Integrated analysis of physiological, transcriptomic and metabolomic responses and tolerance mechanism of nitrite exposure in Litopenaeus vannamei

Xiao, Jie; Liu, Qingyun; Du, Jing-Hao; Zhu, Weilin; Li, Qiangyong; Chen, Xiuli; Liu, Hong; Zhou, Xiaoyun; Zhao, Yang; Wang, Huanling

doi:10.1016/j.scitotenv.2019.134416

Cited by 47 publications

(18 citation statements)

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“…The DEGs that were up-regulated included actin-like, actin, muscle-like, cuticle protein 7-like, cuticle protein CP1158-like, myosin regulatory light chain 2like, transmembrane protein 53-like and tubulin-tyrosine ligaselike protein 12, transcript variant X1 in N-P2; actin-3, musclespecific-like, keratin, type I cytoskeletal 10-like, keratinassociated protein 19-2-like, myoferlin-like, myosin heavy chain, muscle-like, pupal cuticle protein 36a-like and transmembrane protein 53-B-like in N-P36; and actin-2, muscle-specific-like, cuticle protein 7-like, transcript variant X1, cuticle protein AMP1A-like, cuticle protein CP14.6-like, cuticular protein 47Eg-like, keratin-associated protein 16-1like, protein Skeletor, isoforms B/C-like, pupal cuticle protein Edg-84A-like and troponin C-like, transcript variant X1 in N-P48. The results indicated that the up-regulation of cytoskeleton remodeling-associated genes expression may confer stress protection and allow shrimp to respond to pathogen invasion or drastic environmental changes, in agreement with findings from previous studies (37). Moreover, we found that the expression of cytoskeleton-related genes showed temporal differences.…”

Section: Hepatopancreatic Transcriptomic Response After Wssv Challengesupporting

confidence: 92%

“…The differential expression of cytoskeleton-related genes is also an important means through which shrimp cope with invasion by foreign pathogenic microorganisms ( 37 ). The shell and gastrointestinal tract in shrimp are covered with a cuticle, which provides the first line of defense against physical or chemical damage, and pathogen infection ( 38 ).…”

Section: Discussionmentioning

confidence: 99%

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Comprehensive Transcriptomic and Metabolomic Analysis of the Litopenaeus vannamei Hepatopancreas After WSSV Challenge

Zhai

et al. 2022

Front. Immunol.

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Litopenaeus vannamei is the major farmed shrimp species worldwide. White spot disease due to white spot syndrome virus (WSSV) is severely affecting shrimp worldwide, causing extensive economic losses in L. vannamei culture. This is the first study that applied combined transcriptomic and metabolomic analysis to study the effects on the L. vannamei hepatopancreas after WSSV challenge. Our transcriptomic data revealed differentially expressed genes (DEGs) associated with immunity, apoptosis, the cytoskeleton and the antioxidant system in the hepatopancreas of L. vannamei. Metabolomic results showed that WSSV disrupts metabolic processes including amino acid metabolism, lipid metabolism and nucleotide metabolism. After challenged by WSSV, immune-related DEGs and differential metabolites (DMs) were detected in the hepatopancreas of L. vannamei, indicating that WSSV may damage the immune system and cause metabolic disorder in the shrimp. In summary, these results provide new insights into the molecular mechanisms underlying L. vannamei’s response to WSSV.

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Section: Hepatopancreatic Transcriptomic Response After Wssv Challengesupporting

confidence: 92%

Section: Discussionmentioning

confidence: 99%

Comprehensive Transcriptomic and Metabolomic Analysis of the Litopenaeus vannamei Hepatopancreas After WSSV Challenge

Zhai

et al. 2022

Front. Immunol.

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“…To date, there are few studies on nitrite tolerance in aquatic animals. A single recent study investigated the physiology, transcriptome, and metabolome of L. vannamei, and found that nitrite tolerance in L. vannamei might be associated with the upregulation of hypoxia inducible factor-1α to regulate energy supply and gaseous exchange (Xiao et al, 2020). However, our results did not locate hypoxia inducible factor-1α in the identified QTL regions.…”

