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Huerlimann R, Roux N, Maeda K, Pilieva P, Miura S, Chen HC, Izumiyama M, Laudet V, Ravasi T. The transcriptional landscape underlying larval development and metamorphosis in the Malabar grouper ( Epinephelus malabaricus). eLife 2024; 13:RP94573. [PMID: 39120998 PMCID: PMC11315451 DOI: 10.7554/elife.94573] [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] [Indexed: 08/11/2024] Open
Abstract
Most teleost fishes exhibit a biphasic life history with a larval oceanic phase that is transformed into morphologically and physiologically different demersal, benthic, or pelagic juveniles. This process of transformation is characterized by a myriad of hormone-induced changes, during the often abrupt transition between larval and juvenile phases called metamorphosis. Thyroid hormones (TH) are known to be instrumental in triggering and coordinating this transformation but other hormonal systems such as corticoids, might be also involved as it is the case in amphibians. In order to investigate the potential involvement of these two hormonal pathways in marine fish post-embryonic development, we used the Malabar grouper (Epinephelus malabaricus) as a model system. We assembled a chromosome-scale genome sequence and conducted a transcriptomic analysis of nine larval developmental stages. We studied the expression patterns of genes involved in TH and corticoid pathways, as well as four biological processes known to be regulated by TH in other teleost species: ossification, pigmentation, visual perception, and metabolism. Surprisingly, we observed an activation of many of the same pathways involved in metamorphosis also at an early stage of the larval development, suggesting an additional implication of these pathways in the formation of early larval features. Overall, our data brings new evidence to the controversial interplay between corticoids and thyroid hormones during metamorphosis as well as, surprisingly, during the early larval development. Further experiments will be needed to investigate the precise role of both pathways during these two distinct periods and whether an early activation of both corticoid and TH pathways occurs in other teleost species.
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Affiliation(s)
- Roger Huerlimann
- Marine Climate Change Unit, Okinawa Institute of Science and Technology Graduate UniversityOnna-sonJapan
- Centre for Sustainable Tropical Fisheries and Aquaculture, College of Science and Engineering, James Cook UniversityTownsvilleAustralia
| | - Natacha Roux
- Computational Neuroethology Unit, Okinawa Institute of Science and Technology Graduate UniversityOnna-sonJapan
| | - Ken Maeda
- Marine Eco-Evo-Devo Unit, Okinawa Institute of Science and Technology Graduate UniversityOnna-sonJapan
| | - Polina Pilieva
- Marine Eco-Evo-Devo Unit, Okinawa Institute of Science and Technology Graduate UniversityOnna-sonJapan
| | - Saori Miura
- Marine Eco-Evo-Devo Unit, Okinawa Institute of Science and Technology Graduate UniversityOnna-sonJapan
| | - Hsiao-chian Chen
- Marine Climate Change Unit, Okinawa Institute of Science and Technology Graduate UniversityOnna-sonJapan
- Marine Eco-Evo-Devo Unit, Okinawa Institute of Science and Technology Graduate UniversityOnna-sonJapan
| | - Michael Izumiyama
- Marine Climate Change Unit, Okinawa Institute of Science and Technology Graduate UniversityOnna-sonJapan
| | - Vincent Laudet
- Marine Eco-Evo-Devo Unit, Okinawa Institute of Science and Technology Graduate UniversityOnna-sonJapan
- Marine Research Station, Institute of Cellular and Organismic Biology, Academia SinicaJiau ShiTaiwan
| | - Timothy Ravasi
- Marine Climate Change Unit, Okinawa Institute of Science and Technology Graduate UniversityOnna-sonJapan
- Australian Research Council Centre of Excellence for Coral Reef Studies, James Cook UniversityTownsvilleAustralia
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2
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Richardson EL, Marshall DJ. Mapping the correlations and gaps in studies of complex life histories. Ecol Evol 2023; 13:e9809. [PMID: 36820248 PMCID: PMC9937794 DOI: 10.1002/ece3.9809] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2022] [Revised: 01/16/2023] [Accepted: 01/23/2023] [Indexed: 02/19/2023] Open
Abstract
For species with complex life histories, phenotypic correlations between life-history stages constrain both ecological and evolutionary trajectories. Studies that seek to understand correlations across the life history differ greatly in their experimental approach: some follow individuals ("individual longitudinal"), while others follow cohorts ("cohort longitudinal"). Cohort longitudinal studies risk confounding results through Simpson's Paradox, where correlations observed at the cohort level do not match that of the individual level. Individual longitudinal studies are laborious in comparison, but provide a more reliable test of correlations across life-history stages. Our understanding of the prevalence, strength, and direction of phenotypic correlations depends on the approaches that we use, but the relative representation of different approaches remains unknown. Using marine invertebrates as a model group, we used a formal, systematic literature map to screen 17,000+ papers studying complex life histories, and characterized the study type (i.e., cohort longitudinal, individual longitudinal, or single stage), as well as other factors. For 3315 experiments from 1716 articles, 67% focused on a single stage, 31% were cohort longitudinal and just 1.7% used an individual longitudinal approach. While life-history stages have been studied extensively, we suggest that the field prioritize individual longitudinal studies to understand the phenotypic correlations among stages.
