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Molecular & Cellular Proteomics 6:689-696, 2007.
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| ABSTRACT |
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-actinin in specialized membrane domains (i.e. membrane rafts) in S1P-treated EC barrier regulation (7). However, the underlying signaling mechanisms by which S1P increases vascular integrity via signaling to the endothelial cytoskeleton remain poorly understood. As defined by the recent Keystone Symposium on lipid rafts and cell function (March 2328, 2006, in Steamboat Springs, CO) (8), "Membrane rafts are small (10200 nm), heterogeneous, highly dynamic, sterol- and sphingolipid-enriched domains that compartmentalize cellular processes. Small rafts can sometimes be stabilized to form larger platforms through protein-protein and protein-lipid interactions." Many biophysical, biochemical, and microscopy studies suggest that membrane rafts truly exist and are implicated in diverse cellular processes including signal transduction (912). Currently, two commonly used methods to isolate membrane rafts, resistant to either high pH or nonionic detergents, involve separation of membrane rafts from other proteins by density gradient centrifugation, with detergent resistance the more widely utilized method.
To begin to identify the underlying signaling mechanisms by which S1P increases vascular integrity, we chose to identify protein changes in membrane rafts isolated from human pulmonary artery ECs in the presence or absence of S1P treatment (1 µM, 5 min) using quantitative proteomics analysis. The time period and concentration for S1P treatment were based on previous studies (3, 4). Because of the extremely hydrophobic nature of membrane rafts, we chose a solution-based proteomics approach, isobaric tagging for relative and absolute quantitation (iTRAQTM) method. The protein changes in membrane rafts were confirmed by Western blot analysis. Linking these proteins to EC barrier enhancement was then explored using siRNA transfection and measurement of transendothelial electrical resistance (TER).
| EXPERIMENTAL PROCEDURES |
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Isolation of Membrane Rafts from Human Pulmonary Artery EC
ECs were grown to confluence at passage 7 in T150 flasks (
1.5 x 107 cells each flask), washed with PBS, and serum-starved in EBM-2 media (Cambrex Bioscience) for 1 h. Confluent EC monolayers were either untreated (control) or treated with 1 µM S1P for 5 min, after which the cells were washed three times with cold PBS (4 °C) and stored at 80 °C. Membrane rafts were isolated using the low density detergent-resistant fractionation as described (13). Briefly, 750 µl of cold (
4 °C) TKM (50 mM Tris-HCl, pH 8, 25 mM KCl, 5 mM MgCl2, 1 mM EDTA) in 1% Triton X-100 solution containing protease inhibitors was added to each flask while still cold. The cells were then scraped and homogenized using a Dounce homogenizer. The concentration of Triton X-100 in the suspension was adjusted to 1% by the addition of 10% Triton X-100, and the suspension was placed on ice for
30 min with pipetting every 10 min. Next, 0.5 ml of the lysate was mixed with equal volume of 80% sucrose and overlaid with 6 ml of 38% sucrose and 4 ml of 5% sucrose in an ultracentrifuge tube. The gradients were centrifuged (40,200 rpm, SW60 rotor) for 12 h at 4 °C. Fractions of 1 ml were taken from the top to bottom, and Western blots were performed to verify the localization of membrane rafts marker caveolin-1. Membrane rafts fractions (fraction 4, 5, and 6 from the top) were pooled and precipitated in trichloroacetic acid (TCA), and the pellet was dissolved in 1% SDS, 100 mM triethylammonium bicarbonate (TEAB), pH 8.5. A BCA assay was performed to measure the protein concentration.
