MicroRNA from tuberculosis RNA: A bioinformatics study
Brief Report
MicroRNA from tuberculosis RNA: A bioinformatics study
Somsri Wiwanitkit1, Viroj Wiwanitkit2
1Wiwanitkit House, Bangkhae, Bangkok, Thailand; 2Wiwanitkit House, Bangkhae, Bangkok Thailand; visiting professor, Hainan Medical University, China; adjunct professor, Jospeh Ayobabalola university, Nigeria
Corresponding to: Somsri Wiwanitkit. Wiwanitkit House, Bangkhae, Bangkok, Thailand. Tel: 6624132436. Email: somsriwiwan@hotmail.com.
Abstract
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Abstract
Introduction
Materials and methods
Results
Discussion
Acknowledgements
References
The role of microRNA in the pathogenesis of pulmonary tuberculosis is the interesting topic in chest medicine at present. Recently, it was proposed that the microRNA can be a useful biomarker for monitoring of pulmonary tuberculosis and might be the important part in pathogenesis of disease. Here, the authors perform a bioinformatics study to assess the microRNA within known tuberculosis RNA. The microRNA part can be detected and this can be important key information in further study of the pathogenesis of pulmonary tuberculosis.
Key words
Pulmonary; tuberculosis; microRNA; RNA
J Thorac Dis 2012;4(3):296-297. DOI: 10.3978/j.issn.2072-1439.2012.05.08
Introduction
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Abstract
Introduction
Materials and methods
Results
Discussion
Acknowledgements
References
Pulmonary tuberculosis is an important infectious disease. This disease has been known for many years. However, there is no success in control of this disease despite there is a long history of BCG vaccine. The exact molecular pathogenesis of pulmonary tuberculosis is not completely clarified and this is still the myth in chest medicine. Based on the advanced molecular laboratory at present, some new researches report the importance of microRNA in the pathogenesis of pulmonary tuberculosis. The microRNA could be detected in blood of the patients with pulmonary tuberculosis (1). Li et al. reported that there is a genetic association between pulmonary tuberculosis and SNPs within the corresponding miRNAs (2). Ma et al. found that microRNA miR-29 helped control innate and adaptive immune responses to tuberculosis by targeting interferon-γ (3). The detected microRNA is relating to the clinical manifestation of disease and can be the biomarker for pulmonary tuberculosis.
The first success in clarification that microRNA takes role in pulmonary tuberculosis pathogenesis was published in 2011 (4). Hence, the knowledge on microRNA in pulmonary tuberculosis is very limited. Although it is no doubt that microRNA might be detectable in blood of the patients, it is still not known about its origin. The microRNA might come from the host or pathogen and this is a topic for further studies. Here, the authors perform a bioinformatics study to assess the microRNA within known tuberculosis RNA. The microRNA part can be detected and this can be important key information in further study of the pathogenesis of pulmonary tuberculosis.
Materials and methods
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Abstract
Introduction
Materials and methods
Results
Discussion
Acknowledgements
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This is a bioinformatics study. The assessment of the RNA of the Mycobacterium tuberculosis RNA was performed using a standard computational bioinformatics method, Mireval (5). Briefly, this technique makes use of basic comparative structural bioinformatics approach. The similarity comparison was done based on structural clustering technique (6). Blast was done against mirBase (7). Finally, an ab initio prediction method was used for judging the detected microRNA (8). In this work, the RNA codon of strain AIIMS/LM/SS/TB-2132/06/SP ( JQ012998.1), which is the longest available RNA codon in PubMed database at present were used as a primary template.
Results
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Abstract
Introduction
Materials and methods
Results
Discussion
Acknowledgements
References
According to the study, there is a detected microRNA region within the studied RNA. The position is at 500 to 580. The figure showing this part is presented in Figure 1. The repeat analysis showed the consistency of the results implying the precision and accuracy of the analysis.
Figure 1. Showing the section that act as microRNA (picture directly generated by computational analysis based on Mireval).
Discussion
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Materials and methods
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MicroRNA is the specific kind of RNA that is the focus in the study of pathogenesis of disease at present. Based on the advancement in clinical molecular biology, the study of the MicroRNA is possible. Also, it is accepted that the diagnostic tool based on microRNA is the most sensitive diagnostic tool at present. For pulmonary tuberculosis, Wu et al. noted that microRNA expression profiling identifies, miR-155 and miR- 155* could be good potential diagnostic markers for active tuberculosis (9). Another study by Fu et al. noted for the possible use of miR-29 as biomarker for active pulmonary tuberculosis (4). Also, a recent study noted that miR-21 has important role in streptomycin treatment of pulmonary tuberculosis (10).
The study on microRNA in pulmonary tuberculosis is useful. The analysis of the RNA of pathogen is an interest aspect. Based on this report, it can conclude that some detected microRNA in the collected sample from the patient with tuberculosis come from the RNA of the tubcerculosis pathogen. This means that microRNA can come from either pathogen or patient. The determination of the detected microRNA in this work can be the new diagnostic approach. Conclusively, the finding of microRNA can confirm that a part of microRNAs that play role in the complex pathogenesis of pulmonary tuberculosis might come from the pathogen. Further studies are required for assessment the exact role of microRNAs in pathogenesis of disease.
Acknowledgements
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Abstract
Introduction
Materials and methods
Results
Discussion
Acknowledgements
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Disclosure: The authors declare no conflict of interest.
References
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Abstract
Introduction
Materials and methods
Results
Discussion
Acknowledgements
References
  • Guo W, Li JT, Pan X, et al. Candidate Mycobacterium tuberculosis genes targeted by human microRNAs. Protein Cell 2010;1:419-21.
  • Li D, Wang T, Song X, et al. Genetic study of two single nucleotide polymorphisms within corresponding microRNAs and susceptibility to tuberculosis in a Chinese Tibetan and Han population. Hum Immunol 2011;72:598-602.
  • Ma F, Xu S, Liu X, et al. The microRNA miR-29 controls innate and adaptive immune responses to intracellular bacterial infection by targeting interferon-γ. Nat Immunol 2011;12:861-9.
  • Fu Y, Yi Z, Wu X, et al. Circulating microRNAs in patients with active pulmonary tuberculosis. J Clin Microbiol 2011;49:4246-51.
  • Ritchie W, Théodule FX, Gautheret D. Mireval: a web tool for simple microRNA prediction in genome sequences. Bioinformatics 2008;24:1394-6.
  • Ritchie W, Legendre M, Gautheret D. RNA stem-loops: to be or not to be cleaved by RNAse III. RNA 2007;13:457-62.
  • Griffiths-Jones S, Grocock RJ, van Dongen S, et al. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res 2006;34:D140-4.
  • Sewer A, Paul N, Landgraf P, et al. Identification of clustered microRNAs using an ab initio prediction method. BMC Bioinformatics 2005;6:267.
  • Wu J, Lu C, Diao N, et al. Analysis of microRNA expression profiling identifies miR-155 and miR-155* as potential diagnostic markers for active tuberculosis: a preliminary study. Hum Immunol 2012;73:31-7.
  • Bose D, Jayaraj G, Suryawanshi H, et al. The tuberculosis drug streptomycin as a potential cancer therapeutic: inhibition of miR-21 function by directly targeting its precursor. Angew Chem Int Ed Engl 2012;51:1019-23.
Cite this article as: Wiwanitkit S, Wiwanitkit V. MicroRNA from tuberculosis RNA: A bioinformatics study. J Thorac Dis 2012;4(3):296-297. doi: 10.3978/j.issn.2072-1439.2012.05.08

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