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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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Related in: MedlinePlus

Scatter plot of the high-throughput sequencing data.The high-throughput sequencing data (differentially expressed miRNAs) are graphed on the scatter plot to visualize variations in miRNA expression between TGEV infected and control groups. The values on the X axes and Y axes of the scatter plot are the normalized values for the TGEV infected and control groups (log2 scaled). The green lines are fold-change lines (default fold-change value: 1.5).
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pone.0120377.g004: Scatter plot of the high-throughput sequencing data.The high-throughput sequencing data (differentially expressed miRNAs) are graphed on the scatter plot to visualize variations in miRNA expression between TGEV infected and control groups. The values on the X axes and Y axes of the scatter plot are the normalized values for the TGEV infected and control groups (log2 scaled). The green lines are fold-change lines (default fold-change value: 1.5).

Mentions: Analysis of library sequencing data resulted in the identification of the 59 unique miRNAs that displayed significant differential expression between the infected ST cell and normal ST cell samples. Among these 59 miRNAs, 15 were significantly upregulated, while 44 were significantly downregulated upon TGEV infection (Fig. 3). The differentially expressed miRNAs data are graphed on the scatter plot (Fig. 4).


The porcine microRNA transcriptome response to transmissible gastroenteritis virus infection.

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

Scatter plot of the high-throughput sequencing data.The high-throughput sequencing data (differentially expressed miRNAs) are graphed on the scatter plot to visualize variations in miRNA expression between TGEV infected and control groups. The values on the X axes and Y axes of the scatter plot are the normalized values for the TGEV infected and control groups (log2 scaled). The green lines are fold-change lines (default fold-change value: 1.5).
© Copyright Policy
Related In: Results  -  Collection

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

pone.0120377.g004: Scatter plot of the high-throughput sequencing data.The high-throughput sequencing data (differentially expressed miRNAs) are graphed on the scatter plot to visualize variations in miRNA expression between TGEV infected and control groups. The values on the X axes and Y axes of the scatter plot are the normalized values for the TGEV infected and control groups (log2 scaled). The green lines are fold-change lines (default fold-change value: 1.5).
Mentions: Analysis of library sequencing data resulted in the identification of the 59 unique miRNAs that displayed significant differential expression between the infected ST cell and normal ST cell samples. Among these 59 miRNAs, 15 were significantly upregulated, while 44 were significantly downregulated upon TGEV infection (Fig. 3). The differentially expressed miRNAs data are graphed on the scatter plot (Fig. 4).

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