Insights into gene expression responses to infections in teleosts using microarray data: a systematic review

Caruffo, M. and Mandakovic, D. and Cabrera, P. and Pacheco, I. and Montt, L. and Chavez-Baez, I. and Mejias, M. and Vera-Tamargo, F. and Perez-Valenzuela, J. and Carrasco-Labra, A. and Pulgar, R.

Reviews in Aquaculture (2021) 13: 18–42

DOI: 10.1111/raq.12462

Abstract

The rapid growth of production in aquaculture in the last decades has brought unwanted consequences affecting fish health and increasing the susceptibility to different infections. This systematic review aimed to analyse and summarize the current knowledge of gene expression responses to infectious diseases in teleosts using viruses, bacteria, fungi and parasites as agents through published microarray data. We conducted searches in electronic databases, including PubMed, Web of Science and SCOPUS until 1 May 2019. We identified 862 citations across databases and manual searches. After removing duplicates, we screened 455 unique references using titles and abstracts, of which 262 proved potentially eligible and evaluated using full text. A total of 79 articles proved eligible for this review. From the articles retrieved, we examined 261 different experiments (or ’studies’) and more than a hundred thousand differentially expressed genes (DEGs). This systematic review represents the first catalogue of genes (and their associated processes) that differentially transcribe in different teleost species (13 species) due to infections generated by a large variety of pathogens (38 types). Although the obtained gene expression results are in considerable measure associated with expected immune response, other genes showed surprising significant transcriptional outcomes that may unravel unknown functions related to fish infections. This type of investigations facilitates the visualization of existing gaps in researches that may inspire future analysis in non-traditional but relevant host or pathogen species.

Citation

Caruffo, M., Mandakovic, D., Cabrera, P., Pacheco, I., Montt, L., Chavez-Baez, I., Mejias, M., Vera-Tamargo, F., Perez-Valenzuela, J., Carrasco-Labra, A., & Pulgar, R. (2021). Insights into gene expression responses to infections in teleosts using microarray data: a systematic review. Reviews in Aquaculture, 13(1), 18–42. https://doi.org/10.1111/raq.12462 Animal Genetics and Breeding [LL240], systematic reviews, Aquaculture (Animals) [MM120], bacterium, Information and Documentation [CC300], infections, parasites, parasitoses, viral diseases, genes, bacterial diseases, databases, gene expression, data banks, immune response, communicable diseases, infectious diseases, immunity reactions, immunological reactions, bacterial infections, bacterioses, parasitic diseases, parasitic infestations, parasitosis, Protozoan, Helminth, Mollusc and Arthropod Parasites of Animals [LL822], Prion, Viral, Bacterial and Fungal Pathogens of Animals [LL821], Molecular Biology and Molecular Genetics [ZZ360], viral infections, fish diseases, fungal diseases, fungi, fungus, plant diseases, teleost

Keywords

• Animal Genetics and Breeding [LL240]
• systematic reviews
• Aquaculture (Animals) [MM120]
• bacterium
• Information and Documentation [CC300]
• infections
• parasites
• parasitoses
• viral diseases
• genes
• bacterial diseases
• databases
• gene expression
• data banks
• immune response
• communicable diseases
• infectious diseases
• immunity reactions
• immunological reactions
• bacterial infections
• bacterioses
• parasitic diseases
• parasitic infestations
• parasitosis
• Protozoan
• Helminth
• Mollusc and Arthropod Parasites of Animals [LL822]
• Prion
• Viral
• Bacterial and Fungal Pathogens of Animals [LL821]
• Molecular Biology and Molecular Genetics [ZZ360]
• viral infections
• fish diseases
• fungal diseases
• fungi
• fungus
• plant diseases
• teleost