Metabolic responses to air-exposure stress of the Chinese mitten crab (Eriocheir sinensis) revealed by a combined analysis of metabolome and transcriptome

Mo, Nan; Zhu, Dandan; Liu, Jiaxin; Feng, Tianyi; Cui, Zhaoxia

doi:10.1016/j.aquaculture.2021.737710

Cited by 12 publications

(4 citation statements)

References 54 publications

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“…High-throughput omics approaches have been widely used to explore animal adaptations to abiotic stresses ( Ren et al, 2020 ; Chang et al, 2021 ; Pei et al, 2021 ; Zhang et al, 2021 ; Mo et al, 2022 ). For instance, transcriptomic analyses were used to assess seasonal adaptive mechanisms in the Chinese alligator ( Alligator sinensis ), and the expression levels of ADIPO , CIRBP and TMM27 were up-regulated in the dormant Chinese alligator ( Sun et al, 2018 ).…”

Section: Introductionmentioning

confidence: 99%

Integrated analysis of transcriptome and metabolome data reveals insights for molecular mechanisms in overwintering Tibetan frogs, Nanorana parkeri

Niu

Zhang²,

Men³

et al. 2023

Front. Physiol.

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Nanorana parkeri (Anura, Dicroglossidae) is a unique frog living at high altitude on the Tibetan plateau where they must endure a long winter dormancy at low temperatures without feeding. Here, we presented a comprehensive transcriptomic and metabolomic analysis of liver tissue from summer-active versus overwintering N. parkeri, providing the first broad analysis of altered energy metabolism and gene expression in this frog species. We discovered that significantly up-regulated genes (2,397) in overwintering frogs mainly participated in signal transduction and immune responses, phagosome, endocytosis, lysosome, and autophagy, whereas 2,169 down-regulated genes were mainly involved in metabolic processes, such as oxidation-reduction process, amino acid metabolic process, fatty acid metabolic process, and TCA cycle. Moreover, 35 metabolites were shown to be differentially expressed, including 22 down-regulated and 13 up-regulated in winter. These included particularly notable reductions in the concentrations of most amino acids. These differentially expressed metabolites were mainly involved in amino acid biosynthesis and metabolism. To sum up, these findings suggest that gene expression and metabolic processes show adaptive regulation in overwintering N. parkeri, that contributes to maintaining homeostasis and enhancing protection in the hypometabolic state. This study has greatly expanded our understanding of the winter survival mechanisms in amphibians.

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Section: Introductionmentioning

confidence: 99%

Integrated analysis of transcriptome and metabolome data reveals insights for molecular mechanisms in overwintering Tibetan frogs, Nanorana parkeri

Niu

Zhang²,

Men³

et al. 2023

Front. Physiol.

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“…Aside from glucose and amino acids, lipids such as fatty acids and triglycerides are also important energy sources for organisms. A previous study showed that exposure to air induced the accumulation of four fatty acids in Eriocheir sinensis , which may be linked to the upregulation of the gene expression of fatty acid synthases [ 46 ]. In this study, we found that the expression of ACADM , ACADL , and ADACVL increased after air exposure.…”

Section: Discussionmentioning

confidence: 99%

PacBio Full-Length and Illumina Transcriptomes of the Gill Reveal the Molecular Response of Corbicula fluminea under Aerial Exposure

Zhang

Huang

et al. 2022

IJMS

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Air exposure is a common stress for Corbicula fluminea, an economically important freshwater shellfish consumed in China, during aquaculture and transportation. However, little is known about its molecular responses to air exposure. Therefore, this study used a combination of PacBio full-length and Illumina transcriptomes to investigate its molecular responses to air exposure. A total of 36,772 transcripts were obtained using PacBio sequencing. Structural analysis identified 32,069 coding sequences, 1906 transcription factors, 8873 simple sequence repeats, and 17,815 long non-coding RNAs. Subcellular localization analysis showed that most transcripts were located in the cytoplasm and nucleus. After 96-h of air exposure, 210 differentially expressed genes (DEGs) in the gill were obtained via Illumina sequencing. Among these DEGs, most of the genes related to glycolysis, tricarboxylic acid cycle, lipid metabolism, and amino acid metabolism were upregulated. Additionally, many DEGs associated with immunity, cytoskeleton reorganization, autophagy, and ferroptosis were identified. These findings indicated that metabolic strategy change, immune response, cytoskeleton reconstruction, autophagy, and ferroptosis might be the important mechanisms that C. fluminea use to cope with air exposure. This study will enrich the gene resources of C. fluminea and provide valuable data for studying the molecular mechanisms coping with air exposure in C. fluminea and other freshwater mollusks.

