Proteomics in Fish and Aquaculture Research

Rodrigues, Pedro M.; Martín, Samuel; Silva, Tomé S.; Boonanuntanasarn, Surintorn; Schrama, Denise; Moreira, Márcio; Raposo, Cláudia

doi:10.1007/978-3-319-69682-9_16

Cited by 12 publications

(13 citation statements)

References 147 publications

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“…Besides the increasing interest in proteomics technologies, their use in the aquaculture field is still in its infancy, since it as only emerged in the 21st century, with a more accentuated increase in the number of related publications in the last decade (Eckersall et al 2012;Rodrigues et al 2012Rodrigues et al , 2018Almeida et al 2014). However, the establishment of available proteomes is expected to proceed at a slower pace than genome sequencing according to several proposed reasons: (i) the high dependency on sequenced genomes; (ii) the higher complexity of proteins structures, functions and interactions compared to nucleic acids; (iii) the greater number of protein species compared to the number of genes, in an organism, as a result of RNA splicing and post-translational modifications (PTMs); (iv) the lack of an amplification method for proteins; (v) the elevated cost of certain techniques, instruments and specialised staff for maintenance and; (vi) the lack of awareness and perception of the remarkable potential of these technologies (Zhou et al 2012;Almeida et al 2014;Campos & de Almeida 2016).…”

Section: Proteomics In Aquaculturementioning

confidence: 99%

A Proteomics and other Omics approach in the context of farmed fish welfare and biomarker discovery

Magalhães

Cerqueira

Schrama

et al. 2018

Reviews in Aquaculture

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The rapid and intensive growth of aquaculture over the last decade, poses a tremendous challenge to this industry in order to comply with the latest guidelines, established to minimise its negative effects on the environment, animal welfare and public health. Farmed fish welfare has become one of the main priorities towards sustainable aquaculture production with several initiatives launched by the European Union within the framework of the 2030 agenda. It is clear that an unbiased and reliable way to access farmed fish welfare needs to be implemented due to the lack of reliable indicators and standardised methods that are used at present. In this review, we start by addressing the status quo of animal and fish welfare definition in particular, describing the methods and assays currently used to measure it. We then explain why we believe these methods are unreliable and why there is a need to establish new ones that will promote productivity and consumer's acceptance of farmed fish. The establishment of a new type of welfare biomarkers using cutting‐edge technologies like proteomics and other omics technologies is proposed as a solution to this issue. Therefore, we provide a brief description of these new methodologies, describing for each one how they can improve our scientific knowledge and the role they can play in farmed fish welfare biomarker discovery.

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Section: Proteomics In Aquaculturementioning

confidence: 99%

A Proteomics and other Omics approach in the context of farmed fish welfare and biomarker discovery

Magalhães

Cerqueira

Schrama

et al. 2018

Reviews in Aquaculture

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“…Main achievements so far include the use of acoustic telemetry or stand-alone biosensors for the non-disturbing monitoring of feeding behavior or metabolic capabilities (Føre et al, 2017; Martos-Sitcha et al, 2019). In addition to that, major progress has been done with the advent of wide-holistic omics based on functional genomics, proteomics, metabolomics and metagenomics as powerful toolsets for the development of a highly technified aquaculture in different fish species (Yáñez et al, 2015; Martin and Król, 2017; Martínez-Porchas and Vargas-Albores, 2017; Alfaro and Young, 2018; Rodrigues et al, 2018). Such approaches are increasingly used in gilthead sea bream ( Sparus aurata ), a highly and economically important cultured fish species in the Mediterranean area.…”

Section: Introductionmentioning

confidence: 99%

Tissue-Specific Orchestration of Gilthead Sea Bream Resilience to Hypoxia and High Stocking Density

