| Literature DB >> 35435753 |
Henan Xin1, Xuefang Cao1, Ying Du1, Jiaoxia Yan2, Rui He3, Zisen Liu2, Haoran Zhang1, Yijun He1, Bin Zhang2, Dakuan Wang2, Ling Guan3, Fei Shen3, Boxuan Feng1, Zhusheng Quan1, Yongpeng He1, Jianmin Liu3, Qi Jin1, Shouguo Pan2, Lei Gao1.
Abstract
Tuberculosis (TB) remains one of the deadliest communicable diseases. Biomarkers predicting the risk of active disease development from latent tuberculosis infection (LTBI) are urgently needed for precise intervention. This study aimed to identify potential circulating microRNAs (miRNAs) playing such a role in Chinese population. Based on a prospective study aiming to track the development of active TB among rural residents with LTBI, the baseline levels of circulating miRNAs were retrospectively compared between those who developed TB (case group) and those age-gender matched controls remain free of TB (contraol group) during the follow-up. Agilent human miRNA microarray were used to select differently expressed circulating miRNAs and verified by subsequent real-time quantitative PCR (RT-qPCR). Six candidate miRNAs were expressed at statistically significant levels between the two groups at the baseline, as determined by microarray. Following verification among 150 study participants by RT-qPCR, the levels of hsa-miR-16-5p (P < 0.001) and hsa-miR-451a (P < 0.001) were found to be significantly lower in case group compared to control group. The combined areas under curves (AUCs) and precision-recall curves (PRCs) were 0.84, 0.86 and 0.85, 0.87 for hsa-miR-16-5p and hsa-miR-451a, respectively. hsa-miR-451a combined with body mass index (BMI) and prior history of TB presented the best performance, with a sensitivity of 80.82% and an acceptable specificity of 79.22%. After adjusting the two co-variables, the AUC of hsa-miR-451a was 0.78. Circulating levels of hsa-miR-451a showed potential to predict development of active TB from LTBI in a Chinese population. Further studies are warranted to verify these findings in varied study settings. IMPORTANCE Approximately a quarter of the world population are infected with M. tuberculosis and about 5% to 10% of these might develop active disease in their lifetime. Preventive treatment could effectively protect individuals at a high risk of developing active disease from LTBI, and is regarded as a critical component of End TB Strategies. Biomarkers which could accurately identify high-risk population and predict the risk of disease development are urgently needed for developing local guidelines of LTBI management and precise intervention. A nested case-control study was designed to explore possible microRNAs related with TB occurrence based on a previous prospective study, which aimed to track the development of active TB among rural residents with LTBI. The baseline circulating levels of hsa-miR-16-5p and hsa-miR-451a were significantly lower in TB cases compared to those in LTBI controls. Further receiver operator characteristic (ROC) curve analysis found that hsa-miR-451a showed considerable potential to predict the development of active TB from LTBI.Entities:
Keywords: biomarker; latent tuberculosis infection; microRNA; nested case-control study; tuberculosis
Mesh:
Substances:
Year: 2022 PMID: 35435753 PMCID: PMC9241859 DOI: 10.1128/spectrum.02625-21
Source DB: PubMed Journal: Microbiol Spectr ISSN: 2165-0497
Baseline characteristics of 40 individuals selected for Agilent Human microRNA Microarray testing
| Variable | TB group | LTBI control group |
|
|---|---|---|---|
| Total | 20 | 20 | |
| Gender, | |||
| Female | 10 (50.00) | 10 (50.00) | 1.000 |
| Male | 10 (50.00) | 10 (50.00) | |
| Age (yrs), | |||
| <40 | 1 (5.00) | 1 (5.00) | 1.000 |
| 40–59 | 5 (25.00) | 6 (30.00) | |
| ≥60 | 14 (70.00) | 13 (65.00) | |
| BMI (kg/m2), | |||
| <18.5 | 3 (15.00) | 1 (5.00) | 0.633 |
| 18.5–24 | 12 (60.00) | 15 (75.00) | |
| ≥24 | 5 (25.00) | 4 (20.00) | |
| Self-reported history of type II diabetes, | |||
| No | 19 (95.00) | 19 (95.00) | 1.000 |
| Yes | 1 (5.00) | 1 (5.00) | |
| Self-reported history of household close contacts, | |||
| No | 18 (90.00) | 18 (90.00) | 1.000 |
| Yes | 2 (10.00) | 2 (10.00) | |
| History of prior TB, | |||
| Without | 7 (35.00) | 16 (80.00) | 0.004 |
| With | 13 (65.00) | 4 (20.00) | |
| Baseline TST (mm), median (Q25–Q75) | 13.50 (8.75–24.50) | 18.75 (14–24.75) | 0.144 |
| Baseline IFN-γ (IU/mL), median (Q25–Q75) | 1.38 (0.53–4.83) | 3.06 (1.09–7.65) | 0.122 |
BMI, body mass index; TB, tuberculosis; Q25, 25% quantile; Q75, 75% quantile; TST, tuberculin skin test; IFN-γ, interferon gamma.
