Acute hypoxia stress induced abundant differential expression genes and alternative splicing events in heart of tilapia

Xia, Jun; Li, Hong Lian; Li, Bi Jun; Gu, Xiao Hui; Lin, Haoran

doi:10.1016/j.gene.2017.10.002

Cited by 59 publications

(43 citation statements)

References 56 publications

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“…However, a convincing explanation for the activation of hif transcription in teleost fish under hypoxic conditions has not yet been presented [65]. Different fish species exposed to experimental acute or chronic hypoxia, displayed significant changes in the expression of oxidative stress genes not only in the gills, but also in other organs including the spleen, generally having hif1 up-regulated [66,67]. However, depending on the duration of the hypoxia, some hif subunits can be significantly down-regulated in some lymphoid tissues, as the head kidney [68].…”

Section: Discussionmentioning

confidence: 99%

Acting locally - affecting globally: RNA sequencing of gilthead sea bream with a mild Sparicotyle chrysophrii infection reveals effects on apoptosis, immune and hypoxia related genes

et al. 2019

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Background: Monogenean flatworms are the main fish ectoparasites inflicting serious economic losses in aquaculture. The polyopisthocotylean Sparicotyle chrysophrii parasitizes the gills of gilthead sea bream (GSB, Sparus aurata) causing anaemia, lamellae fusion and sloughing of epithelial cells, with the consequent hypoxia, emaciation, lethargy and mortality. Currently no preventive or curative measures against this disease exist and therefore information on the hostparasite interaction is crucial to find mitigation solutions for sparicotylosis. The knowledge about gene regulation in monogenean-host models mostly comes from freshwater monopysthocotyleans and almost nothing is known about polyopisthocotyleans. The current study aims to decipher the host response at local (gills) and systemic (spleen, liver) levels in farmed GSB with a mild natural S. chrysophrii infection by transcriptomic analysis. Results: Using Illumina RNA sequencing and transcriptomic analysis, a total of 2581 differentially expressed transcripts were identified in infected fish when compared to uninfected controls. Gill tissues in contact with the parasite (P gills) displayed regulation of fewer genes (700) than gill portions not in contact with the parasite (NP gills) (1235), most likely due to a local silencing effect of the parasite. The systemic reaction in the spleen was much higher than that at the parasite attachment site (local) (1240), and higher than in liver (334). NP gills displayed a strong enrichment of genes mainly related to immune response and apoptosis. Processes such as apoptosis, inflammation and cell proliferation dominated gills, whereas inhibition of apoptosis, autophagy, platelet activation, signalling and aggregation, and inflammasome were observed in spleen. Proteasome markers were increased in all tissues, whereas hypoxia-related genes were down-regulated in gills and spleen. Conclusions: Contrasting forces seem to be acting at local and systemic levels. The splenic down-regulation could be part of a hypometabolic response, to counteract the hypoxia induced by the parasite damage to the gills and to concentrate the energy on defence and repair responses. Alternatively, it can be also interpreted as the often observed action of helminths to modify host immunity in its own interest. These results provide the first toolkit for future studies towards understanding and management of this parasitosis.

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Section: Discussionmentioning

confidence: 99%

Acting locally - affecting globally: RNA sequencing of gilthead sea bream with a mild Sparicotyle chrysophrii infection reveals effects on apoptosis, immune and hypoxia related genes

et al. 2019

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“…In contrast, alternative splicing, a process in which variation in exon usage produces different mature mRNA transcripts from the pre-mRNA transcript of a gene (Modrek and Lee, 2002), is widespread across taxa (Tapial et al, 2017), and thus has the potential to be a common mechanism underlying phenotypic plasticity in many species. Alternative splicing in the response to environmental stress is widely observed in plants (Reddy et al, 2013;Capovilla et al, 2015;Filichkin et al, 2015;Thatcher et al, 2015;Calixto et al, 2018), but this mechanism has rarely been examined in animals (although see Polley et al, 2003;Marden, 2008;Huang et al, 2016;Jakšićand Schlötterer, 2016;Hopkins et al, 2018;Tan et al, 2018;Xia et al, 2018), and much remains unknown about its importance.…”

