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

Yu, Dianjiang; Zhai, Yufeng; He, Peimin; Jia, Rui

doi:10.3389/fimmu.2022.826794

Cited by 7 publications

(8 citation statements)

References 51 publications

(74 reference statements)

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“…This difference in gene regulation suggests that although P. monodon can cope with this stress, 18 psu and 3 psu may cause subtle stress. The GO analysis results are consistent with previous studies on aquatic animals that classified DEGs into three categories of biological processes, molecular functions and cellular components, such as P. vannamei (Yu et al, 2022), Pelteobagrus fulvidraco (Wang et al, 2022) and Oratosquilla oratoria (Lou et al, 2019). Furthermore, Frontiers in Physiology frontiersin.org KEGG analysis showed that changes in salinity significantly affected metabolic, immune and signaling pathways in P. monodon, consistent with the results of transcriptome analyses of P. vannamei (Chen et al, 2015), Acanthogobius ommaturus (Sun et al, 2020) and Eriocheir sinensis (Yang et al, 2019) under low salinity stress.…”

Section: Discussionsupporting

confidence: 90%

“…Thus, transcriptome technologies address key gene expression patterns in non-model organisms in specific environments and enable the detection of unknown genes and the discovery of novel transcripts. In recent years, transcriptome technologies have been widely used for transcriptome assembly and annotation in many aquatic animals, such as Macrobrachium rosenbergii (Liu X. et al, 2021), Coilia nasus (Gao et al, 2021) and Penaeus vannamei (Yu et al, 2022). Thus, RNA-seq is expected to make an important contribution to the resolution of long-term low salinity adaptation mechanisms in P. monodon.…”

Section: Introductionmentioning

confidence: 99%

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Transcriptome and molecular regulatory mechanisms analysis of gills in the black tiger shrimp Penaeus monodon under chronic low-salinity stress

Si²,

Jiang³

et al. 2023

Front. Physiol.

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Background: Salinity is one of the main influencing factors in the culture environment and is extremely important for the survival, growth, development and reproduction of aquatic animals.Methods: In this study, a comparative transcriptome analysis (maintained for 45 days in three different salinities, 30 psu (HC group), 18 psu (MC group) and 3 psu (LC group)) was performed by high-throughput sequencing of economically cultured Penaeus monodon. P. monodon gill tissues from each treatment were collected for RNA-seq analysis to identify potential genes and pathways in response to low salinity stress.Results: A total of 64,475 unigenes were annotated in this study. There were 1,140 upregulated genes and 1,531 downregulated genes observed in the LC vs. HC group and 1,000 upregulated genes and 1,062 downregulated genes observed in the MC vs. HC group. In the LC vs. HC group, 583 DEGs significantly mapped to 37 signaling pathways, such as the NOD-like receptor signaling pathway, Toll-like receptor signaling pathway, and PI3K-Akt signaling pathway; in the MC vs. HC group, 444 DEGs significantly mapped to 28 signaling pathways, such as the MAPK signaling pathway, Hippo signaling pathway and calcium signaling pathway. These pathways were significantly associated mainly with signal transduction, immunity and metabolism.Conclusions: These results suggest that low salinity stress may affect regulatory mechanisms such as metabolism, immunity, and signal transduction in addition to osmolarity in P. monodon. The greater the difference in salinity, the more significant the difference in genes. This study provides some guidance for understanding the low-salt domestication culture of P. monodon.

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Section: Discussionsupporting

confidence: 90%

Section: Introductionmentioning

confidence: 99%

Transcriptome and molecular regulatory mechanisms analysis of gills in the black tiger shrimp Penaeus monodon under chronic low-salinity stress

Si²,

Jiang³

et al. 2023

Front. Physiol.

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“…In addition to that, they also investigated the knockdown of LvVEGF4 and LvVEGF5 genes which could repress the expression of focal adhesion tyrosine kinase (FAK) and phosphoinositide 3-kinase (PI3K) genes, which act as regulators for cell migration and VEGF-inhibited apoptosis, respectively, in VEGF pathway [52]. In addition, the transcriptomic analysis also showed the expression of VEGF receptor 2-like transcript was upregulated in WSSV-infected L. vannamei shrimps for 2 h post-infection [53]. In mammalian, the receptor VEGF-2 plays a crucial role in angiogenesis which could induce various signalling pathways, including phospholipase-Cγ (PLC-γ)/protein kinase C (PKC), p38-Mitogen-activated protein kinase (MAPK), PI3K/protein kinase B (PKB), SRC, and FAK to trigger processes such as cell migration, adhesion, proliferation, survival, and permeability to the response of cancer [54].…”

