Limits...
Comparison Analysis of Dysregulated LncRNA Profile in Mouse Plasma and Liver after Hepatic Ischemia/Reperfusion Injury.

Chen Z, Luo Y, Yang W, Ding L, Wang J, Tu J, Geng B, Cui Q, Yang J - PLoS ONE (2015)

Bottom Line: Ten dysregulated plasma LncRNAs were validated by quantitative PCR assays, confirming the accuracy of microarray analysis result.In contrast, among the 98 dysregulated liver LncRNAs after IRI, only 19 were present in the plasma, but remained unchanged.LncRNA AK139328 had been previously reported to be upregulated in the liver after IRI, and silencing of hepatic AK139328 ameliorated liver IRI.

View Article: PubMed Central - PubMed

Affiliation: Department of Physiology and Pathophysiology, Peking University School of Basic Medical Sciences, 38 Xueyuan Road, Beijing, 100191, China; MOE Key Lab of Molecular Cardiovascular Science, Peking University, 38 Xueyuan Road, Beijing, 100191, China.

ABSTRACT
Long noncoding RNAs (LncRNAs) have been believed to be the major transcripts in various tissues and organs, and may play important roles in regulation of many biological processes. The current study determined the LncRNA profile in mouse plasma after liver ischemia/reperfusion injury (IRI) using microarray technology. Microarray assays revealed that 64 LncRNAs were upregulated, and 244 LncRNAs were downregulated in the plasma of liver IRI mouse. Among these dysregulated plasma LncRNAs, 59-61% were intergenic, 22-25% were antisense overlap, 8-12% were sense overlap and 6-7% were bidirectional. Ten dysregulated plasma LncRNAs were validated by quantitative PCR assays, confirming the accuracy of microarray analysis result. Comparison analysis between dysregulated plasma and liver LncRNA profile after liver IRI revealed that among the 308 dysregulated plasma LncRNAs, 245 LncRNAs were present in the liver, but remained unchanged. In contrast, among the 98 dysregulated liver LncRNAs after IRI, only 19 were present in the plasma, but remained unchanged. LncRNA AK139328 had been previously reported to be upregulated in the liver after IRI, and silencing of hepatic AK139328 ameliorated liver IRI. Both microarray and RT-PCR analyses failed to detect the presence of AK139328 in mouse plasma. In summary, the current study compared the difference between dysregulated LncRNA profile in mouse plasma and liver after liver IRI, and suggested that a group of dysregulated plasma LncRNAs have the potential of becoming novel biomarkers for evaluation of ischemic liver injury.

No MeSH data available.


Related in: MedlinePlus

Quantitative assays of decreased LncRNAs in I/R-treated mouse plasma.A-E) Five downregulated LncRNAs with most meaningful decrease in expression fold picked up by microarray assays were further analyzed and confirmed by quantitative RT-PCR assay. In all panels, the data were normalized to sham group. The representative gel image had been provided for analysis of each LncRNA. I/R, ischemia/reperfusion; Sham, plasma of sham mice; I/R, plasma of I/R-treated mice. N = 5, *P<0.05 versus sham group.
© Copyright Policy
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC4519261&req=5

pone.0133462.g004: Quantitative assays of decreased LncRNAs in I/R-treated mouse plasma.A-E) Five downregulated LncRNAs with most meaningful decrease in expression fold picked up by microarray assays were further analyzed and confirmed by quantitative RT-PCR assay. In all panels, the data were normalized to sham group. The representative gel image had been provided for analysis of each LncRNA. I/R, ischemia/reperfusion; Sham, plasma of sham mice; I/R, plasma of I/R-treated mice. N = 5, *P<0.05 versus sham group.

Mentions: To further validate the accuracy of LncRNA profile determined by microarray technology, some of the dysregulated plasma LncRNAs with the most meaningful change in fold (S2 and S3 Tables) were analyzed by real time PCR assays. The expression levels of five upregulated LncRNAs, AK017799, AK082383, AK042407, AK013346 and mouselincRNA0842- (S2 Table) were analyzed by real time PCR assays. AK017799, AK082383, AK013346 and mouselincRNA0842 were confirmed to be significantly increased (Fig 3). Although no statistical significance was observed due to individual variation, AK042407 also tend to be increased after liver IRI (Fig 3C). The expression levels of the 5 downregulated LncRNAs, AK050787, AK078950, AK159006, AK017011 and AK017046 (S3 Table) were analyzed by real time PCR assay. The results indicated that all of them were significantly reduced in liver IRI mouse plasma than in sham mouse plasma (Fig 4). Overall, these findings confirmed the accuracy of microarray data obtained from analysis of pooled plasma.