Section: Introductionmentioning

confidence: 99%

Patterns of alternative splicing in response to cold acclimation in fish

Healy

Schulte

2019

Journal of Experimental Biology

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Phenotypic plasticity is an important aspect of an organism's response to environmental change that often requires the modulation of gene expression. These changes in gene expression can be quantitative, as a result of increases or decreases in the amounts of specific transcripts, or qualitative, as a result of the expression of alternative transcripts from the same gene (e.g. via alternative splicing of pre-mRNAs). Although the role of quantitative changes in gene expression in phenotypic plasticity is well known, relatively few studies have examined the role of qualitative changes. Here, we use skeletal muscle RNA-seq data from Atlantic killifish (Fundulus heteroclitus), threespine stickleback (Gasterosteus aculeatus) and zebrafish (Danio rerio) to investigate the extent of qualitative changes in gene expression in response to cold acclimation. Fewer genes demonstrated alternative splicing than differential expression as a result of cold acclimation; however, differences in splicing were detected for 426 to 866 genes depending on species, indicating that large numbers of qualitative changes in gene expression are associated with cold acclimation. Many of these alternatively spliced genes were also differentially expressed, and there was functional enrichment for involvement in muscle contraction among the genes demonstrating qualitative changes in response to cold acclimation. Additionally, there was a common group of 29 genes with cold-acclimation-mediated changes in splicing in all three species, suggesting that there may be a set of genes with expression patterns that respond qualitatively to prolonged exposure to cold temperatures across fishes.

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“…Fish living in environments with low and/or variable oxygen supplies have evolved complex suites of biochemical, physiological, behavioral, and molecular adaptations that enable survival under such conditions ( Gracey et al, 2001 ; Nikinmaa, 2002 ; Nikinmaa and Rees, 2005 ; Roesner et al, 2006 , 2008 ; Wang et al, 2017 ; Liu et al, 2018 ). Changes in transcription profiles in response to hypoxia have been investigated in several fish taxa, including the hypoxia-tolerant goby fish, Gillichthys mirabilis ( Gracey et al, 2001 ); zebrafish ( Danio rerio ) ( Ton et al, 2003 ; van der Meer et al, 2005 ); viviparous ( Xiphophorus ) and oviparous ( Oryzias ) fish ( Boswell et al, 2009 ); Carassius auratus ( Zhong et al, 2009 ; Liao et al, 2013 ); large yellow croaker ( Larimichthys crocea ) ( Wang et al, 2017 ); and Nile tilapia ( Oreochromis niloticus ) ( Liu et al, 2018 ; Xia et al, 2018 ). Fish exhibit a variety of adaptive responses to hypoxia, including the discontinuation of processes requiring substantial energy output, such as protein synthesis ( Gracey et al, 2001 ; Ton et al, 2003 ), locomotion ( Gracey et al, 2001 ), and cell growth/proliferation ( Gracey et al, 2001 ).…”

Section: Introductionmentioning

confidence: 99%

Transcriptome Analysis Provides Insights Into the Adaptive Responses to Hypoxia of a Schizothoracine Fish (Gymnocypris eckloni)

Yan

et al. 2018

Front. Physiol.

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The schizothoracine fish endemic to the Qinghai-Tibetan Plateau are comparatively well adapted to aquatic environments with low oxygen partial pressures. However, few studies have used transcriptomic profiling to investigate the adaptive responses of schizothoracine fish tissues to hypoxic stress. This study compared the transcriptomes of Gymnocypris eckloni subjected to 72 h of hypoxia (Dissolved oxygen, DO = 3.0 ± 0.1 mg/L) to those of G. eckloni under normoxia (DO = 8.4 ± 0.1 mg/L). To identify the potential genes and pathways activated in response to hypoxic stress, we collected muscle, liver, brain, heart, and blood samples from normoxic and hypoxic fish for RNA-Seq analysis. We annotated 337,481 gene fragments. Of these, 462 were differentially expressed in the hypoxic fish as compared to the normoxic fish. Under hypoxia, the transcriptomic profiles of the tissues differed, with muscle the most strongly affected by hypoxia. Our data indicated that G. eckloni underwent adaptive changes in gene expression in response to hypoxia. Several strategies used by G. eckloni to cope with hypoxia were similar to those used by other fish, including a switch from aerobic oxidation to anaerobic glycolysis and the suppression of major energy-requiring processes. However, G. eckloni used an additional distinct strategy to survive hypoxic environments: a strengthening of the antioxidant system and minimization of ischemic injury. Here, we identified several pathways and related genes involved in the hypoxic response of the schizothoracine fish. This study provides insights into the mechanisms used by schizothoracine fish to adapt to hypoxic environments.

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Acute hypoxia stress induced abundant differential expression genes and alternative splicing events in heart of tilapia

Cited by 59 publications

References 56 publications

Acting locally - affecting globally: RNA sequencing of gilthead sea bream with a mild Sparicotyle chrysophrii infection reveals effects on apoptosis, immune and hypoxia related genes

Acting locally - affecting globally: RNA sequencing of gilthead sea bream with a mild Sparicotyle chrysophrii infection reveals effects on apoptosis, immune and hypoxia related genes

Patterns of alternative splicing in response to cold acclimation in fish

Transcriptome Analysis Provides Insights Into the Adaptive Responses to Hypoxia of a Schizothoracine Fish (Gymnocypris eckloni)

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