Transcriptome analysis of Pacific white shrimp (Litopenaeus vannamei) challenged by Vibrio parahaemolyticus reveals unique immune-related genes

Qin, Zhendong; Babu, V. Sarath; Wan, Quanyuan; Zhou, Meng; Ri-sheng, Liang; Asim, Muhammad; Zhao, Lijuan; Li, Jun; Lan, Jiang-Feng; Lin, Li

doi:10.1016/j.fsi.2018.03.030

Cited by 80 publications

(24 citation statements)

References 59 publications

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“…Transcriptome sequencing, a powerful tool in biological research, has been used to analyze the immune response to many shrimp pathogens ( 37 ). Xue et al compared the transcriptome profiles in hemocytes of uninfected and WSSV-infected L. vannamei and found 1,179 immune-related unigenes ( 38 ).…”

Section: Discussionmentioning

confidence: 99%

Comparative Transcriptome Analysis of Litopenaeus vannamei Reveals That Triosephosphate Isomerase-Like Genes Play an Important Role During Decapod Iridescent Virus 1 Infection

Liao

Wang

et al. 2020

Front. Immunol.

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Decapod iridescent virus 1 (DIV1) results in severe economic losses in shrimp aquaculture. However, little is known about the physiological effect of DIV1 infection on the host. In this study, we found that the lethal dose 50 of DIV1-infected Litopenaeus vannamei after 48, 72, 96, and 156 h were 4.86 × 10 6 , 5.07 × 10 5 , 2.13 × 10 5 , and 2.38 × 10 4 copies/μg DNA, respectively. In order to investigate the mechanisms of DIV1 infection, a comparative transcriptome analysis of hemocytes from L. vannamei , infected or not with DIV1, was conducted. The BUSCO analysis showed that the transcriptome was with high completeness (complete single-copy BUSCOs: 57.3%, complete duplicated BUSCOs: 41.1%, fragmentation: 0.8%, missing: 0.8%). A total of 168,854 unigenes were assembled, with an average length of 601 bp. Based on homology searches, Kyoto Encyclopedia of Genes and Genomes (KEGG), gene ontology (GO), and cluster of orthologous groups of proteins (KOG) analysis, 62,270 (36.88%) unigenes were annotated. Among them, 1,112 differentially expressed genes (DEGs) were identified, of which 889 genes were up-regulated and 223 genes were down-regulated after DIV1 infection. These genes were mainly annotated to the major metabolic processes such as fructose and mannose metabolism, carbon metabolism, and inositol phosphate metabolism. Among these metabolic pathways, the triosephosphate isomerase ( TPI ) family was the most eye-catching DEG as it participates in several metabolic processes. Three types of TPI, LvTPI-like, LvTPI-Blike , and LvTPI-Blike1 , were obtained for gene silencing by RNA interference. The results showed that LvTPI-like and LvTPI-Blike1 silencing caused a high mortality rate among L. vannamei . However, LvTPI-like and LvTPI-Blike silencing reduced DIV1 replication in DIV1-infected L. vannamei . All the results indicated that TPI-like genes play an important role during DIV1 infection, which provides valuable insight into the infection mechanism of DIV1 in shrimp and may aid in preventing viral diseases in shrimp culture.

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Section: Discussionmentioning

confidence: 99%

Comparative Transcriptome Analysis of Litopenaeus vannamei Reveals That Triosephosphate Isomerase-Like Genes Play an Important Role During Decapod Iridescent Virus 1 Infection

Liao

Wang

et al. 2020

Front. Immunol.

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“…The activity of these immune enzymes is usually used to reflect the impact of shrimp immunity after a pathogen infection (such as WSSV, IHHNV, Vibrio parahaemolyticus, and Spiroplasma eriocheiris) (Arockiaraj et al, 2012;Ren et al, 2020;Zhu et al, 2020;Jiao et al, 2021), harmful substance invasion (such as microcystin and tributyltin) (Wu et al, 2014;Chen et al, 2015), or dietary improvement (such as polypeptides and dietary hydrolyzable tannins) (Liao et al, 2019;Zhu et al, 2021). With the rapid development of high-throughput RNA sequencing technologies, including RNA sequencing (RNA-seq), more and more studies use RNA-seq to expose the immune molecular mechanism of shrimp against viral infections, bacterial infections, and environmental stress (Kurita and Nakajima, 2012;Wang et al, 2014;Zeng et al, 2014;Qin et al, 2018;Jin and Zhu, 2019;Nian et al, 2019;Duan et al, 2020). Among them, hemocytes were widely used in transcriptome studies of shrimp virus infections, such as WSSV, TSV, and DIV1 (Sookruksawong et al, 2013;Ghani and Bhassu, 2019;Wang et al, 2019;.…”

Section: Introductionmentioning

confidence: 99%

The Molecular Mechanism of Hemocyte Immune Response in Marsupenaeus japonicus Infected With Decapod Iridescent Virus 1

Zhao

Chen

et al. 2021

Front. Microbiol.

