Regulation of ROCK1 via Notch1 during breast cancer cell migration into dense matrices
- Vanisri Raviraj†1,
- Sandra Fok†1,
- Jifei Zhao1,
- Hsin-Ya Chien1,
- J Guy Lyons2,
- Erik W Thompson3, 4 and
- Lilian Soon1, 5Email author
© Raviraj et al.; licensee BioMed Central Ltd. 2012
Received: 19 July 2011
Accepted: 15 February 2012
Published: 14 May 2012
The behaviour of tumour cells depends on factors such as genetics and the tumour microenvironment. The latter plays a crucial role in normal mammary gland development and also in breast cancer initiation and progression. Breast cancer tissues tend to be highly desmoplastic and dense matrix as a pre-existing condition poses one of the highest risk factors for cancer development. However, matrix influence on tumour cell gene expression and behaviour such as cell migration is not fully elucidated.
We generated high-density (HD) matrices that mimicked tumour collagen content of 20 mg/cm3 that were ~14-fold stiffer than low-density (LD) matrix of 1 mg/cm3. Live-cell imaging showed breast cancer cells utilizing cytoplasmic streaming and cell body contractility for migration within HD matrix. Cell migration was blocked in the presence of both the ROCK inhibitor, Y-27632, and the MMP inhibitor, GM6001, but not by the drugs individually. This suggests roles for ROCK1 and MMP in cell migration are complicated by compensatory mechanisms. ROCK1 expression and protein activity, were significantly upregulated in HD matrix but these were blocked by treatment with a histone deacetylase (HDAC) inhibitor, MS-275. In HD matrix, the inhibition of ROCK1 by MS-275 was indirect and relied upon protein synthesis and Notch1. Inhibition of Notch1 using pooled siRNA or DAPT abrogated the inhibition of ROCK1 by MS-275.
Increased matrix density elevates ROCK1 activity, which aids in cell migration via cell contractility. The upregulation of ROCK1 is epigenetically regulated in an indirect manner involving the repression of Notch1. This is demonstrated from inhibition of HDACs by MS-275, which caused an upregulation of Notch1 levels leading to blockade of ROCK1 expression.
KeywordsBreast cancer High-density matrix Cancer cell migration ROCK expression Histone deacetylase inhibitors
Cancer is a complex disease and is strongly influenced by a number of factors including genetics, epigenetics, behavioural aspects and the environment. At the cellular level, these factors impact on cell signalling leading to uncontrolled proliferation and cell migration with adverse consequences in the formation of tumours and metastases. The stroma is known to regulate mammary gland development and under some circumstances, also promote breast cancer. Stromal contents include fibroblasts[3, 4], immune cells[5, 6], adipocytes, and extracellular matrix (ECM), which can regulate the survival, proliferation and invasion of tumour cells.
Breast cancers have a high stromal content, which is characterized by activation of fibroblasts (from non-proliferative fibroblasts to proliferative myofibroblasts), increased vascularisation, increased deposition of stromal collagen, and cross-linking and reorientation of ECM[8, 9]. Increased deposition of stromal collagen or “desmoplasia” is associated with enhanced matrix stiffness. Desmoplasia can promote the proliferation of normal and transformed cells and increase cell invasion and metastasis[10, 11]. Furthermore, high mammographically dense tissue (HMT) as a pre-existing condition poses one of the highest risk factor for breast cancer development. The predominant component of high mammographically dense tissue is connective tissue consisting mostly of collagen. Provenzano et al., studied mice with a mutation in the α1(I) chain of type 1 collagen that dramatically reduces collagen proteolysis. Mammary glands of these mice exhibit increased collagen deposition and show signs of hyperplasia such as irregular epithelial boundaries.
