scholarly journals ceRNA Cross-Talk in Paulownia Witches’ Broom Disease

2018 ◽  
Vol 19 (8) ◽  
pp. 2463
Author(s):  
Guoqiang Fan ◽  
Zhe Wang ◽  
Xiaoqiao Zhai ◽  
Yabing Cao
Keyword(s):  
Rna Sequencing ◽  
Molecular Mechanism ◽  
Cross Talk ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Circular Rna ◽  
Differentially Expressed ◽  
Competing Endogenous Rna ◽  
Broom Disease ◽  
Insight Into

Long noncoding RNA (lncRNA), circular RNA (circRNA), and microRNA (miRNA) are important in the regulation of life activities. However, their function is unclear in Paulownia fortunei. To identify lncRNAs, circRNAs, and miRNA, and investigate their roles in the infection progress of Paulownia witches’ broom (PaWB) disease, we performed RNA sequencing of healthy and infected P. fortunei. A total of 3126 lncRNAs, 1634 circRNAs, and 550 miRNAs were identified. Among them, 229 lncRNAs, 65 circRNAs, and 65 miRNAs were differentially expressed in a significant manner. We constructed a competing endogenous RNA (ceRNA) network, which contains 5 miRNAs, 4 circRNAs, 5 lncRNAs, and 15 mRNAs, all of which were differentially expressed between healthy and infected P. fortunei. This study provides the first catalog of candidate ceRNAs in Paulownia and gives a revealing insight into the molecular mechanism responsible for PaWB.

Implication of regulatory networks of long noncoding RNA/circular RNA-miRNA-mRNA in diabetic cardiovascular diseases

Epigenomics ◽  
2020 ◽  
Vol 12 (21) ◽  
pp. 1929-1947
Author(s):  
Wei Xiong ◽  
Mengran Yao ◽  
Yuqiao Yang ◽  
Yan Qu ◽  
Jinqiao Qian
Keyword(s):  
Diabetes Mellitus ◽  
Cardiovascular Diseases ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Regulatory Networks ◽  
Noncoding Rnas ◽  
Circular Rna ◽  
Competing Endogenous Rna ◽  
Prognostic Evaluation ◽  
Functional Roles

Diabetic cardiovascular diseases (DCVDs) are the most common complications of diabetes mellitus and are considered to be one of the most important threats to global health and an economic burden. Long noncoding RNA (lncRNA), circular RNA (circRNA), and miRNA are a novel group of noncoding RNAs that are involved in the regulation of various pathophysiological processes, including DCVDs. Interestingly, both lncRNA and circRNA can act as competing endogenous RNA of miRNA, thereby regulating the expression of the target mRNA by decoying or sponging the miRNA. In this review, we focus on the mechanistic, pathological and functional roles of lncRNA/circRNA-miRNA-mRNA networks in DCVDs and further discuss the potential implications for early detection, therapeutic intervention and prognostic evaluation.

scholarly journals Expression Profiles of Long Noncoding RNA and mRNA in Epicardial Adipose Tissue in Patients with Heart Failure

2019 ◽  
Vol 2019 ◽  
pp. 1-10 ◽  
Author(s):  
Meili Zheng ◽  
Lei Zhao ◽  
Xinchun Yang
Keyword(s):  
Heart Failure ◽  
Adipose Tissue ◽  
Rna Sequencing ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Epicardial Adipose Tissue ◽  
Expression Profiles ◽  
Fold Change ◽  
Differentially Expressed ◽  
Receptor Signaling

The expression profile of long noncoding RNA (lncRNA) in human epicardial adipose tissue (EAT) has not been widely studied. In the present study, we performed RNA sequencing to analyze the expression profiles of lncRNA and mRNA in EAT in coronary artery disease (CAD) patients with and without heart failure (HF). Our results showed RNA sequencing disclosed 35673 mRNA and 11087 lncRNA corresponding to 15554 genes in EAT in total, while 30 differentially expressed lncRNAs (17 upregulated and 13 downregulated) and 278 differentially expressed mRNAs (129 upregulated and 149 downregulated) were discriminated between CAD patients with and without HF (P<0.05; fold change>2); lncRNA ENST00000610659 drew specific attention for it was the top upregulated lncRNA with highest fold change and corresponded to UNC93B1 gene, which was proved to be related to HF and encoded UNC93B1 protein regulating toll-like receptor signaling, and both of them significantly increased in HF patients in qRT-PCR validation; the top significant upregulated enriched GO terms and KEGG pathway analysis were regulation of lymphocyte activation (GO:0051249) and T cell receptor signaling pathway (hsa04660), respectively. The current findings support the fact that EAT lncRNAs are involved in the inflammatory response leading to the development of HF.

scholarly journals Profiling expression of coding genes, long noncoding RNA , and circular RNA in lung adenocarcinoma by ribosomal RNA ‐depleted RNA sequencing

FEBS Open Bio ◽  
2018 ◽  
Vol 8 (4) ◽  
pp. 544-555 ◽  
Author(s):  
Xiangxiang Ding ◽  
Shuai Zhang ◽  
Xiao Li ◽  
Changjiang Feng ◽  
Qi Huang ◽  
...  
Keyword(s):  
Lung Adenocarcinoma ◽  
Rna Sequencing ◽  
Ribosomal Rna ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Circular Rna

scholarly journals The long noncoding RNA TUG1 acts as a competing endogenous RNA to regulate the Hedgehog pathway by targeting miR-132 in hepatocellular carcinoma

