Split it up and see: using proxies to highlight divergent inter-populational performances in aquaculture standardised conditions

Toomey, Lola; Dellicour, Simon; Kapusta, Andrzej; Żarski, Daniel; Buhrke, Frederik; Milla, Sylvain; Fontaine, Pascal; Lecocq, Thomas

doi:10.1186/s12862-021-01937-z

Cited by 3 publications

(4 citation statements)

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“…Aquaculture relies on important traits like cannibalism, survival rate, swim bladder inflation, weight, and specific growth rate for successful management and production (Toomey et al, 2021). The transcriptome of newly hatched larvae may offer predictive insights into future development, supporting aquaculture research and its production.…”

Section: Discussionmentioning

confidence: 99%

“…The copyright holder for this preprint this version posted October 28, 2023. ; https://doi.org/10.1101/2023.10.27.564361 doi: bioRxiv preprint For a long time, zootechnical characteristics have been used to describe and/or predict larval quality. Until now, it has been arbitrarily associated with individuals characterized by a normal shape (i.e., without any type of deformity), filled swim bladder, a nourishing yolk-sac [6], high growth rate, stress resistance [7] and certain behavioral features (e.g., good feed acquisition or high swimming speed) [2]. These traits might be, theoretically, indicative of quality in fish larvae, but there are no studies that critically challenge their applicability in a broader context.…”

Section: Introductionmentioning

confidence: 99%

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Does transcriptome of freshly hatched fish larvae describe past or predict future developmental trajectory?

Debernardis,

Palińska-Żarska,

Judycka

et al. 2023

Preprint

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Background: The larval stage plays a crucial role in the ontogeny of many fish species, leading to profound changes in morphology, physiology and behavior. How larvae face metamorphoses can be associated with their quality, which can vary significantly among the same family or even cohort. This variability depends on the interaction of genetic and nongenetic factors, which are key phenotypic determinants that further affect the overall survival of wild fish and adaptability of cultured stocks. Although researchers and aquaculturists often refer to larvae quality as an important parameter discriminating high- and low-performing stocks, there is currently no universally accepted definition or critically verified set of quality indicators. Therefore, in this study, we generated unique families of Eurasian perch (Perca fluviatilis) larvae to follow their performance during the larval period. Next, we integrated the zootechnical performance data with transcriptomics data from freshly hatched larvae to identify specific molecular quality markers. Results: Zootechnical data revealed statistically significant differences (p < 0.05) in performance between 16 families reared. The RNA-seq data were processed using weighted gene correlation network analysis (WGCNA) and showed particularly significant interactions between gene modules and the length of larvae at the mouth-opening stage, emerging as an important quality-related trait. Next, by comparing the transcriptomic profiles of larvae with high and low lengths at mouth opening, we identified several differentially expressed genes, here chosen as putative larvae quality markers, involved in metabolic processes and antioxidant responses, such as fatty acid desaturase 2 (fads2) and glutathione peroxidase 1b (gpx1b). Conclusions: The findings highlight the length of the larvae at hatching as a valid parameter of larvae quality. Initial length is not just a numerical measurement; it serves as a specific indicator that strongly influences future larval development and survival. 'Longer' larvae appear to benefit from a higher metabolic rate, enhanced antioxidant defenses and a more advanced nervous system. As a result of these insights, we propose genes such as fads2, ctsl1, and gpx1b as potential biomarkers for evaluating larval quality. Our study represents a significant step toward a clear understanding of the factors that determine the quality of fish larvae, with implications for improving aquaculture practices.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Does transcriptome of freshly hatched fish larvae describe past or predict future developmental trajectory?