Single tumour cell migration in three-dimensional (3D) matrices can be classified into broad categories known as amoeboid and mesenchymal migration. Single tumour cell migration in three-dimensional (3D) matrices can be classified into broad categories known as amoeboid and mesenchymal migration. Mesenchymal migration is characterized by elongated spindle-like cell morphology and requires integrin-mediated matrix-focal adhesion interactions, cortical F-actin, stress fibres formation, and expression of proteases. Unlike mesenchymal migration, amoeboid cells do not require proteolysis or integrins for migration[16, 17]. Amoeboid migration refers to movement of rounded or ellipsoid cells, which has no mature focal adhesions and stress fibres. Cell movement is driven by actin polymerization and rapid expansion and contraction of the cell body that allows the cells to squeeze through pores in the ECM. Amoeboid- and mesenchymal-like cells might utilize proteolysis for migration depending on the density, the presence of cross-links and the fibrillar or non-fibrillar nature of the matrices. In the lower spectrum of matrix densities, amoeboid-like tumour cells exhibit non-proteolytic migration by Rho-associated coiled-coil forming kinase (ROCK)-associated contractility or protrusion-led mechanisms[22, 23]. Protrusion-led migration occurs independently of integrins and it is driven by protrusions. This can occur in low-density collagen matrices where contraction-inhibited dendritic cells are able to reach the same instantaneous velocity peak as control cells mainly through pushing forces generated by actin polymerisation during protrusion formation.
Increased expression of RhoA or RhoC GTPAses and/or their ROCK1/2 effectors has been reported in several metastatic cancers, and they play important roles in tumour progression and invasion[25, 26]. These molecules also partake in mechanotransduction of signals in response to external tensional stimuli[11, 27].
This work investigates the role of dense collagen matrices that resemble the matrix densities of mammary breast cancer tissues in regulating the migration of tumour cells. MTLn3 rat mammary carcinoma cells were observed to maneuver between collagen fibrils during migration into dense matrices utilizing cell contractility. These cells also have significantly higher ROCK1 activity levels in high-density (HD) compared to low-density (LD) matrices, indicating matrix-dependent regulation. ROCK1 levels and activity were sensitive to HDAC inhibition by MS-275, which was abrogated when Notch1 was blocked. Inhibition of ROCK1 and metalloproteases by themselves had no effect on cell migration indicating alternation of invasion strategies. However, in the presence of both inhibitors, cell migration was significantly blocked.
Preparing in vitro collagen matrices with similar collagen content and organization to high mammographically-dense tissues (HMT)
Physical matrix properties, cell migration, and gene expression
Tumour cells of epithelial origins migrate away from the primary tumour by first breaching the basement membrane, which has low values of Young’s modulus or low resistance to elastic deformation. Paszek and Weaver, 2004, measured this to be 175 ± 37 Pa for reconstituted basement membrane, which is similar to the elastic modulus of collagen matrices at 1–2 cm3. Our measurements of 1 cm3 collagen matrices also fall on the low end at <100 Pa. By contrast, HD matrix is approximately 10-fold stiffer compared to LD matrix. This suggests that HD matrix recovered more easily from deformation while the latter was more susceptible to deformation forces (Figure 2A). Therefore, tumour cells essentially cross from a low collagen content and “malleable” milieu of the basement membrane and into highly dense and rigid collagen matrices (Figure 1). It was also recently shown that tumour cells are attracted to regions of high matrix stiffness, a mechanism known as durotaxis. The present model is designed to study how tumour cells enter HD collagen matrix similar in density to tumour matrices. Tumour cells are seeded on top of the HD matrix, which mimics the breaching of tumour cells from a region of low or negligible stromal density into highly dense tumour stroma. Seventy-two hours after seeding, 89% (n = 4 experiments) and 100% (n = 2 experiments) of cells have invaded into LD and HD matrices, respectively. Cell shape was determined from measurements of Circularity and Aspect Ratio. Circularity ratios approaching 1.0 represent a perfect circle while Aspect Ratio is the length of the major axis divided by the minor axis. Cells in LD matrix have larger Circularity values and lower Aspect Ratio values than those in HD matrix suggesting a rounder cell shape (Figure 2B). Live-cell confocal microscopy shows that in LD matrix, the cell appears rounded and during migration, forms membrane blebs due to contractility of the cortex. In HD matrix, a very different morphology is apparent where a large protrusion forms through a series of membrane ruffling and extension events leading to the generation of fine filopodia distally (Figure 2B). In HD matrix, the protrusive cell front leads the migration process. The nucleus, being a tall and rigid structure, required a long period to move past barricading matrix fibrils. This was assisted by cytoplasmic streaming and cell contractility that forced the cell body into the HD matrix (Figure 2C; Additional file1: Movie S1).
