Abstract
BackgroundAsthma is a chronic disorder of both adults and children affecting more than 300 million people heath worldwide. Diagnose and treatment for asthma, particularly in childhood asthma have always remained a great challenge because of its complex pathogenesis and multiple triggers, such as allergen, viral infection, tobacco smoke, dust, etc. It is thereby great significant to deeply investigate the transcriptome changes in asthmatic children before and after desensitization treatment, in order that we could identify potential and key mRNAs and lncRNAs which might be considered as useful RNA molecules for observing and supervising desensitization therapy for asthma, which might guide the diagnose and therapy in childhood asthma.MethodsIn the present study, we performed a systematic transcriptome analysis based on the deep RNA sequencing of ten asthmatic children before and after desensitization treatment, including identification of lncRNAs using a stringent filtering pipeline, differential expression analysis and network analysis, etc.ResultsFirst, a large number of lncRNAs were identified and characterized. Then differential expression analysis revealed 39 mRNAs and 15 lncRNAs significantly differentially expressed which involved in two biological processes and pathways. A co-expressed network analysis figured out a desensitization-treatment-related module which contains 27 mRNAs and 21 lncRNAs using WGCNA R package. Module analysis disclosed 17 genes associated to asthma at distinct level. Subsequent network analysis based on PCC figured out several key lncRNAs probably interacted to those key asthma-related genes, i.e., LINC02145, GUSBP2. Our functional investigation indicated that their functions might involve in immune, inflammatory response and apoptosis process.ConclusionsOur study successfully discovered many key noncoding RNA molecules related to pathogenesis of asthma and relevant treatment, which may provide some clues for asthmatic diagnose and therapy in future.
Highlights
Asthma is a chronic disorder of both adults and children affecting more than 300 million people heath worldwide
We compared these assembled transcripts against the known transcripts of human derived from Ensembl database via BLASTn, the result showed that 16,220 (~ 7.5%) novel transcripts were identified in the present study
The results showed that a module were significantly correlated to the trait (Fig. 5), which contains 27 mRNAs and 21 long noncoding RNAs (lncRNAs)
Summary
Asthma is a chronic disorder of both adults and children affecting more than 300 million people heath worldwide. In Europe, Zheng et al BMC Medical Genomics (2020) 13:136 prevalence rates of asthma among children increases from 5% in Albania to 21% in the UK. There is no full cure is available up to now despite majority of children with asthma can alleviate the asthmatic symptoms and obtain adequate asthma control via avoidance of triggering factors, rational management and/or medication, such as short-acting inhaled β2-receptor agonists [4, 5]. A small proportion (~ 5%) of asthmatic children have uncontrolled asthma despite maximum medical treatment [6]. Diagnosing asthma in children faces challenge as well, e.g., a number of childhood conditions exhibit compatible symptoms to those caused by asthma, such as shortness of breath, wheezing and cough [5]. To further complicate the issue, those conditions can coexist with asthma and confuse the evaluation of patients
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