Next Generation Sequencing Reveals Regulation of Distinct Aedes microRNAs during Chikungunya Virus Development

Shrinet, Jatin; Jain, Shanu; Jain, Jaspreet; Bhatnagar, Raj K.; Sunil, Sujatha

doi:10.1371/journal.pntd.0002616

Cited by 64 publications

(79 citation statements)

References 40 publications

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“…miR‐283‐5p was upregulated and miR‐1‐3p was absent in an Ae. albopictus cell line after exposure to Chikungunya virus (Shrinet et al ., ). Similarly, in our study miR‐283‐5p was upregulated and miR‐1‐3p was downregulated in diapause pharate larvae.…”

Section: Discussionmentioning

confidence: 97%

MicroRNAs are differentially abundant during Aedes albopictus diapause maintenance but not diapause induction

Batz

Goff

Armbruster

2017

Insect Molecular Biology

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Diapause is a programmed dormancy that allows organisms to tolerate predictable periods of unfavorable conditions by temporarily halting development and reducing metabolism. Diapause is widespread among insects and is crucial for allowing organisms to coordinate their growth and reproduction with favorable environmental conditions. While the adaptive significance of diapause is well-understood, the molecular mechanisms underpinning diapause remain unresolved. We performed high-throughput sequencing to investigate the role of microRNAs in the diapause of the Asian tiger mosquito, Aedes albopictus. We first investigate miRNAs in diapause induction by characterizing maternally-provisioned miRNAs in mature oocytes of Ae. albopictus under diapause-inducing and diapause-averting conditions. Second, we investigate miRNAs in diapause maintenance by characterizing miRNAs in diapause and non-diapause pharate larvae. We identified 162 miRNAs, 152 previously known and 10 putatively novel. We identified no differentially abundant miRNAs in mature oocytes and seven differentially abundant miRNAs in pharate larvae. The predicted targets of differentially abundant miRNAs include genes affecting several processes related to diapause maintenance including ecdysone regulation, immune response, lipid metabolism, and regulation of development. Our results suggest that Ae. albopictus does not maternally-provision a unique set of miRNAs during diapause induction but miRNAs are a component of diapause maintenance in this species.

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Section: Discussionmentioning

confidence: 97%

MicroRNAs are differentially abundant during Aedes albopictus diapause maintenance but not diapause induction

Batz

Goff

Armbruster

2017

Insect Molecular Biology

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“…Over the past few years, mosquito miRNAs have been reported to be prominent gene regulatory factors in response to pathogen such as DENV, Chikungunya virus (CHIKV) and West Nile Virus (WNV) (Campbell et al ., ; Mayoral et al ., ; Shrinet et al ., ; Liu et al ., ). In our study, a total of 85 miRNAs were identified and with three regulated miRNAs upon DENV infection in Ae.…”

Section: Discussionmentioning

confidence: 99%

Integrated analysis of miRNAs and transcriptomes inAedes albopictusmidgut reveals the differential expression profiles of immune-related genes during dengue virus serotype-2 infection

Liu

et al. 2016

Insect Science

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Mosquito microRNAs (miRNAs) are involved in host-virus interaction, and have been reported to be altered by dengue virus (DENV) infection in Aedes albopictus (Diptera: Culicidae). However, little is known about the molecular mechanisms of Aedes albopictus midgut-the first organ to interact with DENV-involved in its resistance to DENV. Here we used high-throughput sequencing to characterize miRNA and messenger RNA (mRNA) expression patterns in Aedes albopictus midgut in response to dengue virus serotype 2. A total of three miRNAs and 777 mRNAs were identified to be differentially expressed upon DENV infection. For the mRNAs, we identified 198 immune-related genes and 31 of them were differentially expressed. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses also showed that the differentially expressed immune-related genes were involved in immune response. Then the differential expression patterns of six immune-related genes and three miRNAs were confirmed by real-time reverse transcription polymerase chain reaction. Furthermore, seven known miRNA-mRNA interaction pairs were identified by aligning our two datasets. These analyses of miRNA and mRNA transcriptomes provide valuable information for uncovering the DENV response genes and provide a basis for future study of the resistance mechanisms in Aedes albopictus midgut.

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“…The miRNAs are endogenously encoded small noncoding RNAs which govern the gene expression post‐transcriptionally. Several studies based on miRNA mediated gene regulation proved the potential of miRNA during disease conditions . In our previous study on CHIKV infected primary human synovial fibroblasts, we reported the suppression of pro‐inflammatory immune responses through the increased expression of miR‐146a .…”

Section: Discussionmentioning

confidence: 94%

“…Several studies based on miRNA mediated gene regulation proved the potential of miRNA during disease conditions. 17,19,[29][30][31][32] In our previous study on CHIKV infected primary human synovial Note: The DEMs which were not analyzed through bioinformatics tool were marked with * (hsa-miR-5692c/hsa-miR-5692b) since, they were only documented in one target prediction database. Abbreviations: CHIKV: Chikungunya virus; DEM: differentially expressed microRNA; miRNA: microRNA.…”

Section: Discussionmentioning

confidence: 99%

Chikungunya virus modulates the miRNA expression patterns in human synovial fibroblasts

Agrawal

Pandey

Rastogi

et al. 2019

Journal of Medical Virology

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Chikungunya virus (CHIKV) is an alphavirus transmitted by mosquitoes. CHIKV infection leads to polyarthritis and polyarthralgia among patients. The synovial fibroblasts are the primary target for CHIKV. The microRNAs (miRNAs) are the small endogenous noncoding RNAs which posttranscriptionally regulate the expression of genes by binding to their target messenger RNAs (mRNAs) through their 3′‐untranslated regions. The miRNAs are the key regulators for various pathological processes including viral infection, cancer, cardiovascular disease, and neurodegeneration. This study was designed to dissect out the roles of miRNAs during CHIKV (Ross Strain E1: A226V) infection in primary human synovial fibroblasts. The miRNA microarray profiling was performed on the primary human synovial fibroblasts infected by CHIKV. The gene target prediction analysis, enrichment, and network analysis were performed by various bioinformatics analyses. The subset of 26 differentially expressed microRNAs (DEMs) were identified through microarray profiling and were further screened for gene predictions, Gene Ontology, pathway enrichment, and miRNA‐mRNA network using various bioinformatics tools. The bioinformatics analysis indicates the role of DEMs by suppressing the immune response which may contribute to CHIKV persistence in human primary synovial fibroblasts. Our study provides the plausible roles of DEMs, miRNAs, and mRNA interactions and pathways involved in the molecular pathogenesis of CHIKV.

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Next Generation Sequencing Reveals Regulation of Distinct Aedes microRNAs during Chikungunya Virus Development

Cited by 64 publications

References 40 publications

MicroRNAs are differentially abundant during Aedes albopictus diapause maintenance but not diapause induction

MicroRNAs are differentially abundant during Aedes albopictus diapause maintenance but not diapause induction

Integrated analysis of miRNAs and transcriptomes inAedes albopictusmidgut reveals the differential expression profiles of immune-related genes during dengue virus serotype-2 infection

Chikungunya virus modulates the miRNA expression patterns in human synovial fibroblasts

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