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As a new type of shrimp lethal virus, decapod iridescent virus 1 (DIV1) has caused huge economic losses to shrimp farmers in China. Up to now, DIV1 has been detected in a variety of shrimps, but there is no report in Marsupenaeus japonicus. In the current study, we calculated the LC50 to evaluate the toxicity of DIV1 to M. japonicus and determined through nested PCR that M. japonicus can be the host of DIV1. Through enzyme activity study, it was found that DIV1 can inhibit the activities of superoxide dismutase, catalase, lysozyme, and phenoloxidase, which could be a way for DIV1 to achieve immune evasion. In a comprehensive study on the transcriptomic changes of M. japonicus in response to DIV1 infection, a total of 52,287 unigenes were de novo assembled, and 20,342 SSR markers associated with these unigenes were obtained. Through a comparative transcriptomic analysis, 6,900 differentially expressed genes were identified, including 3,882 upregulated genes and 3,018 downregulated genes. The Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis showed that some GO terms related to virus invasion, replication, and host antiviral infection were promoted under DIV1 infection, such as carbohydrate binding, chitin binding, chitin metabolic process, and DNA replication initiation, and some KEGG pathways related to immune response were significantly influenced by DIV1 infection, including Toll and IMD signaling pathway, JAK-STAT signaling pathway, IL-17 signaling pathway, C-type lectin receptor signaling pathway, complement and coagulation cascades, antigen processing and presentation, necroptosis, apoptosis, NOD-like receptor signaling pathway, apoptosis—multiple species, and TNF signaling pathway. Further analysis showed that STAT, Dorsal, Relish, heat shock protein 70 (HSP70), C-type lectins, and caspase play an important role in DIV1 infection. This is the first detailed study of DIV1 infection in M. japonicus, which initially reveals the molecular mechanism of DIV1 infection in M. japonicus by using the transcriptome analysis of hemocytes combined with enzyme activity study.

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“…These mostly include studies on host–viral mechanisms in shrimps for the identification of immune gene repertoire (Xue et al., 2013; Zeng et al., 2013). Some studies pertaining to host antibacterial mechanisms have also been recorded that understands the molecular pathways responsible for shrimp defence in response to infectious diseases (Qin et al., 2018; Velazquez‐Lizarraga et al., 2019; Zeng et al., 2020). From the Illumina sequencing data sets obtained in the present study, we found a total of 1,911 differentially expressed genes in between the Mr_VH and Mr_C transcriptome libraries, out of which a significant proportion of the contig sequences (1,805) were downregulated.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome analysis of Macrobrachium rosenbergii hepatopancreas in response to Vibrio harveyi infection

Baliarsingh¹,

Chung

Sahoo

et al. 2020

Aquaculture Research

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The giant freshwater prawn, Macrobrachium rosenbergii, is mass cultivated with production exceeding 200,000 tons per year since 2002. Lately, bacterial and viral infections have resulted in mortalities significantly affecting production. Vibrio harveyi causes hepatopancreatic nuclear deformation and lipid breakdown in post‐larval juvenile prawns. To facilitate the understanding of the molecular factors underlying host defence against the pathogen, we investigated the transcriptome and differentially expressed gene (DEG) profiles of the hepatopancreas from M. rosenbergii infected with V. harveyi. A total of 1,884 and 6,809 unigenes in control (PBS‐treated) and Vibrio‐infected groups, respectively, were assembled from the transcriptome. A significant proportion of unigenes (76.56%) annotated to homologous proteins in the Protostome database. KOG analysis identified the distribution of unigenes under translation, ribosomal structure and biogenesis, while GO and KEGG analysis indicated genes involved in metabolism and genetic information processing, respectively. The DEG analysis produced a total of 1,911 aberrantly expressed sequences, with 1,805 and 106 sequences significantly down‐ or upregulated (based on log2[FC]), respectively. Among the downregulated sequences, we identified ferritin, haemolysin C, chitin synthase, zinc metalloprotease and glycerol kinase. This study has provided insights to access a greater number of traits to study bacterial pathogenicity in the host, thus contributing to the defences of giant freshwater prawn.

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Transcriptome analysis of Pacific white shrimp (Litopenaeus vannamei) challenged by Vibrio parahaemolyticus reveals unique immune-related genes

Cited by 80 publications

References 59 publications

Comparative Transcriptome Analysis of Litopenaeus vannamei Reveals That Triosephosphate Isomerase-Like Genes Play an Important Role During Decapod Iridescent Virus 1 Infection

Comparative Transcriptome Analysis of Litopenaeus vannamei Reveals That Triosephosphate Isomerase-Like Genes Play an Important Role During Decapod Iridescent Virus 1 Infection

The Molecular Mechanism of Hemocyte Immune Response in Marsupenaeus japonicus Infected With Decapod Iridescent Virus 1

Transcriptome analysis of Macrobrachium rosenbergii hepatopancreas in response to Vibrio harveyi infection

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