Protein Digest, iTRAQ Labeling, and Strong Cation Exchange Fractionation
Control and S1P-treated membrane rafts in 1% SDS, 100 mM TEAB were diluted 5-fold with 100 mM TEAB. The samples (50 µg each) were reduced, alkylated, and digested with trypsin with a protein to enzyme ratio of 20:1 at 37 °C overnight. Each digest was concentrated to 15 µl in a speed vac followed by the addition of 15 µl of 1 M TEAB. The iTRAQ reagent was dissolved in 70 µl of ethanol and added to the digest, and the mixture was incubated at room temperature for 1 h. Control and S1P-treated membrane rafts labeled with different iTRAQ reagents were mixed and dried down to a volume of 50 µl. The combined peptide mixture was fractionated by strong cation exchange (SCX) chromatography on an Ultimate HPLC system (LC Packings) using a polysulfoethyl A column (2.1 x 100 mm, 5 µm, 300 Å, PolyLC, Columbia, MD). The sample was next dissolved in 1 ml of SCX loading buffer (25% v/v acetonitrile, 10 mM KH2PO4, pH 2.8), and pH was adjusted to 2.8 by adding 1 M phosphoric acid. The entire sample was loaded onto the column and washed isocratically for 30 min at 200 µl/min. Peptides were eluted with a linear gradient of 0500 mM KCl (25% v/v acetonitrile, 10 mM KH2PO4, pH 2.8) over 30 min at a flow rate of 200 µl/min. The absorbance at 214 nm was monitored, and 15 fractions were collected along the gradient.
LC-MS Analysis
Each SCX fraction was dried down, dissolved in 0.1% formic acid, and analyzed on Qstar PulsarTM (Applied Biosystems-MDS Sciex) interfaced with an Agilent 1100 HPLC system. Peptides were separated on a reverse-phase column packed with 10 cm of C18 beads (360 x 75 µm, 5 µm, 120 Å, YMC ODS-AQ, Waters Associates, Milford, MA) with an emitter tip (New Objective, Woburn, MA) attached. The HPLC gradient was 540% B for 60 min (A, 0.1% formic acid; B, 90% acetonitrile in 0.1% formic acid) at a flow rate of 300 nL/min. Survey scans were acquired from m/z 4001200 with up to three precursors selected for MS/MS using a dynamic exclusion of 45 s. A rolling collision energy was used to promote fragmentation, and the collision energy range was
20% higher than that used for unlabeled peptides because of iTRAQ tags.
Data Analysis
The MS/MS spectra were extracted and searched against Uniprot-sprot database (version 4, total number of entries 230093, entries for Homo sapiens 14515) using ProteinPilotTM software (version 1.0, revision 33087, Applied Biosystems) with the ParagonTM method utilizing the following search parameters: H. sapiens as species, trypsin as enzyme (one missed cleavage allowed), cysteine static modification with methylmethanethiosulfate and iTRAQ (peptide labeled at N terminus and lysine) as sample type. Mass tolerance was set to 0.15 atomic mass units for precursor and 0.1 atomic mass units for fragment ions. The raw peptide identification results from the ParagonTM Algorithm (Applied Biosystems) searches were further processed by the Pro GroupTM Algorithm (Applied Biosystems) within the ProteinPilot software before final display. The Pro Group Algorithm uses the peptide identification results to determine the minimal set of proteins that can be reported for a given protein confidence threshold. For each protein, Pro Group Algorithm reports two types of scores for each protein: unused ProtScore and total ProtScore. The total ProtScore is a measurement of all the peptide evidence for a protein and is analogous to protein scores reported by other protein identification softwares. The unused ProtScore, however, is a measurement of all the peptides evidence for a protein that is not better explained by a higher ranking protein. In other words, the unused ProtScore is calculated by using the unique peptides (peptides that are not used by the higher ranking protein), and it is a true indicator of protein evidence. This is how a single-protein member of a multiprotein family has been singled out.
The protein confidence threshold cutoff for this study is ProtScore 2.0 (unused) with at least one peptide with 99% confidence. The mean, standard deviation, and p values to estimate statistical significance of the protein changes were calculated by Pro Group. Proteins identified with changes (ratio >1.2 or <0.8) that were consistent between two independent biological experiments were manually validated and quantified. Peak areas for each of the signature ions (114, 115, 116, and 117) were obtained and corrected according to the manufacturer's instructions to account for isotopic overlap. Only those signature ions with intensities less than 1500 counts were used for quantitation. In our experiment, we tend to get a 1:1 ratio if the intensities of the signature ions are higher than 1500 counts because the detector gets saturated.