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Affiliation(s)
- Emily L. Richardson
- Centre for Geometric Biology, School of Biological SciencesMonash UniversityMelbourneVictoriaAustralia
| | - Dustin J. Marshall
- Centre for Geometric Biology, School of Biological SciencesMonash UniversityMelbourneVictoriaAustralia
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3
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Roche RC, Heenan A, Taylor BM, Schwarz JN, Fox MD, Southworth LK, Williams GJ, Turner JR. Linking variation in planktonic primary production to coral reef fish growth and condition. ROYAL SOCIETY OPEN SCIENCE 2022; 9:201012. [PMID: 36061523 DOI: 10.6084/m9.figshare.c.6156452] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Accepted: 08/09/2022] [Indexed: 05/25/2023]
Abstract
Within low-nutrient tropical oceans, islands and atolls with higher primary production support higher fish biomass and reef organism abundance. External energy subsidies can be delivered onto reefs via a range of physical mechanisms. However, the influence of spatial variation in primary production on reef fish growth and condition is largely unknown. It is not yet clear how energy subsidies interact with reef depth and slope. Here we test the hypothesis that with increased proximity to deep-water oceanic nutrient sources, or at sites with shallower reef slopes, parameters of fish growth and condition will be higher. Contrary to expectations, we found no association between fish growth rate and sites with higher mean chlorophyll-a values. There were no differences in fish δ 15N or δ 13C values between depths. The relationship between fish condition and primary production was influenced by depth, driven by increased fish condition at shallow depths within a primary production 'hotspot' site. Carbon δ 13C was depleted with increasing primary production, and interacted with reef slope. Our results indicate that variable primary production did not influence growth rates in planktivorous Chromis fieldi within 10-17.5 m depth, but show site-specific variation in reef physical characteristics influencing fish carbon isotopic composition.
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Affiliation(s)
- Ronan C Roche
- School of Ocean Sciences, Bangor University, Menai Bridge, Anglesey LL59 5AB, UK
| | - Adel Heenan
- School of Ocean Sciences, Bangor University, Menai Bridge, Anglesey LL59 5AB, UK
| | | | - Jill N Schwarz
- School of Biological and Marine Sciences, University of Plymouth, Plymouth PL4 8AA, UK
| | - Michael D Fox
- Woods Hole Oceanographic Institution, Woods Hole, MA 02543, USA
- Red Sea Research Center, King Abdullah University of Science and Technology, Thuwal 23955, Saudi Arabia
| | - Lucy K Southworth
- School of Ocean Sciences, Bangor University, Menai Bridge, Anglesey LL59 5AB, UK
- Centre of Excellence for Coral Reef Studies, College of Science and Engineering, James Cook University, Douglas, QLD 4811, Australia
| | - Gareth J Williams
- School of Ocean Sciences, Bangor University, Menai Bridge, Anglesey LL59 5AB, UK
| | - John R Turner
- School of Ocean Sciences, Bangor University, Menai Bridge, Anglesey LL59 5AB, UK
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4
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Roche RC, Heenan A, Taylor BM, Schwarz JN, Fox MD, Southworth LK, Williams GJ, Turner JR. Linking variation in planktonic primary production to coral reef fish growth and condition. ROYAL SOCIETY OPEN SCIENCE 2022; 9:201012. [PMID: 36061523 PMCID: PMC9428543 DOI: 10.1098/rsos.201012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Accepted: 08/09/2022] [Indexed: 05/10/2023]
Abstract
Within low-nutrient tropical oceans, islands and atolls with higher primary production support higher fish biomass and reef organism abundance. External energy subsidies can be delivered onto reefs via a range of physical mechanisms. However, the influence of spatial variation in primary production on reef fish growth and condition is largely unknown. It is not yet clear how energy subsidies interact with reef depth and slope. Here we test the hypothesis that with increased proximity to deep-water oceanic nutrient sources, or at sites with shallower reef slopes, parameters of fish growth and condition will be higher. Contrary to expectations, we found no association between fish growth rate and sites with higher mean chlorophyll-a values. There were no differences in fish δ 15N or δ 13C values between depths. The relationship between fish condition and primary production was influenced by depth, driven by increased fish condition at shallow depths within a primary production 'hotspot' site. Carbon δ 13C was depleted with increasing primary production, and interacted with reef slope. Our results indicate that variable primary production did not influence growth rates in planktivorous Chromis fieldi within 10-17.5 m depth, but show site-specific variation in reef physical characteristics influencing fish carbon isotopic composition.
