Transcriptomic Profiling of the Immune Response to Crowding Stress in Juvenile Turbot (Scophthalmus maximus)

Huo, Huanhuan; Gao, Xiaoyan; Fan, Fei; Qin, Fei; Huang, Bin; Liu, Baoliang

doi:10.1007/s11802-020-4242-6

Cited by 5 publications

(2 citation statements)

References 71 publications

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“…Long-term high-density culture is a chronic stress for fish. Immunosuppression caused by crowding stress generated by high longterm stocking densities has been found in turbot (Scophthalmus maximus) [102,103], Atlantic salmon (Salmo salar) [104], O. mykiss [105], and L. crocea [16]. In essence, this suppression of innate and adaptive immune responsiveness is achieved through a neuroendocrine mechanism, the hypothalamic-pituitary-interrenal axis (HPI axis), to maintain energy conservation under chronic stress and reduce autoimmune damage [88].…”

Section: Effects Of High Stocking Density On Immunitymentioning

confidence: 99%

Transcriptome-Based Analysis of the Liver Response Mechanism of Black Porgy (Acanthopagrus schlegelii) to Stocking Density

Zhou

Jia

Meng

et al. 2023

Fishes

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Long-term high stocking density often brings negative effects such as decreased body weight, decreased immunity, and increased mortality to cultured fish, while the effects of short-term stocking are relatively less studied. In this experiment, we characterized spatial and temporal gene expression in black porgy (Acanthopagrus schlegelii) liver by establishing two stocking density groups—high (H: 26.5 kg/m3) and low (L: 2.95 kg/m3)—and conducting transcriptome sequencing before collecting liver samples at two time points: 6 h (AL and AH) and 60 d (CL and CH) into the culture trial. There were 648 and 550 differentially expressed genes (DEGs) in the AL-vs-AH and CL-vs-CH groups, respectively. The DEGs in the AL-vs-AH group were significantly enriched in steroid biosynthesis, terpenoid backbone biosynthesis, the PPAR signaling pathway, proteasome, aminoacyl-tRNA biosynthesis, and ribosome biogenesis in eukaryotes. The DEGs in the CL-vs-CH group were more significantly enriched in lipid metabolism-related pathways, such as the PPAR signaling pathway, fatty acid metabolism, and cholesterol metabolism. In addition, immune-related pathways such as the phagosome and complement and coagulation cascades were also enriched in the CL-vs-CH group. The expression changes concerning the DEGs in each group were further analyzed. The DEGs related to steroid synthesis, protein synthesis, and the degradation pathways were down-regulated, but immune-related genes were generally up-regulated in the AH group. The DEGs related to lipid synthesis were significantly up-regulated in the CH group, but the DEGs related to lipid consumption and utilization were down-regulated. The expression of immune-related DEGs was also negatively affected in the CH group. These results suggest that acute and chronic crowding stress affects lipid metabolism and immune regulation in the liver of black porgy. Acute stress particularly affected hepatic protein metabolism, while chronic stress showed more effects on hepatic lipid metabolism. The results of this study provide a theoretical basis for understanding the effects of high stocking densities upon black porgy and may also provide a reference for crowding stress regulation studies in other fish species.

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Section: Effects Of High Stocking Density On Immunitymentioning

confidence: 99%

Transcriptome-Based Analysis of the Liver Response Mechanism of Black Porgy (Acanthopagrus schlegelii) to Stocking Density

Zhou

Jia

Meng

et al. 2023

Fishes

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“…In recent years, numerous RNA-seq studies have been conducted to explore the stress responsive genes and molecular mechanisms under various stresses, such as pathogens stress ( Enteromyxum scophthalmi 3 , 4 , Vibrio anguillarum 5 ), heat stress 6 , oxygen stress 7 , crowding stress 8 , salinity stress 9 , and feeding stress 10 . All these researches were solely focused on the identification of differentially expressed genes (DEGs), whereas connectivity analysis has not yet been taken into account.…”

Section: Background and Summarymentioning

confidence: 99%

Identification of stress-related genes by co-expression network analysis based on the improved turbot genome

Zheng

Meng

et al. 2022

Sci Data

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Turbot (Scophthalmus maximus), commercially important flatfish species, is widely cultivated in Europe and China. With the continuous expansion of the intensive breeding scale, turbot is exposed to various stresses, which greatly impedes the healthy development of turbot industry. Here, we present an improved high-quality chromosome-scale genome assembly of turbot using a combination of PacBio long-read and Illumina short-read sequencing technologies. The genome assembly spans 538.22 Mb comprising 27 contigs with a contig N50 size of 25.76 Mb. Annotation of the genome assembly identified 104.45 Mb repetitive sequences, 22,442 protein-coding genes and 3,345 ncRNAs. Moreover, a total of 345 stress responsive candidate genes were identified by gene co-expression network analysis based on 14 published stress-related RNA-seq datasets consisting of 165 samples. Significantly improved genome assembly and stress-related candidate gene pool will provide valuable resources for further research on turbot functional genome and stress response mechanism, as well as theoretical support for the development of molecular breeding technology for resistant turbot varieties.

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Identification of Non-Coding RNAs Based on Alignment-Free Features in Crassostrea gigas (Pacific Oyster) Transcriptome

Chai

Song²

2022

J. Ocean Univ. China

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Transcriptomic Profiling of the Immune Response to Crowding Stress in Juvenile Turbot (Scophthalmus maximus)

Cited by 5 publications

References 71 publications

Transcriptome-Based Analysis of the Liver Response Mechanism of Black Porgy (Acanthopagrus schlegelii) to Stocking Density

Transcriptome-Based Analysis of the Liver Response Mechanism of Black Porgy (Acanthopagrus schlegelii) to Stocking Density

Identification of stress-related genes by co-expression network analysis based on the improved turbot genome

Identification of Non-Coding RNAs Based on Alignment-Free Features in Crassostrea gigas (Pacific Oyster) Transcriptome

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