Data might not sum to total due to missing data.
Obtained by χ2 test.
Obtained by Fisher’s exact test.
Obtained by Wilcoxon rank-sum test.
FIG 1Hierarchical clustering of circulating microRNAs (miR) between tuberculosis (TB) patients and latent tuberculosis infection (LTBI) controls. Red indicates high relative expression and blue indicates low relative expression. Horizontal axis represents each sample: the left 20 are TB patients and the right 20 are LTBI subjects. TB cases are indicated by red rectangles, LTBI controls are indicated by blue rectangles. Expression levels of hsa-miR-197-5p, hsa-miR-671-5p, hsa-miR-6760-3p, and hsa-miR-642a-3p were higher, while those of hsa-miR-16-5p and hsa-miR-451a were lower.
Selected microRNAs identified by microarray for RT-qPCR verification
| miRNA | miRNA expression levels for TB cases vs LTBI controls | |||||
|---|---|---|---|---|---|---|
| Agilent microarray results (case group, | RT-qPCR results (case group, | |||||
| Fold-change |
| Regulation | Fold-change |
| Regulation | |
|
| 0.27 | <0.001 | Down | 0.45 | <0.001 | Down |
|
| 2.59 | <0.001 | Up | 0.99 | 0.482 | NA |
|
| 0.42 | 0.009 | Down | 0.22 | <0.001 | Down |
|
| 2.81 | <0.001 | Up | 0.63 | 0.005 | Down |
|
| 2.77 | <0.001 | Up | 2.08 | 0.043 | Up |
RT-qPCR, real-time quantitative PCR; LTBI, latent tuberculosis infection; miRNA, microRNA; TB, tuberculosis; NA, not applicable.
For Wilcoxon rank-sum test, P < 0.01 was considered statistically significant.
FIG 2Performance of microRNA(miR) for predicting tuberculosis development. Area under the receiver operator characteristic curves (AUCs, panel A) and precision-recall curves (PRCs, panel B) of body mass index (BMI), with history of prior TB, hsa-miR-16-5p, hsa-miR-451a, combination 1 (hsa-miR-16-5p + BMI + with history of prior TB), and combination 2 (hsa-miR-451a + BMI + with history of prior TB) were performed to evaluate their performance in predicting TB development.
Predicting value of microRNAs on active TB development
| MicroRNAs | Youden index | Sensitivity, % (95% CI) | Specificity, % (95% CI) |
|---|---|---|---|
|
| 0.269 | 68.49 (57.14 to 78.00) | 58.44 (47.29 to 68.79) |
|
| 0.293 | 38.36 (28.05 to 49.83) | 90.91 (82.40 to 95.53) |
| 0.293 | 38.36 (28.05 to 49.83) | 90.91 (82.40–95.53) | |
| 0.545 | 73.97 (62.89–82.66) | 80.52 (70.31–87.82) | |
| 0.600 | 80.82 (70.34–88.22) | 79.22 (68.88–86.78) | |
| 0.598 | 76.71 (65.83–84.92) | 83.12 (73.23–89.86) |
TB, tuberculosis; CI, confidence interval.
Youden index and corresponding sensitivity and specificity were calculated based on predicted probability, generated by putting co-variables (BMI, with prior history of TB) and hsa-miR-16-5p or hsa-miR-451a together in a logistic regression model.
FIG 3Bioinformatics analysis for hsa-miR-16-5p and hsa-miR-451a. Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis was used to annotate and classify the functions of target genes of the selected miRNAs in the pathways. (A) A total of 14 overlapping signaling pathways for the two miRNAs were obtained by VENNY analysis. (B) Target genes involved in the mitogen-activated protein kinase (MAPK), mammalian (mechanistic) target of rapamycin (mTOR), and phosphatidylinositol 3′-kinase–Akt (PI3K-Akt) signaling pathways were selected for miRNA-gene network construction. Pink color represents miRNAs and blue color represents genes.