Distinct herpesvirus resistances and immune responses of three gynogenetic clones of gibel carp revealed by comprehensive transcriptomesReport as inadecuate




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BMC Genomics

, 18:561

Non-human and non-rodent vertebrate genomics

Abstract

BackgroundGibel carp is an important aquaculture species in China, and a herpesvirus, called as Carassius auratus herpesvirus CaHV, has hampered the aquaculture development. Diverse gynogenetic clones of gibel carp have been identified or created, and some of them have been used as aquaculture varieties, but their resistances to herpesvirus and the underlying mechanism remain unknown.

ResultsTo reveal their susceptibility differences, we firstly performed herpesvirus challenge experiments in three gynogenetic clones of gibel carp, including the leading variety clone A, candidate variety clone F and wild clone H. Three clones showed distinct resistances to CaHV. Moreover, 8772, 8679 and 10,982 differentially expressed unigenes DEUs were identified from comparative transcriptomes between diseased individuals and control individuals of clone A, F and H, respectively. Comprehensive analysis of the shared DEUs in all three clones displayed common defense pathways to the herpesvirus infection, activating IFN system and suppressing complements. KEGG pathway analysis of specifically changed DEUs in respective clones revealed distinct immune responses to the herpesvirus infection. The DEU numbers identified from clone H in KEGG immune-related pathways, such as -chemokine signaling pathway- -Toll-like receptor signaling pathway- and others, were remarkably much more than those from clone A and F. Several IFN-related genes, including Mx1, viperin, PKR and others, showed higher increases in the resistant clone H than that in the others. IFNphi3, IFI44-like and Gig2 displayed the highest expression in clone F and IRF1 uniquely increased in susceptible clone A. In contrast to strong immune defense in resistant clone H, susceptible clone A showed remarkable up-regulation of genes related to apoptosis or death, indicating that clone A failed to resist virus offensive and evidently induced apoptosis or death.

ConclusionsOur study is the first attempt to screen distinct resistances and immune responses of three gynogenetic gibel carp clones to herpesvirus infection by comprehensive transcriptomes. These differential DEUs, immune-related pathways and IFN system genes identified from susceptible and resistant clones will be beneficial to marker-assisted selection MAS breeding or molecular module-based resistance breeding in gibel carp.

KeywordsGibel carp Herpesvirus Transcriptome Interferon Disease resistance Immune response AbbreviationsCOGClusters of Orthologous Groups of proteins

DEUsDifferentially expressed unigenes

dpidays post injection

GigInterferon-inducible protein Gig

GOGene Ontology

IFIInterferon-induced protein

IFITInterferon-induced protein with tetratricopeptide repeat

IFITMInterferon induced transmembrane protein

IFNInterferon

IFNARInterferon alpha-beta receptor

IFRDInterferon-related developmental regulator

IgImmunoglobulin

ILInterleukin

IRFInterferon regulatory factor

ISGInterferon stimulated gene

ISG20L2Interferon stimulated exonuclease gene 20-like 2

JAKJanus kinase

KEGGKyoto Encyclopedia of Genes and Genomes

MAVSMitochondrial antiviral signaling protein

MDA5melanoma differentiation-associated gene

MITAMediator of IRF3 activation

MxInterferon inducible Mx protein

MyD88Myeloid differentiation primary-response protein 88

NCBINational Center for Biotechnology Information

NRNCBI non-redundant protein

NTNCBI non-redundant nucleotide

PKRDouble-stranded RNA dsRNA-dependent protein kinase

PKZProtein kinase containing Z-DNA binding domains

PRKRAProtein kinase, interferon-inducible double stranded RNA dependent activator

PRKRIRAProtein-kinase, interferon-inducible double stranded RNA dependent inhibitor, repressor of P58 repressor a

RIG-IRetinoic acid-inducible gene I

RNA-SeqRNA-sequencing

STATSignal transducer and activator of transcription

TBKTANK-binding kinase

TLRToll-like receptor

TNFRSFTumor necrosis factor receptor superfamily

TRIM39Tripartite motif containing 39

USP18ubiquitin-specific protease 18.

Electronic supplementary materialThe online version of this article doi:10.1186-s12864-017-3945-6 contains supplementary material, which is available to authorized users.

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Author: Fan-Xiang Gao - Yang Wang - Qi-Ya Zhang - Cheng-Yan Mou - Zhi Li - Yuan-Sheng Deng - Li Zhou - Jian-Fang Gui

Source: https://link.springer.com/







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