et al. 2019

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Two different O 2 levels (normoxia: 75–85% O 2 saturation; moderate hypoxia: 42–43% O 2 saturation) and stocking densities (LD: 9.5, and HD: 19 kg/m 3 ) were assessed on gilthead sea bream ( Sparus aurata ) in a 3-week feeding trial. Reduced O 2 availability had a negative impact on feed intake and growth rates, which was exacerbated by HD despite of the improvement in feed efficiency. Blood physiological hallmarks disclosed the enhancement in O 2 -carrying capacity in fish maintained under moderate hypoxia. This feature was related to a hypo-metabolic state to cope with a chronic and widespread environmental O 2 reduction, which was accompanied by a differential regulation of circulating cortisol and growth hormone levels. Customized PCR-arrays were used for the simultaneous gene expression profiling of 34–44 selected stress and metabolic markers in liver, white skeletal muscle, heart, and blood cells. The number of differentially expressed genes ranged between 22 and 19 in liver, heart, and white skeletal muscle to 5 in total blood cells. Partial Least-Squares Discriminant Analysis (PLS-DA) explained [R2Y(cum)] and predicted [Q2Y(cum)] up to 95 and 65% of total variance, respectively. The first component (R2Y = 0.2889) gathered fish on the basis of O 2 availability, and liver and cardiac genes on the category of energy sensing and oxidative metabolism ( cs, hif-1 α, pgc1 α, pgc1 β, sirt s 1 - 2 - 4 - 5 - 6 - 7 ), antioxidant defense and tissue repair ( prdx5, sod2, mortalin, gpx4, gr, grp-170 , and prdx3 ) and oxidative phosphorylation ( nd2, nd5 , and coxi ) highly contributed to this separation. The second component (R2Y = 0.2927) differentiated normoxic fish at different stocking densities, and the white muscle clearly promoted this separation by a high over-representation of genes related to GH/IGF system ( ghr-i, igfbp6b, igfbp5b, insr, igfbp3 , and igf-i ). The third component (R2Y = 0.2542) discriminated the effect of stocking density in fish exposed to moderate hypoxia by means of hepatic fatty acid desaturases ( fads2, scd1a , and scd1b) and muscle markers of fatty acid oxidation ( cpt1a ). All these findings disclose the different contribution of analyzed tissues (liver ≥ heart > muscle > blood) and specific genes to the hypoxic- and crowding stress-mediated responses. This study will contribute to better explain and understand the different stress resilience of f...

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“…Nevertheless, to obtain proper epidemiological models, animal health surveillance and biosecurity programs must integrate environmental information and information from different areas like pathogenesis, disease diagnosis, disease resistance, physiological response to pathogens, pathogen characterization, host immune system responses characterization, disease biomarkers and organism response to disease treatment products [ 22 , 23 ].…”

Section: Introductionmentioning

confidence: 99%

“…Thus, several scientific advances in aquatic health continue to close the gap to veterinary medicine, and new optical, analytical chemistry, molecular biology [ 27 ], and Omics techniques are becoming a reality that offers a vast array of benefits to the aquaculture industry [ 12 , 28 ]. Proteomics techniques are one of those new tools, and one of the most interesting approaches for health management, epidemiology, and fish disease research [ 3 , 22 , 23 , 29 , 30 ]. Proteomics refers to the methodology that addresses the study of the entire complement of proteins expressed in a specific state of an organism or a cell population [ 31 , 32 ].…”

Section: Introductionmentioning

confidence: 99%

Fish Pathology Research and Diagnosis in Aquaculture of Farmed Fish; a Proteomics Perspective

Moreira

Schrama

Farinha

et al. 2021

Animals

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One of the main constraints in aquaculture production is farmed fish vulnerability to diseases due to husbandry practices or external factors like pollution, climate changes, or even the alterations in the dynamic of product transactions in this industry. It is though important to better understand and characterize the intervenients in the process of a disease outbreak as these lead to huge economical losses in aquaculture industries. High-throughput technologies like proteomics can be an important characterization tool especially in pathogen identification and the virulence mechanisms related to host-pathogen interactions on disease research and diagnostics that will help to control, prevent, and treat diseases in farmed fish. Proteomics important role is also maximized by its holistic approach to understanding pathogenesis processes and fish responses to external factors like stress or temperature making it one of the most promising tools for fish pathology research.

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Proteomics in Fish and Aquaculture Research

Cited by 12 publications

References 147 publications

A Proteomics and other Omics approach in the context of farmed fish welfare and biomarker discovery

A Proteomics and other Omics approach in the context of farmed fish welfare and biomarker discovery

Tissue-Specific Orchestration of Gilthead Sea Bream Resilience to Hypoxia and High Stocking Density

Fish Pathology Research and Diagnosis in Aquaculture of Farmed Fish; a Proteomics Perspective

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