Western Blot Analysis
To verify iTRAQ data, samples (1 µg) were separated by SDS-PAGE (412%) and transferred to PVDF membranes. After blocking 1 h at room temperature with blocking buffer (20 mM Tris-HCl, pH 7.5, 100 mM NaCl, 0.1% Tween 20 (TBS/Tween 20), and 5% nonfat milk powder), membranes were incubated overnight at 4 °C in primary antibody in blocking buffer. The membranes were washed with TBS/Tween 20, incubated for 1 h at room temperature in secondary antibody (alkaline phosphatase-conjugated AffiniPure Donkey Anti-Rabbit IgG, Jackson ImmunoResearch Laboratories Inc., West Grove, PA) with 1:10000 dilution in blocking buffer, and finally washed with TBS/Tween 20. Blots were developed with Immun-StarTM AP substrate Pack (BioRad) and scanned on an Epson Scan (Agilent Technologies, Foster City, CA) scanner within the linear range of detection. Primary antibodies were anti-MARCKS (1:2000 dilution), anti-phospho-MARCKS (pSer159,163,179) (1:1000 dilution), anti-MRP (1:500 dilution) rabbit polyclonal antibodies (Calbiochem) and anti-caveolin-1 (N-20) Sc-894 (1:1000 dilution) (Santa Cruz Biotechnology). For verification of membrane rafts fractions after ultracentrifugation using anti-caveolin-1 antibody, 10 µl of each fraction (1 ml) was loaded.
Construction and Transfection of siRNA against MARCKS and MRP
The siRNA sequence(s) targeting human against MARCKS and MRP were generated using mRNA sequences from GenBankTM (gi:11125771 and gi:32401423, respectively). For each mRNA (or scramble), two targets were identified. Specifically, MARCKS target sequence 1 (5'-AACTACACTTGGGCTCCTTTT-3'), MARCKS target sequence 2 (5'-AAAATTTTTTTATCCGGAGTG-3'), MRP target sequence 1 (5'-AAAAGCAATGGAGACTTATCC-3'), MRP target sequence 2 (5'-AAGAAGAAGAAGAAATTCTCT-3'), scramble sequence 1 (5'-AAGAGAAATCGAAACCGAAAA-3') and scramble sequence 2 (5'-AAGAACCCAATTAAGCGCAAG-3') were utilized. Sense and antisense oligonucleotides were provided by Integrated DNA Technologies, Inc. (Coralville, IA). For construction of the siRNA, a transcription-based kit from Ambion was used (SilencerTM siRNA construction kit). Human lung EC were then transfected with siRNA using siPORTamineTM as the transfection reagent (Ambion, TX) according to the protocol provided by Ambion. Cells (
40% confluent) were serum-starved for 1 h followed by incubation with 3 µM (1.5 µM of each siRNA) of target siRNA (or scramble siRNA or no siRNA) for 6 h in serum-free media. The serum-containing medium was then added (1% serum, final concentration) for 42 h before biochemical experiments and/or functional assays were conducted.
Measurement of TER
EC were grown to confluence in polycarbonate wells containing evaporated gold microelectrodes, and TER measurements were performed using an electrical cell substrate impedance sensing system (Applied Biophysics, Troy, NY) as described previously (7). TER values from each microelectrode were pooled at discrete time points and plotted versus time as the mean ± S.E.
| RESULTS |
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The Effects of MARCKS and MRP on S1P-mediated Human EC Barrier Function
The effects of membrane rafts-associated MARCKS and MRP on S1P-mediated EC barrier regulation was then investigated using an siRNA approach. As shown in Fig. 5, siRNA transfection effectively silenced MARCKS and MRP protein expression in human EC. Whereas silencing of either MARCKS or MRP in control EC did not produce any alteration in basal barrier integrity as measured by TER, silencing either MARCKS (Fig. 6A) or MRP (Fig. 6B) significantly attenuated the rapid increase in S1P-induced EC barrier enhancement. Furthermore, dually silencing of both MARCKS and MRP (Fig. 6C) attenuated both the rapid TER increase as well as the prolonged enhancement of S1P-mediated EC barrier function. These results suggest an important, non-redundant role of MARCKS and MRP in regulating S1P-induced EC barrier protection.
