Subjects.
HIV-uninfected patients with TB were diagnosed at the Servicio de Tisioneumonología Hospital F.J. Muñiz, Buenos Aires, Argentina, based on clinical and radiological data, together with the identification of acid-fast bacilli in sputum. All participating patients had received less than one week of anti-TB regular therapy. Table S1 summarizes the demographic and clinical characteristics of enrolled TB patients. Bacillus Calmette-Guerin (BCG)-vaccinated healthy control individuals (HD) from the community participated in this study. Peripheral blood was collected in heparinized tubes from each participant after obtaining informed consent. The protocols conducted through the present work were approved by the Ethical Committee of Dr. F.J. Muñiz Hospital. All methods were carried out in accordance with relevant guidelines and regulations.
Exclusion Criteria.
All subjects were 18–60 years old and had no history of illnesses that affect the immune system, such as HIV infection, a recent diagnosis of cancer, treatment with immunosuppressive drugs, hepatic or renal disease, pregnancy, or positive serology for other viral (e.g., hepatitis A, B or C), or bacterial infections (e.g., leprosy, syphilis). Individuals with bleeding disorders or under anticoagulant medication that might be at an increased risk of bleeding during the procedure of obtaining the sample were excluded from the study. Individuals with latent infection were excluded from the present study by using the QuantiFERON-TB® GOLD PLUS (Qiagen, 622120 and 622526).
Determination of plasmatic PGE2 levels.
Plasma samples were collected from heparinized peripheral blood from HD and TB patients and centrifuged for 15 min at 1000 x g at 4 ° C. Plasma were then stored at -70 ºC. PGE2 measurement was performed by radioimmunoassay (RIA) as previously described12. Radioactivity was measured in a beta scintillation counter. After a logarithmic transformation, the data were expressed as pg of PGE2/ml of plasma. The method has a cross-reactivity of less than 0.1% and a sensitivity of 5 pg/tube with a Ka = 1.5 x 1010/ mol.
Antigen.
In vitro stimulation of cells was performed with a cell lysate from the virulent Mycobacterium tuberculosis strain H37Rv, prepared by mechanic disruption (Mtb-Ag) (BEI Resources, NIAID, NIH: Mycobacterium tuberculosis, Strain H37Rv, whole cell lysate, NR-14822).
Cell preparations and culture conditions.
Peripheral blood mononuclear cells (PBMC) were isolated by centrifugation over Ficoll-Hypaque (GE Healthcare, 17-1440-03). Neutrophils were isolated from heparinized blood by centrifugation on Ficoll-Paque, dextran (Sigma, 31392) sedimentation, and hypotonic lysis13. Cells were suspended at 2 x106 in flat-bottom 24 or 48-well plates with RPMI 1640 (Invitrogen, 22400071) supplemented with L-Glutamine (2mM, Sigma), Penicillin/Streptomycin, and 10% Fetal Bovine Serum (FBS; Gibco, 10437028) for 16 hours without stimulus to allow monocyte adherence. Cells were then stimulated with Mtb (Mtb-Ag, BEI Resources, NIH, 10 µg/ml) ± PGE2 (2 µM, Sigma, P0409) ± IFNα 2a (10 ng/ml, Biosidus) for different time points. In order to determine the effect of different treatments on the autophagic flux, the vacuolar-type HC-ATPase inhibitor Bafilomycin A1 (100 nM; Fermentek, 88899-55-2) was added for the last 2 hours of culture before LC3 determination by flow cytometry.
After isolation, neutrophil preparations were stained with an anti-CD14-PE (Biolegend, 325,608) antibody and analyzed with a FACS Aria II cytometer (BD, San Jose, CA, USA) to guarantee that monocyte contamination was < 0.5% (Supplementary Figure S3). Viability was corroborated by staining with propidium iodide (PI; BD, 556,547) and by flow cytometry analysis.
Proliferation assay.
PBMC were stimulated with Mtb-Ag for five days in the presence or absence of PGE2. Cells were pulsed with [3H]TdR (1 µCi/well, Perkin Elmer, MA, EE.UU) and harvested 16 hours later. [3H]TdR incorporation (c.p.m.) was measured in a liquid scintillation counter (Wallac 1214 Rackbeta, Turku, WF, Finland). Proliferation index for each individual was calculated as cpm after Mtb Ag-stimulation/cpm after culturing with medium.
