Applications of Proteomics in Aquaculture

Rodrigues, Pedro M.; Schrama, Denise; Campos, Alexandre; Osório, Hugo; Freitas, Marisa

doi:10.1007/978-3-319-43275-5_10

Cited by 8 publications

(5 citation statements)

References 129 publications

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“…Such a low level of representation in the databases can be a severe problem as it limits the amount of identified proteins, metabolites or transcripts. This problem is evident in farm animals [36] and aquatic species [37], where those with fully sequenced genomes such as the marine mussel (Mytilus galloprovincialis) [38] or oyster (Magallana gigas, old name Crassostrea gigas) [39] have better characterized proteome or transcriptome databases than other species like cockles (Ceratosderma edule), clams (Ruditapes decussatus) or the marine gastropod Lobatus gigas [31,40,41]. This problem is not as relevant in metabolomics as the metabolites are chemically very similar regardless of the studied organism.…”

Section: Omics Overviewmentioning

confidence: 99%

OMICs Approaches in Diarrhetic Shellfish Toxins Research

Campos

Freitas

Almeida

et al. 2020

Toxins

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Diarrhetic shellfish toxins (DSTs) are among the most prevalent marine toxins in Europe’s and in other temperate coastal regions. These toxins are produced by several dinoflagellate species; however, the contamination of the marine trophic chain is often attributed to species of the genus Dinophysis. This group of toxins, constituted by okadaic acid (OA) and analogous molecules (dinophysistoxins, DTXs), are highly harmful to humans, causing severe poisoning symptoms caused by the ingestion of contaminated seafood. Knowledge on the mode of action and toxicology of OA and the chemical characterization and accumulation of DSTs in seafood species (bivalves, gastropods and crustaceans) has significantly contributed to understand the impacts of these toxins in humans. Considerable information is however missing, particularly at the molecular and metabolic levels involving toxin uptake, distribution, compartmentalization and biotransformation and the interaction of DSTs with aquatic organisms. Recent contributions to the knowledge of DSTs arise from transcriptomics and proteomics research. Indeed, OMICs constitute a research field dedicated to the systematic analysis on the organisms’ metabolisms. The methodologies used in OMICs are also highly effective to identify critical metabolic pathways affecting the physiology of the organisms. In this review, we analyze the main contributions provided so far by OMICs to DSTs research and discuss the prospects of OMICs with regard to the DSTs toxicology and the significance of these toxins to public health, food safety and aquaculture.

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Section: Omics Overviewmentioning

confidence: 99%

OMICs Approaches in Diarrhetic Shellfish Toxins Research

Campos

Freitas

Almeida

et al. 2020

Toxins

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“…: Wiśniewski et al, 2011;Zhang et al, 2011;Campos et al, 2012;Li and Chan, 2014;Chan et al, 2016;Causey et al, 2018;among others). Proteomics can thus be useful in a wide range of applied fields of biology, such as toxicology, food safety and aquaculture (Campos et al, 2016;Rodrigues et al, 2016Rodrigues et al, , 2017Felice and Parolini, 2020;Martins et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

Proteomics reveals multiple effects of titanium dioxide and silver nanoparticles in the metabolism of turbot, Scophthalmus maximus

et al. 2022

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“…Large-scale proteomics has been providing new information for fundamental biology [1,2], and in several related sciences such as toxicology [3,4], animal physiology and pathology [5], food safety, and aquaculture [6][7][8]. It has been providing insights concerning the mechanisms underlying several diseases [9,10].…”

Section: Introductionmentioning

confidence: 99%

Comparison of Sample Preparation Methods for Shotgun Proteomic Studies in Aquaculture Species

et al. 2021

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Proteomics has been recently introduced in aquaculture research, and more methodological studies are needed to improve the quality of proteomics studies. Therefore, this work aims to compare three sample preparation methods for shotgun LC–MS/MS proteomics using tissues of two aquaculture species: liver of turbot Scophthalmus maximus and hepatopancreas of Mediterranean mussel Mytilus galloprovincialis. We compared the three most common sample preparation workflows for shotgun analysis: filter-aided sample preparation (FASP), suspension-trapping (S-Trap), and solid-phase-enhanced sample preparations (SP3). FASP showed the highest number of protein identifications for turbot samples, and S-Trap outperformed other methods for mussel samples. Subsequent functional analysis revealed a large number of Gene Ontology (GO) terms in turbot liver proteins (nearly 300 GO terms), while fewer GOs were found in mussel proteins (nearly 150 GO terms for FASP and S-Trap and 107 for SP3). This result may reflect the poor annotation of the genomic information in this specific group of animals. FASP was confirmed as the most consistent method for shotgun proteomic studies; however, the use of the other two methods might be important in specific experimental conditions (e.g., when samples have a very low amount of protein).

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Applications of Proteomics in Aquaculture

Cited by 8 publications

References 129 publications

OMICs Approaches in Diarrhetic Shellfish Toxins Research

OMICs Approaches in Diarrhetic Shellfish Toxins Research

Proteomics reveals multiple effects of titanium dioxide and silver nanoparticles in the metabolism of turbot, Scophthalmus maximus

Comparison of Sample Preparation Methods for Shotgun Proteomic Studies in Aquaculture Species

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