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Affiliation(s)
- Ronan C. Roche
- School of Ocean Sciences, Bangor University, Menai Bridge, Anglesey LL59 5AB, UK
| | - Adel Heenan
- School of Ocean Sciences, Bangor University, Menai Bridge, Anglesey LL59 5AB, UK
| | | | - Jill N. Schwarz
- School of Biological and Marine Sciences, University of Plymouth, Plymouth PL4 8AA, UK
| | - Michael D. Fox
- Woods Hole Oceanographic Institution, Woods Hole, MA 02543, USA
- Red Sea Research Center, King Abdullah University of Science and Technology, Thuwal 23955, Saudi Arabia
| | - Lucy K. Southworth
- School of Ocean Sciences, Bangor University, Menai Bridge, Anglesey LL59 5AB, UK
- Centre of Excellence for Coral Reef Studies, College of Science and Engineering, James Cook University, Douglas, QLD 4811, Australia
| | - Gareth J. Williams
- School of Ocean Sciences, Bangor University, Menai Bridge, Anglesey LL59 5AB, UK
| | - John R. Turner
- School of Ocean Sciences, Bangor University, Menai Bridge, Anglesey LL59 5AB, UK
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Birnie-Gauvin K, Larsen MH, Peiman KS, Midwood JD, Wilson ADM, Cooke SJ, Aarestrup K. No Evidence for Long-Term Carryover Effects in a Wild Salmonid Fish. Physiol Biochem Zool 2021; 94:319-329. [PMID: 34283699 DOI: 10.1086/716000] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
AbstractEarly-life experiences can shape life histories and population dynamics of wild animals. To examine whether stressful stimuli experienced in early life resulted in carryover effects in later life stages, we conducted several experimental manipulations and then monitored wild fish with passive integrated transponder tags during juvenile out-migration and adult return migration. In total, 3,217 juvenile brown trout (Salmo trutta) were subjected to one of six manipulations: chase to exhaustion, thermal challenge, food deprivation, low-concentration cortisol injection, high-concentration cortisol injection, and sham injection, plus a control group. Cortisol and food deprivation treatments were previously shown to have short-term effects on juveniles, such as lower survival to out-migration and changes in migration timing. However, it remained unknown whether any of the six manipulations had effects that carried over into the adult phase. We therefore investigated whether these extrinsic manipulations, as well as intrinsic factors (size and condition), affected probability of return as adults and time spent at sea. Of the 1,273 fish that out-migrated, 146 returned as adults. We failed to detect any effect of treatments on return rates, while high-concentration cortisol weakly affected time spent at sea in one tagging event. We also found that juvenile condition was positively correlated to likelihood of adult return in only one tagging event. Overall, our findings did not identify either intrinsic factors or extrinsic stressful early-life experiences that have strong effects on fish that survive to adulthood. This suggests that some species may be more resilient than others to stressful stimuli encountered early in life.
