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41 protocols using ll 37

1

DNA-LL37 Complex Formation Optimization

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Whole cell genomic DNA was isolated from PBMCs of each subject using the QiAmp DNA Mini Kit (Qiagen, Hilden, Germany). Self-DNA was incubated with a recombinant antimicrobial peptide, LL37 (AnaSpec, CA, USA), at different ratios in 1X phosphate buffer saline (PBS) (pH 7.4) at room temperature (RT) at different time points (5–60 minutes) for standardization of optimal formation of DNA-LL37 complexes. Finally, in all experiments, 1 µg of DNA was mixed in 5 µg of LL37 peptide in 20 µl PBS42 (link), and multiple aliquots were formed for experiments and stored at −20 °C to avoid batch-to-batch variations. Free DNA was removed by DNase 1 (4 units in 2 µL, Sigma-Aldrich, USA) treatment for 30 minutes at RT and the reaction was stopped with 1 M NaCl. The DNA-LL37 complexes were then diluted in complete RPMI medium at a final concentration of 3 µg/100 µL and added to pDC and monocytes in cultures according to experimental requirement. In each experiment, genomic DNA used in the formation of DNA-LL37 complexes and cells (pDCs, monocytes, CD4 + T and CD8 + T cells) used for various assays, were obtained from the same subject.
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2

Harnessing LL-37 for Serum-Free Expansion of hMSCs

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hMSCs isolated from bone marrow of healthy persons under informed consent were purchased from Lonza (Cologne, Germany). Each hMSC lot used in the study was tested by Lonza for purity and their ability to differentiate into the osteogenic, chondrogenic, and adipogenic lineage. The cells were positive for CD29, CD44, CD105, and CD166, and negative for CD14, CD34, and CD45. hMSCs were cultured as described previously,28 (link) using the StemMACS expansion media with a weekly medium change (Miltenyi Biotec, Bergisch Gladbach, Germany). All studies were carried out with hMSCs between the fifth and seventh passage of cultivation which exhibited an average cell doubling time of 96 h. For experiments under serum-free conditions, hMSCs were washed with serum-free medium and incubated in Dulbecco Modified Eagle Medium (DMEM) (PAA Laboratories, Coelbe, Germany) supplemented with 1% Nutridoma SP (Roche Applied Science, Mannheim, Germany) in the absence or presence of LL-37 (Anaspec, Fremont, CA, USA) at physiological concentrations of 10–100 ng/mL LL-37 as determined in human blood plasma.30 (link) Cells were routinely tested for mycoplasma contamination. Cell viability was determined by trypan blue staining and periodically by application of the WST-8 assay (Dojindo, Rockville, MD, USA).
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3

Regulation of Toll-like Receptors in Mast Cells

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qRT-PCR was used to determine TLR2, TLR3, TLR4, TLR5, TLR7, and TLR9 mRNA levels. Purified mast cells suspended in cDMEM were stimulated with LL-37 (AnaSpec, Fremont, CA, USA) at a final concentration of 1 μg/mL in a humidified atmosphere with 5% CO2 at 37°C for 1, 3, or 6 h. For control, mast cells were incubated under the same conditions without LL-37. qRT-PCR was conducted as previously described [10 (link), 28 (link)]. The mRNA expression was corrected by normalization based on the transcript level of the housekeeping gene rat Actb.
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4

Measuring GAS Cathelicidin Sensitivity

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To measure cathelicidin antimicrobial peptide sensitivity of GAS, mid-log-phase GAS, were adjusted to 1 × 105 CFU/ml in DMEM plus 20% THY and incubated with various amount of human cathelicidin, LL-37 (AnaSpec), or murine cathelicidin, CRAMP (Bachem) for 24 h at 37°C. MIC was determined as the lowest concentration at which no growth was observed by absorbance at 600 nm. Assays were performed in triplicates, and where there was variation between replicates, the data are presented as a range. To examine bacterial surface charge and LL-37 interaction, mid-log-phase bacteria (5 × 107) were stained with 5 μg of 5-FAM-LC-conjugated LL-37 (AnaSpec) and fluorescein isothiocyanate (FITC)-conjugated poly-l-lysine (Sigma), respectively, for 20 min at room temperature.
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5

Antimicrobial Activities of Ceragenins

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Klebsiella pneumoniae (ATCC 13883), Acinetobacter baumannii (ATCC 19606), and P. aeruginosa (ATCC 27853) were obtained from the American Type Culture Collection (ATCC, Manassas, VA, United States). Ceragenins CSA-131 and CSA-44 were synthesized from a cholic acid scaffolding as previously described (Li et al., 1998 (link)). LL-37 (LLGDFFRKSKEKIGKEFKRIVQRIK-DFLRNLVPRTES), cecropin A (KWKLFKKIEKVGQNIRDGIIKAGPAVAVVGQATQIAK), and magainin 1 (GIGKFLHSAGKFGKAFVGEIMKS), all with > 95% purity, were purchased from Anaspec (Fremont, CA, United States) and used without further purification. Chlorhexidine, colistin (polymyxin E), congo red and coomassie brilliant blue dyes were purchased from Sigma-Aldrich (St. Louis, MO, United States).
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6