Oncotarget ◽  
2017 ◽  
Vol 8 (39) ◽  
pp. 65932-65945 ◽  
Author(s):  
Jingjing Li ◽  
Qinghui Zhang ◽  
Xiaoming Fan ◽  
Wenhui Mo ◽  
Weiqi Dai ◽  
...  
Keyword(s):  
Hepatocellular Carcinoma ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Hedgehog Pathway ◽  
Competing Endogenous Rna

The long noncoding RNA PVT1 functions as a competing endogenous RNA by sponging miR-186 in gastric cancer

2017 ◽  
Vol 88 ◽  
pp. 302-308 ◽  
Author(s):  
Tao Huang ◽  
Hong Wei Liu ◽  
Jia Qi Chen ◽  
Shou Han Wang ◽  
Li Qun Hao ◽  
...  
Keyword(s):  
Gastric Cancer ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Competing Endogenous Rna

Knockdown of long noncoding RNA AC245100.4 inhibits the tumorigenesis of prostate cancer cells via the STAT3/NR4A3 axis

Epigenomics ◽  
2021 ◽  
Author(s):  
Chi Liu ◽  
Ping Lin ◽  
Jiabin Zhao ◽  
Hui Xie ◽  
Rou Li ◽  
...  
Keyword(s):  
Prostate Cancer ◽  
Cancer Cells ◽  
Rna Sequencing ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Transcriptional Repressor ◽  
Sequencing Analysis ◽  
Loss Of Function ◽  
Prostate Cancer Cells ◽  
Rna Immunoprecipitation

Aim: To explore the role and mechanism of long noncoding RNA AC245100.4 and NR4A3 in prostate cancer (PCa). Methods: RNA-sequencing analysis was used to detect the downstream genes of AC245100.4. A series of gain- and loss-of-function approaches were used to investigate the roles of AC245100.4 and NR4A3. RNA immunoprecipitation was performed to examine the interaction between AC245100.4 and STAT3. Results: AC245100.4 was significantly upregulated in PCa cells and tissues. Knockdown of AC21500.4 significantly inhibited the tumorigenesis of PCa cells. Mechanistically, AC245100.4 deregulated the transcription of NR4A3 via increasing p-STAT3, which acted as a transcriptional repressor of NR4A3. Conclusion: Knockdown of lncRNA AC245100.4 inhibits the tumorigenesis of PCa cells via the STAT3/ NR4A3 axis.

scholarly journals Genomewide analysis of circular RNA in pituitaries of normal and heat-stressed sows

BMC Genomics ◽  
2019 ◽  
Vol 20 (1) ◽  
Author(s):  
Haojie Zhang ◽  
Baoyu Hu ◽  
Jiali Xiong ◽  
Ting Chen ◽  
Qianyun Xi ◽  
...  
Keyword(s):  
Heat Stress ◽  
Heat Shock ◽  
Heat Shock Protein ◽  
Noncoding Rna ◽  
Target Genes ◽  
Hormone Secretion ◽  
Circular Rna ◽  
Differentially Expressed ◽  
Pcr Analysis ◽  
Pituitary Hormone

Abstract Background As a newly characterized type of noncoding RNA, circular RNA (circRNA) has been shown to have functions in diverse biological processes of animals. It has been reported that several noncoding RNAs may regulate animals’ response to heat stress which can be easily induced by hyperthermia in summer. However, the expression and functions of circRNAs in the pituitary of sows and whether they participate in heat stress adaption are still unclear. Results In this study, we found that high temperature over the thermoneutral zone of sows during the summer increased the serum heat shock protein 70 (HSP70) level, decreased the superoxide dismutase (SOD) vitality and prolactin (PRL) concentration, and induced heat stress in sows. Then, we explored circRNA in the pituitary of heat-stressed and normal sows using RNA sequencing and bioinformatics analysis. In total, 12,035 circRNAs were detected, with 59 circRNAs differentially expressed, including 42 up-regulated and 17 down-regulated circRNAs in pituitaries of the heat-stressed sows. Six randomly selected circRNAs were identified through reverse transcription PCR followed by DNA sequencing and other 7 randomly selected differentially expressed circRNAs were verified by quantitative real-time PCR analysis. The predicted target genes regulated by circRNAs through sponging microRNAs (miRNAs) were enriched in metabolic pathway. Furthermore, the predicted circRNA–miRNA–mRNA interactions showed that some circRNAs might sponge miRNAs to regulate pituitary-specific genes and heat shock protein family members, indicating circRNA’s roles in pituitary hormone secretion and heat stress response. Conclusions Our results provided a meaningful reference to understand the functions of circRNA in the porcine pituitary and the mechanisms by which circRNA may participate in animals’ response to heat stress.

Methods to Study Long Noncoding RNA Expression and Dynamics in Zebrafish Using RNA Sequencing

2019 ◽  
pp. 77-110
Author(s):  
Samatha Mathew ◽  
Ambily Sivadas ◽  
Paras Sehgal ◽  
Kriti Kaushik ◽  
Shamsudheen K. Vellarikkal ◽  
...  
Keyword(s):  
Rna Sequencing ◽  
Long Noncoding Rna ◽  
Noncoding Rna ◽  
Rna Expression
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