Transcriptome profiling analysis of grouper during nervous necrosis virus persistent infection

Tso, Chun-Hsi; Lu, Ming–Wei

doi:10.1016/j.fsi.2018.03.009

Cited by 24 publications

(24 citation statements)

References 43 publications

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“…In recent years, a great deal of progress has been made on high-throughput tools for sequencing the transcriptome (RNA-Seq), enabling genome-wide transcriptomic analysis and providing valuable information for understanding virus-host interactions [227]. Different transcriptomic analyses have been performed on both NNV-infected cells [228][229][230][231][232][233] and fish [234][235][236][237][238].…”

Section: Host Responsementioning

confidence: 99%

“…Furthermore, several chemokines, cathepsins and lepsins were also up-regulated [239]. Brain tissue was also analyzed in persistently infected Malabar grouper (E. malabaricus), showing that highly immune cell active signaling and surface receptor expression were triggered during persistent infection, as well as the interferon-induced response [236]. Therefore, although immune cell activity was high in brain tissue during persistent infection, this failed to eliminate all the viral particles from the infected host.…”

Section: Host Responsementioning

confidence: 99%

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Betanodavirus and VER Disease: A 30-year Research Review

2020

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The outbreaks of viral encephalopathy and retinopathy (VER), caused by nervous necrosis virus (NNV), represent one of the main infectious threats for marine aquaculture worldwide. Since the first description of the disease at the end of the 1980s, a considerable amount of research has gone into understanding the mechanisms involved in fish infection, developing reliable diagnostic methods, and control measures, and several comprehensive reviews have been published to date. This review focuses on host-virus interaction and epidemiological aspects, comprising viral distribution and transmission as well as the continuously increasing host range (177 susceptible marine species and epizootic outbreaks reported in 62 of them), with special emphasis on genotypes and the effect of global warming on NNV infection, but also including the latest findings in the NNV life cycle and virulence as well as diagnostic methods and VER disease control.

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Section: Host Responsementioning

confidence: 99%

Section: Host Responsementioning

confidence: 99%

Betanodavirus and VER Disease: A 30-year Research Review

2020

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“…Such investigations have been performed in grouper kidney cells (GK cell line) [5], Asian sea bass epithelial cells (SB cell line) [6], European sea bass leukocytes [7], striped snakehead fish cells (SSN-1 cell line) [8] and European sea bass brain cells (DLB-1 cell line) [9]. The in vivo effect of NNV has also been analysed by RNA-Seq in the brain of sevenband grouper [10], pooled brain/eye and head kidney samples from Senegalese sole [11], the brain of Malabar grouper [12], and the liver, spleen and kidney of Epinephelus moara [13]. However, the in vivo response of European sea bass remains almost completely unexplored, and only a small number of publications have reported the modulation or involvement of immune factors in different tissues of D. labrax infected with NNV [14][15][16][17][18][19][20][21][22].…”

Section: Introductionmentioning

confidence: 99%

RNA-Seq analysis of European sea bass (Dicentrarchus labrax L.) infected with nodavirus reveals powerful modulation of the stress response

Lama

Pereiro

Valenzuela-Muñoz

et al. 2020

Vet Res

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Nodavirus, or nervous necrosis virus (NNV), is the causative agent of viral encephalopathy and retinopathy (VER), a severe disease affecting numerous fish species worldwide. European sea bass, a cultured species of great economic importance, is highly susceptible to the disease. To better understand the response of this organism to NNV, we conducted RNA-Seq analysis of the brain and head kidney from experimentally infected and uninfected sea bass juveniles at 24 and 72 hours post-infection (hpi). Contrary to what was expected, we observed modest modulation of immune-related genes in the brain, the target organ of this virus, and some of these genes were even downregulated. However, genes involved in the stress response showed extremely high modulation. Accordingly, the genes encoding the enzymes implicated in the synthesis of cortisol were almost the only overexpressed genes in the head kidney at 24 hpi. This stress response was attenuated after 72 h in both tissues, and a progressive immune response against the virus was mounted. Moreover, experiments were conducted to determine how stress activation could impact NNV replication. Our results show the complex interplay between viral activity, the stress reaction and the immune response.

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“…As such, understanding the immune system and developing genomic selection programmes have become an important goal of grouper research. Recently, transcriptome analyses have been conducted to identify the candidate genes and pathways for susceptibility or resistance to virus infections (Tso & Lu, ; Yang et al, ). However, no genomic resource is available for groupers so far, severely hindering studies examining their phylogeny, evolution and biology.…”

Section: Introductionmentioning

confidence: 99%

A chromosome‐level genome assembly of the giant grouper (Epinephelus lanceolatus) provides insights into its innate immunity and rapid growth

Zhou

Gao²,

Zhang

et al. 2019

Molecular Ecology Resources

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The giant grouper (Epinephelus lanceolatus) is the largest coral reef teleost, with a native range that spans temperate and tropical waters in the Pacific and the Indian Oceans. It is cultured artificially and used as a breeding species in aquaculture due to its rapid growth rate. Here we report a giant grouper genome assembled at the chromosome scale from sequences generated using Illumina and high‐throughput chromatin conformation capture (Hi‐C) technology. The assembly comprised 1.086 Gb, with 98.4% of the scaffold sequences anchored into 24 chromosomes. The contig and scaffold N50 values were 119.9 kb and 46.2 Mb, respectively. The assembly is of high integrity, including 96.4% universal single‐copy orthologues based on BUSCO analysis. Through chromosome‐scale evolution analysis, we identified alignments of six giant grouper chromosomes to three stickleback chromosomes and some of the genes located within the breakpoints of reshuffling events may related to development and growth. From the 24,718 protein‐coding genes, we found that several gene families related to innate immunity and glycan biosynthesis were significantly expanded in the giant grouper genome compared to other teleost genomes. In addition, we identified several genes related to the hormone signalling pathway and innate immunity that have experienced positive selection or accelerated evolution, implicating their roles in immune defence and fast growth of the species. The high‐quality genome assembly will provide a valuable genomic resource for further biological and evolutionary studies, and useful genomic tools for breeding of the giant grouper.

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Transcriptome profiling analysis of grouper during nervous necrosis virus persistent infection

Cited by 24 publications

References 43 publications

Betanodavirus and VER Disease: A 30-year Research Review

Betanodavirus and VER Disease: A 30-year Research Review

RNA-Seq analysis of European sea bass (Dicentrarchus labrax L.) infected with nodavirus reveals powerful modulation of the stress response

A chromosome‐level genome assembly of the giant grouper (Epinephelus lanceolatus) provides insights into its innate immunity and rapid growth

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