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Microarray expression profile analysis of long non‐coding RNAs in pulmonary tuberculosis with Traditional Chinese Medicine
Author(s) -
Jiang Tingting,
Shi LiYing,
Wei LiLiang,
Chen ZhongLiang,
Wang Chong,
Liu ChangMing,
Li ZhongJie,
Li JiCheng
Publication year - 2016
Publication title -
the faseb journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.709
H-Index - 277
eISSN - 1530-6860
pISSN - 0892-6638
DOI - 10.1096/fasebj.30.1_supplement.804.1
Subject(s) - kegg , microarray , microarray analysis techniques , gene , lipid metabolism , long non coding rna , medicine , traditional chinese medicine , biology , gene expression , rna , bioinformatics , gene ontology , genetics , pathology , alternative medicine
The present study aimed to explore the expression profile of long non‐coding RNAs (lncRNAs) and mRNAs in pulmonary tuberculosis (TB) patients with Traditional Chinese Medicine (TCM) by Arraystar Human LncRNA Microarray. TB patients were divided according to the TCM syndromes into pulmonary Yin deficiency (PYD) syndrome, hyperactivity of fire due to Yin deficiency (HFYD) syndrome, and deficiency of Qi and Yin (DQY) syndrome. Plasma samples were collected from 33 TB patients and 11 healthy controls. Total RNA was extracted and purified, and then hybridized with Arraystar Human LncRNA Microarray V3.0 containing 30586 lncRNAs probes. Bioinformatic analyses including gene ontology (GO), and kyoto encyclopedia of genes and genomes (KEGG) pathway were conducted to analyze the differentially expressed lncRNAs of TB with different TCM syndromes. The related clinical data was also analyzed.1523, 558, and 596 differentially expressed lncRNAs were found in PYD, HFYD, and DQY patients, respectively, compared with the healthy controls (ratios of >2, or <0.5, and P <0.05). Pathway analysis revealed that fatty acid metabolism ( P =0.005067587), protein digestion and absorption ( P =5.89017E‐05), and Hippo signaling pathway ( P =0.000164) have higher enrichment score. The expression of 18 transcripts with zinc ion binding function, 10 transcripts related to the metabolic process and 9 transcripts involved in the apoptotic process were progressively increased from PYD→HFYD→DQY syndrome. Clinical analysis (143 controls, 90 PYD cases, 116 HFYD cases, and 85 DQY cases) showed that the lipid indexes of TB patients was abnormal, and the triglyceride concentration was significantly different among PYD, HFYD, and DQY patients ( P =0.0352). Our study is the first to acquire the microarray expression profile of lncRNAs, and analyze the pathway enrichment and expression tendency of differentially expressed lncRNAs among PYD, HFYD, and DQY syndromes. Our results indicate that the analysis of expression profile of lncRNAs may be a novel method to explore the biological essence of TCM syndrome. Support or Funding Information This work was supported by grants from National Basic Research Program of China (No.2014CB543002), National Special Sci‐Tech Projects (No. 2012ZX10005001‐006), and National Natural Science Foundation of China (No.81273882, NO. 81573709).