Comparative transcriptome analysis reveals physiological responses in liver tissues of Epinephelus coioides under acute hypoxia stress

Lai, Xingxing; Zhang, Cuiping; Wu, Yuxin; Yang, Yang; Zhang, Mingqing; Qin, Weijian; Wang, Ruixuan; Shu, Hu

doi:10.1016/j.cbd.2022.101005

Cited by 6 publications

(4 citation statements)

References 102 publications

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“…Lipids are an important source of energy and a major component of cell membranes in living organisms. Under prolonged hypoxic conditions, fatty acid synthesis pathways are inhibited in fish cells, while β-oxidation of fatty acids is enhanced to provide ATP to meet energy requirements [7,39]. In the present study, individuals in the HT group had upregulation of the prkaa2 (AMP-activated protein kinase α2 subunit) gene, which has an inhibitory effect on lipid synthesis, relative to the HS group.…”

Section: Glucose and Lipid Metabolismmentioning

confidence: 44%

“…This may imply that individuals in the HT group have somewhat enhanced anti-apoptotic effects of the NF-kB pathway, thereby increasing tolerance to acute hypoxia. The coping mechanisms of hypoxic stress are closely related to NF-kappa B (NF-kB) signaling-mediated immune responses [39]. The NF-κB signaling pathway has an anti-apoptotic function and tends to be promoted when hypoxic stress is present [48].…”

Section: Antioxidant Effect and Apoptosismentioning

confidence: 99%

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Liver Transcriptome Shows Differences between Acute Hypoxia-Tolerant and Intolerant Individuals of Greater Amberjack (Seriola dumerili)

Li,

Yang,

Wang

et al. 2023

Animals

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Acute hypoxia is a common abiotic stress in commercial aquaculture and has significant effects on fish physiology and metabolism. Due to its large size and rapid growth, the greater amberjack (Seriola dumerili) is an economically important fish with high farming value. This species is intolerant to hypoxia, which makes it susceptible to mass mortality and hinders the progress of amberjack cultivation. Based on a comparative analysis of the liver transcriptome between acute hypoxia-tolerant (HT) and -intolerant (HS) groups, this study first explored the molecular mechanisms of acute hypoxia in greater amberjack. By simulating the acute hypoxic environment and using RNA sequencing (RNA-Seq), the differences in liver transcriptional changes between the acute hypoxia-tolerant (HT) and hypoxia-intolerant (HS) groups of greater amberjack were probed. Based on differential expression analysis, 829 differentially expressed genes (DEGs) were screened in both groups. Relative to the HS group, 374 DEGs were upregulated and 455 were downregulated in the HT group. Compared with the HS group, genes such as slc2a5 and prkaa2 related to promoting sugar transport and inhibiting lipid syntheses were upregulated, while genes that inhibit gluconeogenesis and promote lipid syntheses, such as pgp and aacs, were downregulated. The expression of odc1 was significantly and relatively downregulated in the HT group, which would lead to the inhibition of intracellular antioxidant activity and decreased scavenging of ROS. The NF-kB pathway was also promoted to some extent in individuals in the HT group relative to the HS group to resist apoptosis. In addition, the relative downregulation of apoptosis and autophagy-related genes, such as endog, hm13, and casp6, was also detected in the HT group. The present findings first reported the regulation mechanism by which liver tissue coped with the acute hypoxia stress in greater amberjack, which will provide important technical support for preventing acute hypoxia-induced death in advance and reducing economic losses.

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Section: Glucose and Lipid Metabolismmentioning

confidence: 44%

Section: Antioxidant Effect and Apoptosismentioning

confidence: 99%

Liver Transcriptome Shows Differences between Acute Hypoxia-Tolerant and Intolerant Individuals of Greater Amberjack (Seriola dumerili)

Li,

Yang,

Wang

et al. 2023

Animals

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“…The relationship between hypoxia-induced activation of HIF-1 and metabolism has also been widely demonstrated in the livers of different fish species exposed to hypoxic conditions, such as Epinephelus coioides [92], Procambarus clarkia [93], Hypophthalmichthys nobilis [94], Salvelinus alpinus [95] and Danio rerio [96]. Curiously, hif-1α was downregulated in the white skeletal muscle and the heart of gilthead seabream subjected to moderate hypoxia (42-43%) [97], suggesting that either only more severe hypoxic conditions, such as the 15% oxygen saturation applied in this study, are able to induce HIF-1α activation in this species, or that the response of this factor differs significantly among tissues.…”

Section: Plos Onementioning

confidence: 98%

Transcriptomic changes behind Sparus aurata hepatic response to different aquaculture challenges: An RNA-seq study and multiomics integration