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“…Air exposure is a highly stressful factor in fish. Previous studies have primarily concentrated on investigating the damage of air exposure, including oxidative stress levels [4], survival rates [5], energy metabolism [6], and hematological characteristics [7]. Presently, the emphasis in research on the effects of air exposure is primarily on exploring the mechanisms of damage caused, while the strategies to mitigate them have been paid less attention [6,8].…”

Section: Introductionmentioning

confidence: 99%

“…Previous studies have primarily concentrated on investigating the damage of air exposure, including oxidative stress levels [4], survival rates [5], energy metabolism [6], and hematological characteristics [7]. Presently, the emphasis in research on the effects of air exposure is primarily on exploring the mechanisms of damage caused, while the strategies to mitigate them have been paid less attention [6,8]. However, it has been observed that properly adjusting the salinity of the aquatic environment is an effective strategy to alleviate stress in fish.…”

Section: Introductionmentioning

confidence: 99%

Integrated mRNA and miRNA analysis reveals the regulatory network of oxidative stress and inflammation in Coilia nasus brains during air exposure and salinity mitigation

Gao,

Mang,

Liu

et al. 2024

BMC Genomics

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Background Air exposure is an inevitable source of stress that leads to significant mortality in Coilia nasus. Our previous research demonstrated that adding 10‰ NaCl to aquatic water could enhance survival rates, albeit the molecular mechanisms involved in air exposure and salinity mitigation remained unclear. Conversely, salinity mitigation resulted in decreased plasma glucose levels and improved antioxidative activity. To shed light on this phenomenon, we characterized the transcriptomic changes in the C. nasus brain upon air exposure and salinity mitigation by integrated miRNA-mRNA analysis. Results The plasma glucose level was elevated during air exposure, whereas it decreased during salinity mitigation. Antioxidant activity was suppressed during air exposure, but was enhanced during salinity mitigation. A total of 629 differentially expressed miRNAs (DEMs) and 791 differentially expressed genes (DEGs) were detected during air exposure, while 429 DEMs and 1016 DEGs were identified during salinity mitigation. GO analysis revealed that the target genes of DEMs and DEGs were enriched in biological process and cellular component during air exposure and salinity mitigation. KEGG analysis revealed that the target genes of DEMs and DEGs were enriched in metabolism. Integrated analysis showed that 24 and 36 predicted miRNA-mRNA regulatory pairs participating in regulating glucose metabolism, Ca2+ transport, inflammation, and oxidative stress. Interestingly, most of these miRNAs were novel miRNAs. Conclusion In this study, substantial miRNA-mRNA regulation pairs were predicted via integrated analysis of small RNA sequencing and RNA-Seq. Based on predicted miRNA-mRNA regulation and potential function of DEGs, miRNA-mRNA regulatory network involved in glucose metabolism and Ca2+ transport, inflammation, and oxidative stress in C. nasus brain during air exposure and salinity mitigation. They regulated the increased/decreased plasma glucose and inhibited/promoted antioxidant activity during air exposure and salinity mitigation. Our findings would propose novel insights to the mechanisms underlying fish responses to air exposure and salinity mitigation.

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Metabolic responses to air-exposure stress of the Chinese mitten crab (Eriocheir sinensis) revealed by a combined analysis of metabolome and transcriptome

Cited by 12 publications

References 54 publications

Integrated analysis of transcriptome and metabolome data reveals insights for molecular mechanisms in overwintering Tibetan frogs, Nanorana parkeri

Integrated analysis of transcriptome and metabolome data reveals insights for molecular mechanisms in overwintering Tibetan frogs, Nanorana parkeri

PacBio Full-Length and Illumina Transcriptomes of the Gill Reveal the Molecular Response of Corbicula fluminea under Aerial Exposure

Integrated mRNA and miRNA analysis reveals the regulatory network of oxidative stress and inflammation in Coilia nasus brains during air exposure and salinity mitigation

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