The expression of ROCK1 transcript and ROCK protein activity are increased in high-density matrix
ROCK inhibition suppressed cell invasion in a context-dependent manner
MS-275 downregulated the protein expression and kinase activity of ROCK1 in HD matrices
Blocking protein synthesis abrogated the downregulation of ROCK1 by MS-275 in HD matrix
HD matrix reduced Notch1 expression that was abrogated by MS-275
In contrast to the effects on Notch1, CHX alone or CHX and MS-275 treatments caused significant increases in the expression of p53. There is no precedent for this observation for p53 but cell cycle genes have been shown to be upregulated by CHX[50, 51]. Furthermore, synergy between EGF and CHX has led to the upregulation of actin mRNA transcript. It is likely that these effects are due to blockade of an inhibitor by CHX so that in some cases, inhibition of protein synthesis can lead to upregulatory effects. This reasoning may apply to CHX upregulation of p53 via either increased stability of p53 mRNA or the transcription rate or both.
MS-275 regulated Notch1 expression leading to the suppression of ROCK1 in HD matrices
To determine whether the increase in Notch1 expression by MS-275 might be responsible for the downregulation of ROCK1, we used the Notch1 inhibitor, DAPT, in combination with MS-275 in quantitative RT-PCR and kinase assay experiments. The Notch pathway has a critical cleavage step involving the γ-secretase complex of four proteins. Enzymatic cleavage of Notch by γ-secretase complex is essential for the formation of the active intracellular Notch domain (NICD). DAPT is a potent γ-secretase inhibitor that inhibits the formation of NICD and its downstream pathways. The combination of DAPT and MS-275 abrogated the down regulation of ROCK1 by MS-275 alone (Figure 7A). The results were also confirmed using SMART Pool siRNA to knockdown the expression of Notch1 (Figure 7B). Similar data were found when replacing MS-275 with VPA. In HD matrix, VPA significantly suppressed ROCK1 expression whereas DAPT increased ROCK1 mRNA level. Treatment with both VPA and DAPT abrogated the effect of VPA alone, increasing ROCK1 expression to control levels ( Additional file2: Figure S1).
Breast tumours have a tendency to be highly desmoplastic with high collagen content. This work explores ROCK1 activity, regulation and cell contractility function during cell migration in high-density (HD) matrices. Live-cell imaging showed that tumour cells navigated through HD matrices by contraction of the cell body. Treatment with inhibitors demonstrated a role for ROCK1 and MMPs in cell migration. There was increased expression of invasive genes in HD compared to LD matrices including ROCK1, whereby both its expression and activity were significantly upregulated in denser matrices. This effect of the microenvironment on ROCK1 was sensitive to treatment with a HDAC inhibitor, MS-275, which upregulated Notch1 that in turn, suppressed ROCK1. This was shown by downregulation of Notch1 using siRNA knockdown and DAPT, which abrogated the inhibition of ROCK1 by MS-275.
Dense breast tissue shows increased stromal collagen and analyses of tumour material indicate that cancerous breast tissues are stiffer than healthy tissue. Stiffness or resistance to deformation measured from Young’s modulus of collagen matrices is dependent on the number of fibrillar cross-links and higher fibre densities[19, 54, 55]. Stiffer matrices promote invasion by increasing the numbers of active invadopodia and increase cell proliferation by elevating Rho-GTPase activity and cell adhesion. Tumour cells in turn, remodel the extracellular matrix for example, by realigning randomly organised collagen fibres into a radial configuration to help facilitate local invasion[14, 15, 58]. Tumour cells are also known to use protease to cleave ECM components and together with other mechanisms to contract and reorganise the collagen matrix to provide space required for cell migration. It is conceivable that matrix reorganisation via pushing of protrusions, contraction of the cell body and local matrix proteolysis serve to reduce matrix stiffness and facilitate cell migration. This study showed that levels of ROCK transcript, protein and protein activity were significantly upregulated in stiff matrices coincident with the observation of cell body contractility utilised for migration. Unlike other biological programs such as proliferation and differentiation where cells are committed to specific pathways, cells can switch between regulatory pathways and migration modes for invasion. Protrusion-, contractility- or protease-led mechanisms are interchangeably utilised by tumour cells. These are dependent on environmental conditions and cell proclivities related to genetic make-up governing polarity, adhesion and cytoskeletal functions. Variations in these factors lead to a number of permutations in the migration mode of tumour cells. For example, blockade of MMPs causes mesenchymal tumour cells to switch to cell contractility for migration similar to amoeboid cells in LD matrices[15, 22, 57, 60].