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Gosselin JL, Buhle ER, Van Holmes C, Beer WN, Iltis S, Anderson JJ. Role of carryover effects in conservation of wild Pacific salmon migrating regulated rivers. Ecosphere 2021. [DOI: 10.1002/ecs2.3618] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Affiliation(s)
- Jennifer L. Gosselin
- School of Aquatic and Fishery Sciences University of Washington 1122 NE Boat Street Seattle Washington 98105 USA
| | - Eric R. Buhle
- Biomark Applied Biological Services Boise Idaho 83702 USA
| | - Christopher Van Holmes
- School of Aquatic and Fishery Sciences University of Washington 1122 NE Boat Street Seattle Washington 98105 USA
| | - W. Nicholas Beer
- School of Aquatic and Fishery Sciences University of Washington 1122 NE Boat Street Seattle Washington 98105 USA
| | - Susannah Iltis
- School of Aquatic and Fishery Sciences University of Washington 1122 NE Boat Street Seattle Washington 98105 USA
| | - James J. Anderson
- School of Aquatic and Fishery Sciences University of Washington 1122 NE Boat Street Seattle Washington 98105 USA
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7
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Faria L, Pie M, Salles F, Soares E. The Haeckelian shortfall or the tale of the missing semaphoronts. J ZOOL SYST EVOL RES 2020. [DOI: 10.1111/jzs.12435] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Luiz Faria
- Instituto Latino‐Americano de Ciências da Vida e da NaturezaUniversidade Federal da Integração Latino‐Americana Foz do Iguaçu Brazil
| | - Marcio Pie
- Departamento de Zoologia Universidade Federal do Paraná Curitiba Brazil
| | - Frederico Salles
- Departamento de Entomologia Universidade Federal de Viçosa Viçosa Brazil
| | - Elaine Soares
- Instituto Latino‐Americano de Ciências da Vida e da NaturezaUniversidade Federal da Integração Latino‐Americana Foz do Iguaçu Brazil
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Bogdan EE, Dingeldein AL, Bertrand D, White W. Risk-sensitive foraging does not explain condition-dependent choices in settling reef fish larvae. PeerJ 2020; 8:e8333. [PMID: 31976178 PMCID: PMC6964687 DOI: 10.7717/peerj.8333] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2019] [Accepted: 12/02/2019] [Indexed: 11/20/2022] Open
Abstract
The transition from the planktonic larval to the benthic adult stage in reef fishes is perilous, and involves decisions about habitat selection and group membership. These decisions are consequential because they are essentially permanent (many fish rarely leave their initial settlement habitat, at least for the first several days or weeks). In one common Caribbean reef fish, the bluehead wrasse (Thalassoma bifasciatum), settling larvae either join groups or remain solitary. Grouped fish have lower mortality rates but slightly slower growth rates, and fish that are smaller at the time of settlement are less likely to join groups. We hypothesized that the decision of smaller (i.e., lower condition) fish to remain solitary could be explained by risk-sensitive foraging: with less competition, solitary fish may have higher variance in foraging success, so that there is a chance of a high payoff (outweighing the increased mortality risk) despite the lack of a large difference in the average outcome. We tested this by comparing the mean, standard deviation, and maximum number of (a) prey items in stomach contents and (b) post-settlement growth rates (from otolith measurements) of solitary and grouped fish during two settlement pulses on St. Croix, US Virgin Islands. However, we did not find evidence to support our hypothesis, nor any evidence to support the earlier finding that fish in groups have lower average growth rates. Thus we must consider alternative explanations for the tendency of smaller fish to remain solitary, such as the likely costs of searching for and joining groups at the time of settlement. This study reinforces the value of larval and juvenile fish as a testbed for behavioral decisionmaking, because their recent growth history is recorded in their otoliths.
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Affiliation(s)
- Emma E Bogdan
- Department of Biology and Marine Biology, University of North Carolina at Wilmington, Wilmington, NC, United States of America
| | - Andrea L Dingeldein
- Department of Biology and Marine Biology, University of North Carolina at Wilmington, Wilmington, NC, United States of America
| | - Deirdre Bertrand
- Department of Biology and Marine Biology, University of North Carolina at Wilmington, Wilmington, NC, United States of America
| | - Will White
- Department of Fisheries and Wildlife, Coastal Oregon Marine Experiment Station, Oregon State University, Newport, OR, USA
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