Section: Discussioncontrasting

confidence: 92%

Construction of a High-Density Genetic Map and Identification of Quantitative Trait Loci for Nitrite Tolerance in the Pacific White Shrimp (Litopenaeus vannamei)

et al. 2020

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Nitrite is a major environmental toxin in aquaculture systems that disrupts multiple physiological functions in aquatic animals. Although nitrite tolerance in shrimp is closely related to successful industrial production, few genetic studies of this trait are available. In this study, we constructed a high-density genetic map of Litopenaeus vannamei with 17,242 single nucleotide polymorphism markers spanning 6,828.06 centimorgans (cM), with an average distance of 0.4 cM between adjacent markers on 44 linkage groups (LGs). Using this genetic map, we identified two markers associated with nitrite tolerance. We then sequenced the transcriptomes of the most nitrite-tolerant and nitritesensitive individuals from each of four genetically distinct L. vannamei families (LV-I-4). We found 2,002, 1,983, 1,954, and 1,867 differentially expressed genes in families LV-1, LV-2, LV-3, and LV-4, respectively. By integrating QTL and transcriptomics analyses, we identified a candidate gene associated with nitrite tolerance. This gene was annotated as solute carrier family 26 member 6 (SLC26A6). RNA interference (RNAi) analysis demonstrated that SLC26A6 was critical for nitrite tolerance in L. vannamei. The present study increases our understanding of the molecular mechanisms underlying nitrite tolerance in shrimp and provides a basis for molecular-marker-assisted shrimp breeding.

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“…Infiltration of CD8 + T cells is a precondition for tumor immunity in the tumor microenvironment (73). The adaptive immune response was enhanced as antigen recognition increased (74).…”

Section: Discussionmentioning

confidence: 99%

CD8+ T Cell Co-Expressed Genes Correlate With Clinical Phenotype and Microenvironments of Urothelial Cancer

et al. 2020

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PurposeTo identify immune-related co-expressed genes that promote CD8+ T cell infiltration in bladder cancer, and to explore the interactions among relevant genes in the tumor microenvironment.MethodWe obtained bladder cancer gene matrix and clinical information data from TCGA, GSE32894 and GSE48075. The “estimate” package was used to calculate tumor purity and immune score. The CIBERSORT algorithm was used to assess CD8+ T cell proportions. Weighted gene co-expression network analysis was used to identify the co-expression modules with CD8+ T cell proportions and bladder tumor purity. Subsequently, we performed correlation analysis among angiogenesis factors, angiogenesis inhibitors, immune inflammatory responses, and CD8+ T cell related genes in tumor microenvironment.ResultsA CD8+ T cell related co-expression network was identified. Eight co-expressed genes (PSMB8, PSMB9, PSMB10, PSME2, TAP1, IRF1, FBOX6, ETV7) were identified as CD8+ T cell-related genes that promoted infiltration of CD8+ T cells, and were enriched in the MHC class I tumor antigen presentation process. The proteins level encoded by these genes (PSMB10, PSMB9, PSMB8, TAP1, IRF1, and FBXO6) were lower in the high clinical grade patients, which suggested the clinical phenotype correlation both in mRNA and protein levels. These factors negatively correlated with angiogenesis factors and positively correlated with angiogenesis inhibitors. PD-1 and PD-L1 positively correlated with these genes which suggested PD-1 expression level positively correlated with the biological process composed by these co-expression genes. In the high expression group of these genes, inflammation and immune response were more intense, and the tumor purity was lower, suggesting that these genes were immune protective factors that improved the prognosis in patients with bladder cancer.ConclusionThese co-expressed genes promote high levels of infiltration of CD8+ T cells in an immunoproteasome process involved in MHC class I molecules. The mechanism might provide new pathways for treatment of patients who are insensitive to PD-1 immunotherapy due to low degrees of CD8+ T cell infiltration.

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Integrated analysis of physiological, transcriptomic and metabolomic responses and tolerance mechanism of nitrite exposure in Litopenaeus vannamei

Cited by 47 publications

References 47 publications

Comprehensive Transcriptomic and Metabolomic Analysis of the Litopenaeus vannamei Hepatopancreas After WSSV Challenge

Comprehensive Transcriptomic and Metabolomic Analysis of the Litopenaeus vannamei Hepatopancreas After WSSV Challenge

Construction of a High-Density Genetic Map and Identification of Quantitative Trait Loci for Nitrite Tolerance in the Pacific White Shrimp (Litopenaeus vannamei)

CD8+ T Cell Co-Expressed Genes Correlate With Clinical Phenotype and Microenvironments of Urothelial Cancer

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