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| DISCUSSION |
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Among the proteins that have been proposed to interact with actin and to cross-link actin at the plasma membrane (18) are MARCKS (3032 kDa) and its homologue MRP (20 kDa), which are essential proteins and products of single genes with no known isoforms (1921). Both proteins contain three highly conserved domains including a myristoylated N terminus and an effector domain (22). The unusual biochemical properties and multiple interactions of MARCKS and MRP have led to a variety of proposed functions at the molecular level. These include binding to phospholipids including phosphatidylinositol-4,5-biphosphate (23, 24), phosphorylation by protein kinase C (14, 15), and binding and cross-linking of actin filaments (18). Upon phosphorylation, MARCKS is translocated from membrane to cytosol (25), and the actin cross-linking ability is also lost (26). MARCKS and MRP are implicated in the coordination of membrane-cytoskeletal signaling events, such as cell adhesion, migration, secretion, and phagocytosis in a variety of cell types (22, 27). However, MARCKS and MRP have not been associated with S1P-mediated barrier enhancement in EC.
Using quantitative proteomics analysis, we identified a total of 245 proteins from membrane rafts, including well known lipid raft markers such as annexin A2, caveolin-1, and flotillin-1; numerous proteins involved in cytoskeletal rearrangements; signal transduction molecules; and proteins harboring putative post-translational modifications that favor this localization in the lipid raft environment. Consistent with previous membrane rafts studies (28, 29), we also had non-rafts proteins in our membrane rafts because of the biochemical isolation of membrane rafts. However, we were able to identify the differences from rafts proteins, and the only differences in this study were from rafts proteins. We found that MARCKS and MRP are specifically recruited into membrane rafts upon S1P stimulation and that the phosphorylation of MARCKS is inhibited. Western blot experiments validated these findings. Based on our proteomics studies and biochemistry results, we propose that upon S1P stimulation, MARCKS and MRP are recruited to membrane rafts and in this locale, stabilize the newly generated rigid F-actin cytoskeleton, thereby increasing the EC barrier protection. S1P also inhibits MARCKS from phosphorylation, an event potentially linked to F-actin release and barrier regulation. Our results are not novel in the sense that these cytoskeletal proteins (MARCKS and MRP) have been reported previously as localized in membrane rafts (30). However, our proteomics, cell biologic, and physiologic data strongly suggest a paradigm where MARCKS and MRP binding and cross-linking of F-actin filaments in membrane rafts provide a novel mechanism of S1P-mediated barrier protection. Our siRNA experiments confirmed the regulation role of MARCKS and MRP in S1P-induced EC barrier enhancement and suggested that MARCKS and MRP are non-redundant in S1P-induced EC barrier protection.
In summary, although mechanisms of vascular barrier enhancement by agonists such as S1P are poorly understood, using proteomics analysis in combination of biochemistry tools, we now show that S1P-mediated cortical actin rearrangement and barrier protection are critically dependent on recruitment of MARCKS and MRP into membrane rafts.
| ACKNOWLEDGMENTS |
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| FOOTNOTES |
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Published, MCP Papers in Press, January 8, 2007, DOI 10.1074/mcp.M600398-MCP200
1 The abbreviations used are: EC, endothelial cell; S1P, sphingosine 1-phosphate; iTRAQTM, isobaric tagging for relative and absolute quantitation; siRNA, small interfering RNA; TER, transendothelial electrical resistance; TEAB, triethylammonium bicarbonate; SCX, strong cation exchange; MARCKS, myristoylated alanine-rich C-kinase substrate; MRP, MARCKS-related protein. ![]()
* This study was supported by grants from NHLBI, National Institutes of Health Proteomics Initiative (content N01-HV-28180) (to J. V. E., J. G. N. G., and Y. G.). The costs of publication of this article were defrayed in part by the payment of page charges. This article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact. ![]()
S The on-line version of this article (available at http://www.mcponline.org) contains supplemental Table S1 and supplemental Fig. S1. ![]()
To whom correspondence should be addressed: Johns Hopkins University Bayview Campus, 5200 Eastern Ave., Mason F. Lord Bldg., Center Tower, Rm. 609, Baltimore, MD 21224. Tel.: 410-50-8501; Fax: 410-550-8512; E-mail: yguo7{at}jhmi.edu
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