Debernardis,

Palińska-Żarska,

Judycka

et al. 2023

Preprint

Self Cite

View full text Add to dashboard Cite

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“…Third, this procedure can be viewed as heavy-going, since it is based on a multitrait assessment, which requires costly and potentially time-consuming experiments and analyses (e.g., behavioral and physiological traits) and potentially invasive measurements (e.g., physiological traits). One solution to facilitate the multi-trait assessment is to use traits or proxies of relevant traits that are easy to measure to increase the feasibility of the procedure (see similar rationalization for another multi-trait assessment in [74]).…”

Section: Ranking Procedures Limitationsmentioning

confidence: 99%

Finding the Best Match: A Ranking Procedure of Fish Species Combinations for Polyculture Development

Amoussou

Thomas

Pasquet

et al. 2022

Life

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Polyculture is a potentially interesting rearing practice for future aquaculture developments. Nevertheless, it may result in beneficial as well as detrimental consequences for fish production. One way to maximize the benefits of polyculture is to combine species with high levels of compatibility and complementarity. This requires the development of a ranking procedure, based on a multi-trait assessment, that highlights the most suitable species combinations for polyculture. Moreover, in order to ensure the relevance of such a procedure, it is important to integrate the socio-economic expectations by assigning relative weights to each trait according to the stakeholder priorities. Here, we proposed a ranking procedure of candidate fish polycultures (i.e., species combinations that could be potentially interesting for aquaculture) based on a multi-trait assessment approach and the stakeholder priorities. This procedure aims at successively (i) weighting evaluation results obtained for each candidate polyculture according to stakeholder priorities; (ii) assessing differentiation between candidate species combinations based on these weighted results; and (iii) ranking differentiated candidate polycultures. We applied our procedure on three test cases of fish polycultures in recirculated aquaculture systems. These test cases each focused on a target species (two on Sander lucioperca and one on Carassius auratus), which were reared in two or three different alternative candidate fish polycultures. For each test case, our procedure aimed at ranking alternative combinations according to their benefits for production and/or welfare of the target species. These benefits were evaluated based on survival rate as well as morphology, behavioral, and physiological traits. Three scenarios of stakeholder priorities were considered for weighting evaluation results: placing a premium on production, welfare, or both for the target species. A comparison of our procedure results between these scenarios showed that the ranking changed for candidate polycultures in two test cases. This highlights the need to carefully consider stakeholder priorities when choosing fish polycultures.

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“…[46,47]) or freshwater species (e.g. [48,49]). In addition to differentiation seen across life stages (interindividual variation), intraspecific variation in temperature tolerance can originate from phenotypic plasticity (i.e.…”

Section: Introductionmentioning

confidence: 99%

Impact of temperature on Downs herring (Clupea harengus) embryonic stages: First insights from an experimental approach

et al. 2023

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Among all human-induced pressures, ocean warming is expected to be one of the major drivers of change in marine ecosystems. Fish species are particularly vulnerable during embryogenesis. Here, the impact of temperature was assessed on embryonic stages of Atlantic herring (Clupea harengus), a species of high socio-economic interest, with a particular focus on the under-studied eastern English Channel winter-spawning component (Downs herring). Key traits linked to growth and development were experimentally evaluated at three temperatures (8°C, 10°C and 14°C), from fertilization to hatching, in standardized controlled conditions. Overall negative impacts of increased temperature were observed on fertilization rate, mean egg diameter at eyed stage, hatching rate and yolk sac volume. A faster developmental rate and a change in development stage frequency of newly hatched larvae were also observed at higher temperature. Potential parental effects were detected for four key traits (i.e. fertilization rate, eyed survival rate, mean egg diameter and hatching rate), despite a limited number of families. For instance, a large variability among families was shown in survival rate at eyed stage (between 0 and 63%). Potential relationships between maternal characteristics and embryo traits were therefore explored. We show that a substantial proportion of variance (between 31 and 70%) could be explained by the female attributes considered. More particularly, age, traits linked to life history (i.e. asymptotic average length and Brody growth rate coefficient), condition and length were important predictors of embryonic key traits. Overall, this study constitutes a stepping-stone to investigate potential consequences of warming on Downs herring recruitment and provides first insights on potential parental effects.

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Split it up and see: using proxies to highlight divergent inter-populational performances in aquaculture standardised conditions

Cited by 3 publications

References 99 publications

Does transcriptome of freshly hatched fish larvae describe past or predict future developmental trajectory?

Does transcriptome of freshly hatched fish larvae describe past or predict future developmental trajectory?

Finding the Best Match: A Ranking Procedure of Fish Species Combinations for Polyculture Development

Impact of temperature on Downs herring (Clupea harengus) embryonic stages: First insights from an experimental approach

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