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The porcine microRNA transcriptome response to transmissible gastroenteritis virus infection.

Liu X, Zhu L, Liao S, Xu Z, Zhou Y - PLoS ONE (2015)

Bottom Line: Certain miRNAs were differentially regulated during TGEV infection. 59 unique miRNAs displayed significant differentially expression between the normal and TGEV-infected ST cell samples: 15 miRNAs were significantly up-regulated and 44 were significantly down-regulated.Stem-loop RT-PCR was carried out to determine the expression levels of specific miRNAs in the two samples, and the results were consistent with those of sequencing.This is the first report of the identification of ST cell miRNAs and the comprehensive analysis of the miRNA regulatory mechanism during TGEV infection, which revealed the miRNA molecular regulatory mechanisms for the viral infection, expression of viral genes and the expression of immune-related genes.

View Article: PubMed Central - PubMed

Affiliation: Animal Biotechnology Center, College of Veterinary Medicine, Sichuan Agricultural University, Ya' an, China; Liver Center and Gastrointestinal Division, Department of Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, Massachusetts, United States of America.

ABSTRACT
Transmissible gastroenteritis virus (TGEV; Coronaviridae family) causes huge economic losses to the swine industry. MicroRNAs (miRNAs) play a regulatory role in viral infection and may be involved in the mammalian immune response. Here, we report a comprehensive analysis of host miRNA expression in TGEV-infected swine testis (ST) cells. Deep sequencing generated 3,704,353 and 2,763,665 reads from uninfected ST cells and infected ST cells, respectively. The reads were aligned to known Sus scrofa pre-miRNAs in miRBase 19, identifying 284 annotated miRNAs. Certain miRNAs were differentially regulated during TGEV infection. 59 unique miRNAs displayed significant differentially expression between the normal and TGEV-infected ST cell samples: 15 miRNAs were significantly up-regulated and 44 were significantly down-regulated. Stem-loop RT-PCR was carried out to determine the expression levels of specific miRNAs in the two samples, and the results were consistent with those of sequencing. Gene ontology enrichment analysis of host target genes demonstrated that the differentially expressed miRNAs are involved in regulatory networks, including cellular process, metabolic process, immune system process. This is the first report of the identification of ST cell miRNAs and the comprehensive analysis of the miRNA regulatory mechanism during TGEV infection, which revealed the miRNA molecular regulatory mechanisms for the viral infection, expression of viral genes and the expression of immune-related genes. The results presented here will aid research on the prevention and treatment of viral diseases.

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GO annotation of host target genes of differentially expressed miRNAs.GO functional analysis using the DAVID web-based tool shows that a series of targets belong to a series of functional genes involved in cellular process, metabolic process, and immune system process, which indicated the potential regulatory role of the differentially expressed miRNAs in viral infection. For other enriched GO terms, please see S4 Table.
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pone.0120377.g006: GO annotation of host target genes of differentially expressed miRNAs.GO functional analysis using the DAVID web-based tool shows that a series of targets belong to a series of functional genes involved in cellular process, metabolic process, and immune system process, which indicated the potential regulatory role of the differentially expressed miRNAs in viral infection. For other enriched GO terms, please see S4 Table.

Mentions: The target genes were associated with cellular components, molecular functions and biological processes; the GO enrichment analysis revealed that the target genes were functionally enriched in immune system process, cellular process, metabolic process and others (Fig. 6; S4 Table).


The porcine microRNA transcriptome response to transmissible gastroenteritis virus infection.

Liu X, Zhu L, Liao S, Xu Z, Zhou Y - PLoS ONE (2015)

GO annotation of host target genes of differentially expressed miRNAs.GO functional analysis using the DAVID web-based tool shows that a series of targets belong to a series of functional genes involved in cellular process, metabolic process, and immune system process, which indicated the potential regulatory role of the differentially expressed miRNAs in viral infection. For other enriched GO terms, please see S4 Table.
© Copyright Policy
Related In: Results  -  Collection

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Show All Figures
getmorefigures.php?uid=PMC4363316&req=5

pone.0120377.g006: GO annotation of host target genes of differentially expressed miRNAs.GO functional analysis using the DAVID web-based tool shows that a series of targets belong to a series of functional genes involved in cellular process, metabolic process, and immune system process, which indicated the potential regulatory role of the differentially expressed miRNAs in viral infection. For other enriched GO terms, please see S4 Table.
Mentions: The target genes were associated with cellular components, molecular functions and biological processes; the GO enrichment analysis revealed that the target genes were functionally enriched in immune system process, cellular process, metabolic process and others (Fig. 6; S4 Table).

Bottom Line: Certain miRNAs were differentially regulated during TGEV infection. 59 unique miRNAs displayed significant differentially expression between the normal and TGEV-infected ST cell samples: 15 miRNAs were significantly up-regulated and 44 were significantly down-regulated.Stem-loop RT-PCR was carried out to determine the expression levels of specific miRNAs in the two samples, and the results were consistent with those of sequencing.This is the first report of the identification of ST cell miRNAs and the comprehensive analysis of the miRNA regulatory mechanism during TGEV infection, which revealed the miRNA molecular regulatory mechanisms for the viral infection, expression of viral genes and the expression of immune-related genes.

View Article: PubMed Central - PubMed

Affiliation: Animal Biotechnology Center, College of Veterinary Medicine, Sichuan Agricultural University, Ya' an, China; Liver Center and Gastrointestinal Division, Department of Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, Massachusetts, United States of America.

ABSTRACT
Transmissible gastroenteritis virus (TGEV; Coronaviridae family) causes huge economic losses to the swine industry. MicroRNAs (miRNAs) play a regulatory role in viral infection and may be involved in the mammalian immune response. Here, we report a comprehensive analysis of host miRNA expression in TGEV-infected swine testis (ST) cells. Deep sequencing generated 3,704,353 and 2,763,665 reads from uninfected ST cells and infected ST cells, respectively. The reads were aligned to known Sus scrofa pre-miRNAs in miRBase 19, identifying 284 annotated miRNAs. Certain miRNAs were differentially regulated during TGEV infection. 59 unique miRNAs displayed significant differentially expression between the normal and TGEV-infected ST cell samples: 15 miRNAs were significantly up-regulated and 44 were significantly down-regulated. Stem-loop RT-PCR was carried out to determine the expression levels of specific miRNAs in the two samples, and the results were consistent with those of sequencing. Gene ontology enrichment analysis of host target genes demonstrated that the differentially expressed miRNAs are involved in regulatory networks, including cellular process, metabolic process, immune system process. This is the first report of the identification of ST cell miRNAs and the comprehensive analysis of the miRNA regulatory mechanism during TGEV infection, which revealed the miRNA molecular regulatory mechanisms for the viral infection, expression of viral genes and the expression of immune-related genes. The results presented here will aid research on the prevention and treatment of viral diseases.

Show MeSH
Related in: MedlinePlus