Comparison Analysis of Dysregulated LncRNA Profile in Mouse Plasma and Liver after Hepatic Ischemia/Reperfusion Injury.

Chen Z, Luo Y, Yang W, Ding L, Wang J, Tu J, Geng B, Cui Q, Yang J - PLoS ONE (2015)

Quantitative assays of decreased LncRNAs in I/R-treated mouse plasma.A-E) Five downregulated LncRNAs with most meaningful decrease in expression fold picked up by microarray assays were further analyzed and confirmed by quantitative RT-PCR assay. In all panels, the data were normalized to sham group. The representative gel image had been provided for analysis of each LncRNA. I/R, ischemia/reperfusion; Sham, plasma of sham mice; I/R, plasma of I/R-treated mice. N = 5, *P<0.05 versus sham group.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4519261&req=5

pone.0133462.g004: Quantitative assays of decreased LncRNAs in I/R-treated mouse plasma.A-E) Five downregulated LncRNAs with most meaningful decrease in expression fold picked up by microarray assays were further analyzed and confirmed by quantitative RT-PCR assay. In all panels, the data were normalized to sham group. The representative gel image had been provided for analysis of each LncRNA. I/R, ischemia/reperfusion; Sham, plasma of sham mice; I/R, plasma of I/R-treated mice. N = 5, *P<0.05 versus sham group.
Mentions: To further validate the accuracy of LncRNA profile determined by microarray technology, some of the dysregulated plasma LncRNAs with the most meaningful change in fold (S2 and S3 Tables) were analyzed by real time PCR assays. The expression levels of five upregulated LncRNAs, AK017799, AK082383, AK042407, AK013346 and mouselincRNA0842- (S2 Table) were analyzed by real time PCR assays. AK017799, AK082383, AK013346 and mouselincRNA0842 were confirmed to be significantly increased (Fig 3). Although no statistical significance was observed due to individual variation, AK042407 also tend to be increased after liver IRI (Fig 3C). The expression levels of the 5 downregulated LncRNAs, AK050787, AK078950, AK159006, AK017011 and AK017046 (S3 Table) were analyzed by real time PCR assay. The results indicated that all of them were significantly reduced in liver IRI mouse plasma than in sham mouse plasma (Fig 4). Overall, these findings confirmed the accuracy of microarray data obtained from analysis of pooled plasma.

Bottom Line: Ten dysregulated plasma LncRNAs were validated by quantitative PCR assays, confirming the accuracy of microarray analysis result.In contrast, among the 98 dysregulated liver LncRNAs after IRI, only 19 were present in the plasma, but remained unchanged.LncRNA AK139328 had been previously reported to be upregulated in the liver after IRI, and silencing of hepatic AK139328 ameliorated liver IRI.

View Article: PubMed Central - PubMed

Affiliation: Department of Physiology and Pathophysiology, Peking University School of Basic Medical Sciences, 38 Xueyuan Road, Beijing, 100191, China; MOE Key Lab of Molecular Cardiovascular Science, Peking University, 38 Xueyuan Road, Beijing, 100191, China.

ABSTRACT
Long noncoding RNAs (LncRNAs) have been believed to be the major transcripts in various tissues and organs, and may play important roles in regulation of many biological processes. The current study determined the LncRNA profile in mouse plasma after liver ischemia/reperfusion injury (IRI) using microarray technology. Microarray assays revealed that 64 LncRNAs were upregulated, and 244 LncRNAs were downregulated in the plasma of liver IRI mouse. Among these dysregulated plasma LncRNAs, 59-61% were intergenic, 22-25% were antisense overlap, 8-12% were sense overlap and 6-7% were bidirectional. Ten dysregulated plasma LncRNAs were validated by quantitative PCR assays, confirming the accuracy of microarray analysis result. Comparison analysis between dysregulated plasma and liver LncRNA profile after liver IRI revealed that among the 308 dysregulated plasma LncRNAs, 245 LncRNAs were present in the liver, but remained unchanged. In contrast, among the 98 dysregulated liver LncRNAs after IRI, only 19 were present in the plasma, but remained unchanged. LncRNA AK139328 had been previously reported to be upregulated in the liver after IRI, and silencing of hepatic AK139328 ameliorated liver IRI. Both microarray and RT-PCR analyses failed to detect the presence of AK139328 in mouse plasma. In summary, the current study compared the difference between dysregulated LncRNA profile in mouse plasma and liver after liver IRI, and suggested that a group of dysregulated plasma LncRNAs have the potential of becoming novel biomarkers for evaluation of ischemic liver injury.

No MeSH data available.


Related in: MedlinePlus