Bacteroides fragilis Antimicrobial Resistance

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B. fragilis cells were anaerobically grown in GAM broth overnight at 37°C. An aliquot of culture (30 μl) was inoculated into 3 ml of fresh GAM broth and cultured until late-log phase (OD600:1.3–1.6). After harvesting and washing with PBS, the cells were resuspended in PBS and subsequently treated with 5% bile (Wako), 0.5 μM LL-37 (Anaspec), or human defensins (10 μM α-defensin 5, 10 μM β-defensin 1, 10 μM β-defensin 2, or 0.5 μM β-defensin 3; all purchased from Peptide Institute, Japan). After the suspensions were incubated at 37°C, the viable cells numbers were measured periodically by plating 0.1 ml of the suspensions on GAM agar plates. The survival rate was calculated from the ratios of viable cells in the suspensions containing bile, LL-37, or human defensins to those in the suspensions without antimicrobial substances.
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7

Evaluating Antimicrobial Effects on DH5α

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To evaluate the inhibition effect of different concentrations of AP-64 and Gm94 on growth of DH5α, the bacteria were cultured in LB at 37 °C until the OD600 reached 0.5 and were then diluted 10-fold. Subsequently, 100 μL of the cell culture was added to each well of microtiter plates containing LB medium supplemented with AP-64 or Gm94 (0.1–10 μM). After incubation at 37 °C for 8 h, OD600 measurements were performed on a universal microplate spectrophotometer (BioTek, Winooski, VT, USA).
Next, growth curve analysis was implemented. DH5α was exposed to AP-64, Gm94, and LL-37 (61302; AnaSpec, Beijing, China) at a concentration of 10 μM for 8 h, and the OD600 values were measured every 2 h. DH5α was used as the control.
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8

Evaluating Antimicrobial Peptide Potency

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To obtain human AMPs 50% inhibition concentrations (IC50, i.e. minimal concentrations required for inhibiting 50% chlamydial infection), we serially diluted and incubated them, respectively, with chlamydial organisms [13 (link)]. After that, we inoculated the incubation mixtures onto monolayers of HeLa cells. Twenty-four hours after inoculation, we visualized chlamydial inclusions through immunofluorescence assay. The following antimicrobial peptides were used: HNP1 (human neutrophil peptide 1 or human alpha-defensin 1, cat# 60743 from AnaSpec, Fremont, CA), HNP3 (cat# PDF-4416-s), HBD2 (human beta-defensin 2, cat# PDF-4338-s), HBD4 (cat# PDF-4406-s all 3 are from Peptides International, Louisville, KY, USA). We also purchased LL-37 (with a sequence of LLGDFFRKSKEKIGKEFKRIVQRIKDFLRNLVPRTES; Cat#61302) from AnaSpec, Fremont, CA.
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9

Quantification of Pattern Recognition Receptor Expression

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qRT-PCR was used to determine NOD1, NOD2, RIG-I mRNA levels. Purified PMCs suspended in cDMEM were stimulated with LL-37 (AnaSpec, Fremont, USA) or hBD-2 (PeptaNova GmbH, Sandhausen, DE) at a final concentration of 1 µg/mL for two hours at 37 °C in a humidified atmosphere with 5% CO2. For control, PMCs were incubated under the same conditions without hBD-2/LL-37. Total RNA was isolated from cells using TRI Reagent (Sigma Aldrich) and then reverse transcribed using a High Capacity cDNA Reverse Transcription Kit (Applied Biosystems, Foster City, USA). For qRT-PCR, TaqMan® probes dyed 6-carboxyfluorescein (rat Nod1 Rn01410158, rat Nod2 Rn01770864, rat Ddx58 Rn01439703, rat ACTB Rn00667869) (Applied Biosystems) and TaqMan® Gene Expression Master Mix (Applied Biosystems) were used. All reactions were performed with the use of the 7900 HT Fast Real-Time PCR System (Applied Biosystems). The amplification conditions were as follows: initial denaturation at 95 °C for 20 s, followed by 40 cycles of amplification: 95 °C for 3 s and 60 °C for 30 s. The RQ of testes samples was calculated by the SDS RQ Manager software, based on ΔΔCt method. The expression of receptor mRNAs was corrected by normalization based on the transcript level of the housekeeping gene rat ACTB. As the calibrator samples, unstimulated specimens were used.
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10

Optimizing Lipid Membrane Composition for Antimicrobial Peptide Characterization

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In this study, we used the following reagents: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (DOPE; Avanti Polar Lipids,
AL, USA); 1,2-dioleoyl-sn-glycero-3-phospho-(1′-rac-glycerol) (DOPG; Avanti Polar Lipids); n-decane (Wako Pure Chemical Industries, Ltd., Osaka, Japan); 3-morpholinopropane-1-sulfonic
acid (MOPS, Nacalai Tesque, Kyoto, Japan); potassium chloride (KCl;
Nacalai Tesque); clavanin A (GenScript); cecropin A (BACHEM); pardaxin
(abcam); magainin 1 (AnaSpec Inc); SL-37 (Cosmo Bio Co., Ltd.); and
LL-37 (AnaSpec Inc.). DOPE and DOPG were melted in n-decane at a concentration of 10 mg/mL, and we obtained a lipid mixture
of DOPE/DOPG (3:1 mol/mol). The composition of the measurement buffer
was regulated so that it became 200 mM KCl, 10 mM MOPS, and pH 7.0
in the Milli-Q system (Millipore, Billerica, MA, USA). The clavanin
A, cecropin A, pardaxin, magainin 1, SL-37, and LL-37 powders were
dissolved in the measurement buffer and preserved at 4 °C.
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