Correlation of MBL and host cytokines in blood and sputum.

<p>Bacterial load was analysed for each sputum sample and correlated with host biomarkers (pg/ml) in the same sputum sample and also in Mtb-stimulated and unstimulated blood using a 27-plex cytokine assay. R-values >0.4 are highlighted in yellow and significant p-values in purple. Data were analysed using a Spearman Rank Correlation. Correlation of Time-on treatment with host biomarkers in sputum was also performed.</p

Heatmap of cytokine profiles in patients with low and high bacterial loads.

<p>Cytokine levels (pg/ml) for unstimulated (NIL) and sputum supernatants were analysed using a 27-plex cytokine array. Subjects were grouped into those with low bacterial load (below the median of 48059 copies/ml) and high bacterial load (above median). Data were analysed using a Mann-Whitney U-test. NS = not significant. Colour indicates low (blue) to high (red) cytokine levels.</p

Mtb bacterial load pre- and post-treatment initiation.

<p>Sputum samples from patients pre and post treatment (n = 27) were analysed using the MBL assay. Line indicates median. Data were analysed using Wilcoxon matched pairs test.</p

Correlation of bacterial load with cycle threshold values.

<p>RT-PCR was performed in duplicate on RNA extracted from sputum samples of TB patients. <b>A:</b> Log₁₀ bacterial load versus Ct values of Mtb present in sputum pellets. <b>B:</b> Correlation of Ct values from GeneXpert and ¹⁶S RNA analysis. Data were analysed using Spearman rank correlation.</p

Patient demographics.

<p>Patient demographics.</p

Quantitative and qualitative analysis of PPD-specific T cell responses.

<p>(<b>a</b>) Qualitative IFN-γ and TNF-α responses following overnight antigen stimulation of peripheral blood or pleural fluid cells. Shown are representative flow cytometry profiles from a patient with definite TB following overnight stimulation with anti-CD3/CD28 (positive control), ESAT-6/CFP-10 fusion protein (EC), PPD or unstimulated (media alone). (<b>b</b>) Quantitative assessment of IFN-γ, IL-2 and TNF-α secreting CD4+ T cells in subjects with TB and those without. Shown are the proportions of CD4+ T cells in the PF secreting IFN-γ, IL-2 or TNF-α in response to overnight stimulation with PPD. Statistical analysis was performed using a Mann-Whitney U test and p-values<0.05 were considered statistically significant (indicated). (<b>c</b>) Relative levels of polyfunctional T cell responses in subjects with TB or without. Shown are pie graphs demonstrating the proportion of cytokine-positive CD4+ T cells that produced only 1 of the cytokines (white), any 2 of the cytokines (black) or all 3 cytokines (red) from blood or pleural fluid of subjects with or without TB following anti-CD3/CD28, EC or PPD stimulation overnight. Statistical analysis of overall variance was performed using in-built SPICE software (ANOVA) and p-values indicate significantly decreased polyfunctionality compared to cells from the pleural fluid of subjects with TB. (<b>d</b>) Analysis of the functional profile of PPD-specific CD4+ T cells on the basis of simultaneous production of IFN-γ, IL-2 and TNF-α. All possible combinations of the 3 cytokines are shown along the y-axis. Statistical analysis was performed using a Mann-Whitney U- test and p-values are indicated (Pleural fluid TB significantly different to all 3 other groups).</p

Comparison of immune subsets in peripheral blood and pleural fluid of TB and non-TB patients.

<p>Values expressed as median[Interquartile range] of 30 subjects with pleural TB and 11 with pleural effusions caused by other diseases (non-TB); PB = peripheral blood; PF = pleural fluid; T_regs = regulatory T cells (CD4⁺CD25⁺CD127^lo); T_eff = effector T cells (CD4+); N = naïve; CM = central memory; EM = effector memory; TE = terminal effector.</p

Flow cytometry comparison between peripheral blood and pleural fluid.

<p>(<b>a</b>) <i>Ex vivo</i> assessment of the cell phenotypes within the pleural fluid. Shown are representative flow cytometry profiles from a patient with pneumonia and one who was diagnosed with TB. Profiles are first gated on the lymphocyte population as determined by FSC and SSC. Following singlet and CD3 gating, analysis of CD4+ and CD8+ T cell populations is performed. (<b>b</b>) Analysis of a subject with pleural effusion caused by malignancy. In this case CD3 and CD19 are plotted together to illustrate T and B cell proportions in the blood (left) and pleural fluid (right) of a subject with a malignancy (subject 33). (<b>c</b>) Flow cytometry profile from blood and ascites where the blood had a distinct Vα24+CD4+ T cell population; absent from the ascites. (<b>d</b>) Functional analysis of PF cells. Overnight stimulation of PF cells with PPD was followed by intracellular cytokine detection. Following gating on the CD4+ T cells, TNF-α and IFN-γ positive cells were assessed. There was no response from the patient with a bacterial infection but a striking response from the patients with definite and probable TB. In particular, note the presence of a distinct IFN-γ+TNF-α+ double-positive cell population (IGTA; red box). (<b>e</b>) The CD4+ IGTA population was gated and the naïve/memory phenotype determined by CD27 and CD45RO expression (red-dot overlay). (<b>f</b>) Analysis of 12 subjects with evaluable data was performed using a Kruskal-Wallis test followed by Dunn's post-test comparison. We found the majority of the IGTA+ cells were of an effector memory phenotype (EM; CD27−CD45RO+), bottom right quadrant of (<b>d</b>). N = naïve (CD27+CD45RO−); CM = central memory (CD27+CD45RO+); EM = effector memory (CD27−CD45RO+) and TE = terminal effectors (CD27−CD45RO−).</p

Multiplex cytokine analysis of ex vivo pleural fluid samples.

<p>Pleural fluid from subjects with TB (n = 27) and subjects without TB (n = 11) was assessed for 27 different cytokines using a Bioplex multi-cytokine analyser. Results are shown for IFN-γ, Eotaxin, IL-10, IL-13, IL6 and IP-10 levels in unstimulated fluid. Statistical analysis was performed using logistic regression analysis with Stata 3 software and multiple comparisons corrected for using Bonferonni's correction. Significance was set at p<0.05 and are indicated. Red dots indicate HIV-positive subjects.</p

Sensitivity and specificity of unstimulated pleural fluid cytokine levels.

<p>Sensitivity and specificity of unstimulated pleural fluid cytokine levels.</p