary Medicine and Science, University of Nottingham, Nottingham, United Kingdom
| | - Gunjan Katyal
- School of Veterinary Medicine and Science, University of Nottingham, Nottingham, United Kingdom
| | | | | | - Lisa Chakrabarti
- School of Veterinary Medicine and Science, University of Nottingham, Nottingham, United Kingdom.,MRC Versus Arthritis Centre for Musculoskeletal Ageing Research, United Kingdom
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4
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Spatial patterns and behaviour of notothenioid fishes off the northern Antarctic Peninsula. Polar Biol 2022. [DOI: 10.1007/s00300-022-03047-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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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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Daane JM, William Detrich H. Adaptations and Diversity of Antarctic Fishes: A Genomic Perspective. Annu Rev Anim Biosci 2021; 10:39-62. [PMID: 34748709 DOI: 10.1146/annurev-animal-081221-064325] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Antarctic notothenioid fishes are the classic example of vertebrate adaptive radiation in a marine environment. Notothenioids diversified from a single common ancestor ∼25 Mya to more than 140 species today, and they represent ∼90% of fish biomass on the continental shelf of Antarctica. As they diversified in the cold Southern Ocean, notothenioids evolved numerous traits, including osteopenia, anemia, cardiomegaly, dyslipidemia, and aglomerular kidneys, that are beneficial or tolerated in their environment but are pathological in humans. Thus, notothenioids are models for understanding adaptive radiations, physiological and biochemical adaptations to extreme environments, and genetic mechanisms of human disease. Since 2014, 16 notothenioid genomes have been published, which enable a first-pass holistic analysis of the notothenioid radiation and the genetic underpinnings of novel notothenioid traits. Here, we review the notothenioid radiation from a genomic perspective and integrate our insights with recent observations from other fish radiations. Expected final online publication date for the Annual Review of Animal Biosciences, Volume 10 is February 2022. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
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Affiliation(s)
- Jacob M Daane
- Department of Marine and Environmental Sciences, Northeastern University Marine Science Center, Nahant, Massachusetts, USA
| | - H William Detrich
- Department of Marine and Environmental Sciences, Northeastern University Marine Science Center, Nahant, Massachusetts, USA
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La Mesa M, Donato F, Riginella E. Biological aspects of a rare nototheniid fish, Trematomus tokarevi, from the Weddell Sea (Antarctica). Polar Biol 2021. [DOI: 10.1007/s00300-021-02928-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Ashique AM, Atake OJ, Ovens K, Guo R, Pratt IV, Detrich HW, Cooper DML, Desvignes T, Postlethwait JH, Eames BF. Bone microstructure and bone mineral density are not systemically different in Antarctic icefishes and related Antarctic notothenioids. J Anat 2021; 240:34-49. [PMID: 34423431 PMCID: PMC8655173 DOI: 10.1111/joa.13537] [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: 02/05/2021] [Revised: 08/05/2021] [Accepted: 08/09/2021] [Indexed: 12/17/2022] Open
Abstract
Ancestors of the Antarctic icefishes (family Channichthyidae) were benthic and had no swim bladder, making it energetically expensive to rise from the ocean floor. To exploit the water column, benthopelagic icefishes were hypothesized to have evolved a skeleton with “reduced bone,” which gross anatomical data supported. Here, we tested the hypothesis that changes to icefish bones also occurred below the level of gross anatomy. Histology and micro‐CT imaging of representative craniofacial bones (i.e., ceratohyal, frontal, dentary, and articular) of extant Antarctic fish species specifically evaluated two features that might cause the appearance of “reduced bone”: bone microstructure (e.g., bone volume fraction and structure linear density) and bone mineral density (BMD, or mass of mineral per volume of bone). Measures of bone microstructure were not consistently different in bones from the icefishes Chaenocephalus aceratus and Champsocephalus gunnari, compared to the related benthic notothenioids Notothenia coriiceps and Gobionotothen gibberifrons. Some quantitative measures, such as bone volume fraction and structure linear density, were significantly increased in some icefish bones compared to homologous bones of non‐icefish. However, such differences were rare, and no microstructural measures were consistently different in icefishes across all bones and species analyzed. Furthermore, BMD was similar among homologous bones of icefish and non‐icefish Antarctic notothenioids. In summary, “reduced bone” in icefishes was not due to systemic changes in bone microstructure or BMD, raising the prospect that “reduced bone” in icefish occurs only at the gross anatomic level (i.e., smaller or fewer bones). Given that icefishes exhibit delayed skeletal development compared to non‐icefish Antarctic fishes, combining these phenotypic data with genomic data might clarify genetic changes driving skeletal heterochrony.
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Affiliation(s)
- Amir M Ashique
- Anatomy, Physiology, and Pharmacology, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
| | - Oghenevwogaga J Atake
- Anatomy, Physiology, and Pharmacology, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
| | - Katie Ovens
- Augmented Intelligence & Precision Health Laboratory (AIPHL), McGill University, Montreal, Quebec, Canada
| | - Ruiyi Guo
- Anatomy, Physiology, and Pharmacology, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
| | - Isaac V Pratt
- Anatomy, Physiology, and Pharmacology, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
| | - H William Detrich
- Marine and Environmental Sciences, Northeastern University Marine Science Center, Nahant, Massachusetts, USA
| | - David M L Cooper
- Anatomy, Physiology, and Pharmacology, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
| | - Thomas Desvignes
- Institute of Neuroscience, University of Oregon, Eugene, Oregon, USA
| | | | - B Frank Eames
- Anatomy, Physiology, and Pharmacology, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
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Parental care and demography of a spawning population of the channichthyid Neopagetopsis ionah, Nybelin 1947 from the Weddell Sea. Polar Biol 2021. [DOI: 10.1007/s00300-021-02913-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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