Flow Cytometry.
To determine the expression of immune receptors on lymphocytes, monocytes and neutrophils, cells stimulated with Mtb-Ag (10 µg/ml) treated or not with PGE2 (2 µM) were blocked in PBS (137 mM NaCl, 2.7 mM KCl, 8 mM Na2HPO4, and 2 mM KH2PO4)-FBS 5% for 15 min and then stained for surface expression with fluorophore-marked antibodies against SLAMF1 (BD, 559572), CD31 (BD, 560984), CD80 (Biolegend, 305207), Major Histocompatibility Complex (MHC) -I (Biolegend, HLA-A2, 343306), MHC-II (Biolegend, HLA-DQ, 318106), PD-L1 (eBioscience, MIH1), PD-L2 (BD, MIH18), CD3 (Biolegend, 300306) and CD14 (Biolegend, 367116).
Intracellular staining of endogenous saponin-resistant LC3 was performed as described14. Briefly, cells were washed with PBS and then permeabilized with PBS containing 0.05% saponin. In this protocol, the cells are not fixed, therefore LC3-I is washed out of the cell because, unlike LC3-II, it is not anchored to the autophagosome. Cells were then incubated with mouse anti-human LC3A, B antibody (MBL International, M152-3) for 20 min, rinsed with PBS, incubated with anti-mouse secondary antibody conjugated to fluorescein isothiocyanate (eBioscience,62-6511) for 20 min and rinsed twice with PBS. Afterwards, cells were stained with anti-CD14 or anti-CD3 antibodies (Biolegend, 325608 and 300308) to detect the monocyte and T lymphocytes populations.
Negative control samples were incubated with an irrelevant isotype-matched monoclonal antibody (Biolegend, 400140). Samples were analyzed on a FACSAria II flow cytometer (BD, San Jose, CA, USA).
ELISA.
Culture supernatants of PBMC stimulated or not with Mtb-Ag in the presence or absence of PGE2 were obtained to evaluate cytokine levels by ELISA. TNFα and IFNγ (BioLegend) secretion was measured by ELISA following the manufacturers’ instructions.
ROS measurement
Neutrophils from HD were incubated with 2ʹ,7ʹ-dichlorofluorescein diacetate (DCFDA, 50 µM; Invitrogen, D399) for 15 min at 37°C. Then, cells were washed and stimulated with or without Mtb-Ag (10 µg/ml) ± PGE2 (2 µM) for 60 min. Finally, DCFDA fluorescence was evaluated to monitor ROS production by flow cytometry.
Confocal microscopy.
Cells were cultured and stimulated on coverslips for 16 hours. After incubation under different experimental conditions, cells were washed in order to remove non-adherent cells. Adherent cells were then fixed with cold methanol for 20 sec, then washed and subsequently permeabilized and blocked with blocking buffer (PBS containing 0.5% saponin (Santa Cruz Biotechnology, sc-280079A) and 1% bovine serum albumin (Santa Cruz Biotechnology, sc-2323A) for 15 min. The buffer was afterwards removed and the LC3 primary antibody was added (Cell Signaling Technology, 2775) and incubated for 16 hours at 4 ºC. Then, cells were washed with blocking buffer and incubated with the secondary antibody (Alexa Fluor® 488 Goat Anti-Rabbit IgG (HCL); Invitrogen, A11008) for 2 hours at room temperature. Finally, nuclei were stained with DAPI. The coverslips were mounted with PBS-glycerol (Sigma-Aldrich, G2025) and fixed cells were imaged using a Zeiss Spectral LSM 510 confocal microscope (Zeiss, Jena, Germany) using objective 63, numerical aperture (NA) 1.42.
Image processing.
All the images were processed using ImageJ software (Wayne Rasband, National Institutes of Health). After the image binarization using a defined threshold, the number of LC3 puncta was quantified using the Particle Analyzer plugin. Brightness and contrast were adjusted in all images belonging to the same individual when needed.
Statistical Analysis.
Analysis of variance and post hoc multiple comparisons tests were used as indicated in the figure legend. Mann–Whitney U test and Wilcoxon rank sum test were used for the analysis of unpaired and paired samples respectively. P values of < 0.05 were considered statistically significant.