Please use this identifier to cite or link to this item: http://ir.swu.ac.th/jspui/handle/123456789/12274
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dc.contributor.authorPasookhush P.
dc.contributor.authorHindmarch C.
dc.contributor.authorSithigorngul P.
dc.contributor.authorLongyant S.
dc.contributor.authorBendena W.G.
dc.contributor.authorChaivisuthangkura P.
dc.date.accessioned2021-04-05T03:02:28Z-
dc.date.available2021-04-05T03:02:28Z-
dc.date.issued2019
dc.identifier.issn14712164
dc.identifier.other2-s2.0-85073719139
dc.identifier.urihttps://www.scopus.com/inward/record.uri?eid=2-s2.0-85073719139&doi=10.1186%2fs12864-019-6102-6&partnerID=40&md5=b41425ce2c4860052155231fddff3ee6
dc.identifier.urihttp://ir.swu.ac.th/jspui/handle/123456789/12274-
dc.description.abstractBackground: Macrobrachium rosenbergii, is one of a major freshwater prawn species cultured in Southeast Asia. White tail disease (WTD), caused by Macrobrachium rosenbergii nodavirus (MrNV), is a serious problem in farm cultivation and is responsible for up to 100% mortality in the post larvae stage. Molecular data on how M. rosenbergii post-larvae launches an immune response to an infection with MrNV is not currently available. We therefore compared the whole transcriptomic sequence of M. rosenbergii post-larvae before and after MrNV infection. Results: Transcriptome for M. rosenbergii post-larvae demonstrated high completeness (BUSCO Complete: 83.4%, fragmentation: 13%, missing:3.3%, duplication:16.2%; highest ExN50 value: 94%). The assembled transcriptome consists of 96,362 unigenes with N50 of 1308 bp. The assembled transcriptome was successfully annotated against the NCBI non-redundant arthropod database (33.75%), UniProt database (26.73%), Gene Ontology (GO) (18.98%), Evolutionary Genealogy of Genes: Non-supervised Orthologous Groups (EggNOG) (20.88%), and Kyoto Encyclopedia of Genes and Genome pathway (KEGG) (20.46%). GO annotations included immune system process, signaling, response to stimulus, and antioxidant activity. Differential abundance analysis using EdgeR showed 2413 significantly up-regulated genes and 3125 significantly down-regulated genes during the infection of MrNV. Conclusions: This study reported a highly complete transcriptome from the post-larvae stage of giant river prawn, M. rosenbergii. Differential abundant transcripts during MrNV infection were identified and validated by qPCR, many of these differentially abundant transcripts as key players in antiviral immunity. These include known members of the innate immune response with the largest expression change occurring in the M. rosenbergii post-larvae after MrNV infection such as antiviral protein, C-type lectin, prophenol oxidase, caspase, ADP ribosylation factors, and dicer. © 2019 The Author(s).
dc.subjectadenosine diphosphate ribosylation factor
dc.subjectcaspase
dc.subjectdicer
dc.subjectlectin
dc.subjectoxidoreductase
dc.subjecttranscriptome
dc.subjectfresh water
dc.subjecttranscriptome
dc.subjectArticle
dc.subjectcontrolled study
dc.subjectdown regulation
dc.subjectgene expression
dc.subjectgene identification
dc.subjectgene ontology
dc.subjectinnate immunity
dc.subjectMacrobrachium rosenbergii
dc.subjectmolecular genetics
dc.subjectNodaviridae
dc.subjectnonhuman
dc.subjectpopulation abundance
dc.subjectpostlarva
dc.subjectprincipal component analysis
dc.subjectquantitative analysis
dc.subjectreverse transcription polymerase chain reaction
dc.subjectRNA extraction
dc.subjectRNA sequence
dc.subjectsignal transduction
dc.subjectstimulus response
dc.subjecttranscriptomics
dc.subjectupregulation
dc.subjectvirus immunity
dc.subjectvirus infection
dc.subjectanimal
dc.subjectaquaculture
dc.subjectgene expression profiling
dc.subjectgenetics
dc.subjectimmunity
dc.subjectimmunology
dc.subjectPalaemonidae
dc.subjectphysiology
dc.subjectRNA virus infection
dc.subjectveterinary medicine
dc.subjectvirology
dc.subjectAnimals
dc.subjectAquaculture
dc.subjectFresh Water
dc.subjectGene Expression Profiling
dc.subjectGene Ontology
dc.subjectImmunity
dc.subjectMolecular Sequence Annotation
dc.subjectNodaviridae
dc.subjectPalaemonidae
dc.subjectRNA Virus Infections
dc.subjectTranscriptome
dc.titleTranscriptomic analysis of Macrobrachium rosenbergii (giant fresh water prawn) post-larvae in response to M. rosenbergii nodavirus (MrNV) infection: De novo assembly and functional annotation
dc.typeArticle
dc.rights.holderScopus
dc.identifier.bibliograpycitationBMC Genomics. Vol 20, No.1 (2019)
dc.identifier.doi10.1186/s12864-019-6102-6
Appears in Collections:Scopus 1983-2021

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