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12 protocols using p1860

1

Moss Protonema Stress Response Analysis

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Protonemata of the moss P. patens subsp. patens (“Gransden 2004”, Freiburg) were grown in 200 mL liquid Knop medium with 500 mg/L ammonium tartrate under white light with a photon flux of 61 μmol/m2•s under a 16-h photoperiod at 24°C. For mass spectrometry analysis, five-d-old protonema tissue was treated with 0.4 mM MeJA and incubated for 1 h. To verify the effect of exogenous MeJA on the expression of pathogenesis-related genes, protonema tissue was incubated with 0.05, 0.1, 0.4 and 1mM MeJA or 0.4 mM salicylic acid (SA) for 1 h under white light. To analyze antimicrobial activity of secretome five-d-old- protonema tissue was treated with different concentration of MeJA. Treatment with cocktail of protease inhibitors was performed according to the dilution 1:200, as recommended by the manufacturer (P1860 Sigma Aldrich, USA). At least three independent biological replicates were used for each type of analysis. To test the gene expression induced by the peptides, five-d-old protonema tissue was treated with either mock solution or 1 μM peptide solution and harvested after 2, 4, 8 and 24 h later. The experiments were preformed in four independent biological replicates with three technical replicates.
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2

HUVEC Extracellular Vesicle Isolation

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Conditioned serum-free medium from HUVECs was fractionated using sequential centrifugation as previously described [10 (link), 11 (link), 16 (link), 17 (link)]. Briefly, the medium was centrifuged at 1200 × g for 15 min at 4 °C to pellet cell debris. Protease inhibitor (Sigma-Aldrich, P1860) was added to the supernatant for immunoblotting experiments. The supernatant was then centrifuged at 50,000 × g for 15 min at 4 °C to pellet apoptotic bodies and then centrifuged using an ultracentrifuge at 200,000 × g for 18 h at 4 °C to pellet ApoExos.
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3

Quantification of sBG in Serum and Mucus

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Two to three milliliters of anticoagulant-free venous blood was obtained from each subject (Table 2 and Table 3) during clinical examination. Samples were centrifuged at 3000× g for 15 min at 4 °C and stored immediately as aliquots at −80 °C until use. Endocervical mucus samples from patients (Table 2 and Table 3) were obtained in the afternoon (2–4 pm) with a cotton swab and immediately placed in ice-cold 1 × PBS containing 1 × protease inhibitor cocktail (P1860, Sigma, Taufkirchen, Germany). Samples were then centrifuged at 3000× g for 15 min at 4 °C and supernatants collected, weighed, and stored as aliquots at −80 °C until further analysis. In all cases, the use of contraception and menstrual cycle phases were monitored by anamnesis and a questionnaire [40 (link)]. Levels of sBG in serum and endocervical mucus were detected using the human TGF-beta RIII DuoSet ELISA kit according to the manufacturer’s guidelines.
A guide through the experimental setup can be found in Figure S1 (Supplementary Material).
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4

Cell Lysis and Immunoblotting Protocol

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Cells were washed with ice-cold phosphate-buffered saline (PBS), lysed in buffer contained 50 mM TRIS-HCl, pH 7.5, 400 mM NaCl, 10% glycerol, 0.5% NP40, 1% Tryton X-100 1 mM EDTA, 1 mM EGTA 2 mM DTT. All reagents were from Sigma-Aldrich. Buffer were supplemented with a protease inhibitor cocktail (P1860-Sigma-Aldrich) and phosphatase inhibitors cocktails (Sigma-Aldrich P5726 and Sigma-Aldrich P0044). Aliquots (20–60 µg) from total cell lysate proteins were resolved on 8–15% SDS–PAGE gels and analysed by immunoblotting with the indicated antibodies followed by decoration with peroxidase-labelled anti-rabbit (Thermo Fisher Scientific) or anti-mouse immunoglobulin G (IgG) (Dako-Agilent, Santa Clara, CA, USA) respectively. Blots were developed with enhanced chemiluminescence (ECL) Westar Supernova (Cyanagen, Bologna, Italy), following the instructions of the manufacturers.
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5

DRG Neuron-Mediated CD8+ T Cell Exhaustion

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Naive or ablated DRG neurons were cultured (48 h) in Neurobasal-A medium supplemented with 0.05 ng μl−1 NGF (Life Technologies, 13257-019) and 0.002 ng μl−1 GDNF (PeproTech, 450-51-10). After 48 h, the neurobasal medium was removed, neurons were washed with PBS and 200 µl per well of T cell medium supplemented with 1 μl ml−1 peptidase inhibitor (Sigma, P1860) and, in certain cases, capsaicin (1 μM) or KCl (50 mM) was added to DRG neurons. The conditioned medium or vehicle were collected after 30 min and added to Tc1 CD8+ T cells for another 96 h. The expression of exhaustion markers (PD-1, LAG3 and TIM3) and cytokines (IFNγ, TNF and IL-2) by CD8+ T cells was analysed by flow cytometry using an LSRFortessa or a FACSCanto II (Becton Dickinson). Cytokine expression levels were analysed after in vitro stimulation (PMA–ionomycin; see ‘Intracellular cytokine staining’).
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6

Isolation and Characterization of Extracellular Vesicles

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Extracellular vesicles were isolated using Total Exosome Isolation Reagent (4478359, Invitrogen) following the manufacturer’s instructions. Briefly, HEK293T cells were grown on a 10-cm dish to 80% confluency and transfected with 10 μg pcDNA3.1 plasmids. After 6 h, culture media was changed to DMEM supplemented with 10% exosome-depleted FBS (A2720803, Giboco) and protease inhibitors (P1860, Sigma). Cell culture media was collected after two days and centrifuged at 2000 × g for 30 min. The supernatant was transferred to a new tube and mixed with 0.5 volumes of the Total Exosome Isolation Reagent. Samples were incubated at 4 °C overnight and centrifuged at 10,000 × g for 1 h at 4 °C. The pellet was suspended in 1x Laemmli sample buffer and analyzed by western blotting. CD63 (10628D, Invitrogen) was used as an exosome marker73 .
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7