Raposo de Magalhães,

Sandoval,

Kagan

et al. 2024

PLoS ONE

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Gilthead seabream (Sparus aurata) is an important species in Mediterranean aquaculture. Rapid intensification of its production and sub-optimal husbandry practices can cause stress, impairing overall fish performance and raising issues related to sustainability, animal welfare, and food safety. The advent of next-generation sequencing technologies has greatly revolutionized the study of fish stress biology, allowing a deeper understanding of the molecular stress responses. Here, we characterized for the first time, using RNA-seq, the different hepatic transcriptome responses of gilthead seabream to common aquaculture challenges, namely overcrowding, net handling, and hypoxia, further integrating them with the liver proteome and metabolome responses. After reference-guided transcriptome assembly, annotation, and differential gene expression analysis, 7, 343, and 654 genes were differentially expressed (adjusted p-value < 0.01, log2|fold-change| >1) in the fish from the overcrowding, net handling, and hypoxia challenged groups, respectively. Gene set enrichment analysis (FDR < 0.05) suggested a scenario of challenge-specific responses, that is, net handling induced ribosomal assembly stress, whereas hypoxia induced DNA replication stress in gilthead seabream hepatocytes, consistent with proteomics and metabolomics’ results. However, both responses converged upon the downregulation of insulin growth factor signalling and induction of endoplasmic reticulum stress. These results demonstrate the high phenotypic plasticity of this species and its differential responses to distinct challenging environments at the transcriptomic level. Furthermore, it provides significant resources for characterizing and identifying potentially novel genes that are important for gilthead seabream resilience and aquaculture production efficiency with regard to fish welfare.

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“…PI3K-AKT signal pathway is reported to be an important intracellular signal pathway related to a cell stress response. The hypoxic response of aquatic organisms is mainly regulated by the PI3K-AKT-HIF-1 signal axis (Lai X. et al,2022). In addition, it showed that hypoxia could induce the express change of many genes such as glyceraldehyde-3-phosphate dehydrogenase (GAPDH) in Litopenaeus vannamei (Nuñez D. et al,2020).…”

Section: Introductionmentioning

confidence: 99%

Transcriptome analysis reveals the molecular basis of the response to acute hypoxic stress in blood clam Scapharca broughtonii

Wang

Zhang

et al. 2022

Israeli Journal of Aquaculture - Bamidgeh

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Hypoxia tolerance and adaptive regulation are important for aquatic animals, especially for species with poor mobility, such as most bivalves. Previous studies have confirmed that the blood clam Scapharca broughtonii has strong hypoxia resistance. However, the molecular mechanism supporting its hypoxic tolerance is still largely limited. To further screen the genes and their potential regulation of hypoxia tolerance, the transcriptome changes of S. broughtonii after acute hypoxic stress were explored by RNA sequencing. In this study, the average value of Q30 is 92.89%, indicating that the quality of sequencing is relatively high. The Unigenes obtained were annotated using four databases, namely Interpo, KEGG, Swisspro and TrEMBL. The annotation rates in these four databases were 71.82%, 75.95%, 92.98%, and 79.26%, respectively. And also, there were 649 DEGs in group B (dissolved oxygen (DO) of 2.5 mg/L) compared with group D (DO of 7.5 mg/L), among which 252 were up-regulated, and 397 were down-regulated. There were 965 DEGs in group A (DO of 0.5 mg/L), 2.5 mg/L, and 7.5 mg/L, compared with group B, among which 530 were up-regulated, and 435 were down-regulated. Meanwhile, there were 2,040 DEGs in group A compared with group D, among which 901 were up-regulated, and 1,139 were down-regulated. The main metabolic-related pathways of KEGG enriched in this study included Insulin secretion, Insulin signaling pathway, MAPK signal transduction pathway, and PPAR signaling pathway. These pathways may be critical metabolic pathways to solve energy demand and rebuild energy balance in S. broughtonii under hypoxic conditions. This study preliminarily clarified the response of S. broughtonii to hypoxia stress on the molecular levels, providing a reference for the following study on the response laws of related genes and pathways under environmental stress of S. broughtonii.

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Comparative transcriptome analysis reveals physiological responses in liver tissues of Epinephelus coioides under acute hypoxia stress

Cited by 6 publications

References 102 publications

Liver Transcriptome Shows Differences between Acute Hypoxia-Tolerant and Intolerant Individuals of Greater Amberjack (Seriola dumerili)

Liver Transcriptome Shows Differences between Acute Hypoxia-Tolerant and Intolerant Individuals of Greater Amberjack (Seriola dumerili)

Transcriptomic changes behind Sparus aurata hepatic response to different aquaculture challenges: An RNA-seq study and multiomics integration

Transcriptome analysis reveals the molecular basis of the response to acute hypoxic stress in blood clam Scapharca broughtonii

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