Section: Vascular Endothelial Growth Factor (Vegf) Pathwaymentioning

confidence: 99%

MicroRNA Regulation in Infectious Diseases and Its Potential as a Biosensor in Future Aquaculture Industry: A Review

SiouNing,

Seong,

Kondo

et al. 2023

Molecules

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An infectious disease is the most apprehensive problem in aquaculture as it can lead to high mortality in aquatic organisms and massive economic loss. Even though significant progress has been accomplished in therapeutic, prevention, and diagnostic using several potential technologies, more robust inventions and breakthroughs should be achieved to control the spread of infectious diseases. MicroRNA (miRNA) is an endogenous small non-coding RNA that post-transcriptionally regulates the protein-coding genes. It involves various biological regulatory mechanisms in organisms such as cell differentiation, proliferation, immune responses, development, apoptosis, and others. Furthermore, an miRNA also acts as a mediator to either regulate host responses or enhance the replication of diseases during infection. Therefore, the emergence of miRNAs could be potential candidates for the establishment of diagnostic tools for numerous infectious diseases. Interestingly, studies have revealed that miRNAs can be used as biomarkers and biosensors to detect diseases, and can also be used to design vaccines to attenuate pathogens. This review provides an overview of miRNA biogenesis and specifically focuses on its regulation during infection in aquatic organisms, especially on the host immune responses and how miRNAs enhance the replication of pathogens in the organism. In addition to that, we explored the potential applications, including diagnostic methods and treatments, that can be employed in the aquaculture industry.

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“…All melt curves have a single peak, and PCR efficiency for each primer pair was ranging from 91 to 103%. The level of expression of selected genes was calculated using the 2 − Ct method (Livak and Schmittgen, 2001), and the expression of selected genes was normalized against β-actin expression levels (Yu et al, 2022). Comparative analyses for each target gene among different samples were analyzed using the one-way ANOVA (SPSS, version 25.0).…”

Section: Real-time Quantitative Polymerase Chain Reactionmentioning

confidence: 99%

Comparative transcriptomics analyses of chemosensory genes of antenna in male red swamp crayfish Procambarus clarkii

Zhou

et al. 2022

Front. Ecol. Evol.

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The red swamp crayfish, Procambarus clarkii, is a globally invasive species and has caused huge damage to aquaculture, biodiversity, and ecology worldwide. Antenna-expressed receptors are important for P. clarkii to detect chemosensory cues for mate attraction. In this study, we tested the behavior of male P. clarkii to the conditioned water from female P. clarkii during the mating and non-mating periods, and performed RNA sequencing to investigate the chemosensory-related genes of the antenna of male P. clarkii. The results of the behavioral assay have shown that for the female-conditioned water, male P. clarkii within the mating period can be significantly attracted, but not during the non-mating period. This suggested that the expressions of chemosensory-related genes in the antenna of male P. clarkii may change significantly with mating seasonal variation. Antenna transcriptomes found that a total of 59,218 unigenes with an average length of 1,056.41 bp, and 4,889 differentially expressed unigenes (DEGs), among which 2,128 were upregulated, while 2,761 were downregulated were obtained. A total of 12 upregulated and nine downregulated DEGs were associated with chemical reception, including four ionotropic receptors (IRs) or ionotropic glutamate receptors (iGluRs), eight G-protein-coupled receptors (GPCRs), five transient receptor potential channels (TRP channels), one sodium–calcium exchanger, one isomerase, and two uncharacterized proteins (chemosensory proteins-like, CSPs). CSPs were preliminarily classified as pheromone receptors in the antenna of male P. clarkii. Furthermore, the calcium transduction-related pathways may play an important role in the sex pheromone reception of the male P. clarkii’s antenna. The results of quantitative real-time reverse transcriptase PCR (RT-qPCR) showed that the trends of expression of eight selected unigenes were consistent with RNA-Seq results. Our results provide more comprehensive data for chemical communication mechanisms after P. clarkii enter the mating period and eventually would develop better control strategies in further.

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

Cited by 7 publications

References 51 publications

Transcriptome and molecular regulatory mechanisms analysis of gills in the black tiger shrimp Penaeus monodon under chronic low-salinity stress

Transcriptome and molecular regulatory mechanisms analysis of gills in the black tiger shrimp Penaeus monodon under chronic low-salinity stress

MicroRNA Regulation in Infectious Diseases and Its Potential as a Biosensor in Future Aquaculture Industry: A Review

Comparative transcriptomics analyses of chemosensory genes of antenna in male red swamp crayfish Procambarus clarkii

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