Cytokine-Induced Gene Expression in Myometrial Cells

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Primary human myometrial cells at passage ≤ P4 were split equally between 6 or 12 well-plates and grown to 80–90% confluency. At this point media was changed to serum-reduced (0.1% FCS) media for 18 to 24 h before discarding from each well. Five hundred microliters of fresh media (0.1% FCS) was produced containing: Pen-NBD, Pen(43-56)-NBD, Sc514 (Tocris bioscience, 3318); or controls (equivalent volume DMSO, Pen-NBD Mutant, NBD alone) at indicated concentrations. The inhibitor/control media was added to wells as a pre-incubation step. After 1 h, 10 ng/ml IL1β (Peprotech, 200-01B), or equivalent volume DMSO vehicle, was added to each well.
For western blotting experiments cells were washed with PBS before being lysed using sucrose cell lysis buffer (62.5 mM Tris-HCl pH6.8, 2% SDS, 10% saccharose) containing 20 μl/ml protease inhibitor (Sigma Aldrich, P1860) and 5 μl/ml phosphatase inhibitor (Sigma Aldrich P2745) at times of 0/15/60/120/240 minute from cytokine stimulation.
For RNA array experiments, 4 h following cytokine stimulation cells were washed with PBS before RNA was extracted using the RNeasy Mini Kit (Qiagen, 74101) according to the manufacturers' protocol.
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8

Co-immunoprecipitation of GFP-tagged Proteins

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The protocol for co-immunoprecipitation was previously described 3 (link). Briefly, a confluent plate of HEK293 cells was split 1:1.5 into 6-well plates and transfected with a DNA-Lipofectamine 2000 mixture (0.5–4 μg of DNA and 5 μl of Lipofectamine 2000 in 250 ml of DMEM per well) 22–24 hr before cell lysis. Transfection efficiency was monitored based on GFP emissions. HEK293 cells transiently expressing GFP, GFP-tagged pUL36 mutants, and HA-tagged kinesin light-chain isoforms, were treated with 10 μM nocodazole (VWR) for 1 hr and lysed in 500 μl/well of cold TAP lysis buffer (50 mM Tris-HCl pH 7.5, 50 mM KCl, 2 mM MgCl2, 0.1 mM EDTA, 5% glycerol, 1% NP-40) supplemented with 10 μM nocodazole, 1 mM dithiothreitol, 0.5 mM NaF, 0.1 mM Na3VO4, 0.1 mM phenylmethylsulfonyl fluoride (PMSF), and a protease inhibitor cocktail [P1860, Sigma]. Cell lysates were centrifuged at 14,000 rpm for 20 min at 4°C. GFP-tagged proteins were immunoprecipitated using an anti-GFP [Invitrogen, A-6455] antibody-loaded Sepharose A/G bead slurry [CalBiochem, IP05] overnight (16–18 h) at 4°C. Beads were washed four times with cold supplemented TAP lysis buffer and resuspended in 60 μl of 2x final sample buffer supplemented with 10% β-mercaptoethanol. Samples were either immediately used for western blot analysis, or heated at 85°C for 15 min and then stored at −20°C.
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9

Nociceptor-Modulated CGRP Release

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Tumour-surrounding skin was collected using 10-mm punch biopsies from nociceptor-intact (Nav1.8WT::DTAfl/WT), nociceptor-ablated (Nav1.8cre::DTAfl/WT), light-sensitive nociceptor (Nav1.8cre::ChR2fl/WT) or wild-type mice 3 h after exposure to vehicle (100 μl), QX-314 (0.3%, 100 μl) or BoNT/A (25 pg μl−1, 100 μl). The biopsies were transferred into 24-well plates and cultured in DMEM containing 1 μl ml−1 of protease inhibitor (Sigma, P1860) and capsaicin (1 μM, Sigma, M2028). After a 30-min incubation (37 °C), the supernatant was collected and the release of CGRP was analysed using a commercial enzyme-linked immunosorbent assay (ELISA)35 (link) (Cayman Chemical, 589001).
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10

Investigating PMVEC Signaling Pathways

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PMVECs were grown to approximately 70% confluence in a 6-well plate (3 mL per well). Isolated I/R EVs (2.6 × 109 EVs per well) were resuspended in EV-free media, added to two wells and incubated for 10 min at 37 °C. Two wells were treated with 10 μM rolipram and incubated at 37 °C for 5 min, then treated with 1 μM isoproterenol and incubated at 37 °C for 10 min. Two wells were treated with vehicle and incubated at 37 °C for 5 min, then treated with serum free media and incubated at 37 °C for 10 min. Cells from each of the 6 wells were lysed on ice in RIPA buffer containing 1% protease inhibitor (Sigma, P1860) and 1% phosphatase inhibitor (Sigma P0044). Cells were scraped with a cell scraper and aspirated into a syringe with a 25G needle, then transferred to microfuge tubes. Cell lysates were centrifuged at 10,000 ×g for 10 min at 4 °C and pellet was discarded.
PMVECs were pretreated with 25 μM propranolol (a non-selective β-blocker) for 1 h to inhibit β-receptors. Following pretreatment, PMVECs were treated with either isoproterenol or I/R stimulated EVs as above for 10 min. Whole cell lysates were collected and analyzed for VASP/p-VASP and PKA activity as described below.
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