In HD matrix, ROCK inhibition had no effect on migration even though live DIC microscopy showed evidence of cell contractility. It is possible that in the absence of ROCK, protease-led migration might compensatory. Indeed, inhibiting both MMPs and ROCK, cooperatively/synergistically reduced migration levels, albeit at the lower end of the GM6001 concentration (12.5 μm) used. This suggests that at a critical level of MMPs, ROCK is required for efficient cell migration. At higher GM6001 concentrations (above 12.5 μm), addition of ROCK inhibitors has no further effects suggesting that ROCK can no longer compensate for migration. Here, we are able to glimpse into how tumour cells are inherently plastic where cells can swap between migration modes utilising ROCK1 and/or MMPs. Residual migration (when ROCK1 and proteolysis are inhibited) suggests that a third pathway is utilised, possibly one that controls protrusion-led migration. Indeed, we observe that tumour cells migrate into dense matrices utilising enlarged protrusions that interacts with collagen fibrils to gain traction ( Additional file1: Movie S1).
Epigenetics have been shown to play a role in regulating ROCK1 expression as a function of cell adhesion, an environmental cue. Cells in suspension expressed more ROCK1 compared with adherent cells and the use of an HDAC inhibitor further increased the expression of ROCK1 in suspension cultures. The function of ROCK1 was to generate cell contractility that blocked adhesion in the cells in suspension. Here we explored whether epigenetics might also play a part in the regulation of ROCK1 when cells experience microenvironmental differences in matrix stiffness. ROCK1 expression and activity was significantly upregulated in the highly elastic HD matrix compared to LD matrix. Blocking HDAC function using MS-275 downregulated ROCK1 and this could result from either direct or indirect effects of the drug.
HDACs deacetylate histones reducing accessibility of DNA to the transcription machinery resulting in inactive chromatin. Furthermore, histone deacetylation can also lead to methylation-dependent transcriptional activation[61, 62]. There are two possibilities as to how HDACs might increase ROCK1 transcript in HD matrix. This might occur directly through HDAC promotion of histone methylation at H3K4Me and activation of ROCK1 gene transcription (as opposed to downregulating genes at other methylated sites such as H3K9Me.). The alternative hypothesis is that in HD matrix, HDAC suppresses an inhibitor of ROCK1 so that addition of MS-275 abrogates this suppression, leading to the downregulation of ROCK1. To test this, we used cycloheximide (CHX) to block protein translation and showed that CHX prevented the downregulation of ROCK1 transcript and protein activity in the presence of MS-275. This suggests that the effect of MS-275 on ROCK1 is indirect and it is dependent on another protein(s) upregulated by MS-275.
ROCK activity is regulated by Rho GTPase, which frees the kinase region from the autoinhibitory carboxy-terminal region of ROCK1 and it is also activated autonomously from Rho. ROCK phosphorylates substrates that function in the assembly of actin filaments and in cell contractility including ezrin-radixin-moesin (ERM) proteins and MLC. Phosphorylation of the MLC of myosin II activates myosin ATPase and consequently promotes cell contractility. Furthermore, ROCK also phosphorylates the myosin-binding subunit (MYPT1) of myosin light–chain phosphatase (MLCP), a negative regulator of MLC, resulting in enhanced contractility. We show that using blebbistatin to block myosin II, downstream of ROCK, has no effect on cell migration ( Additional file4: Figure S3).
Apart from self-regulation at the protein level, ROCK can be controlled at the transcript level. In keratinocytes, p53 positively regulates Notch1 and both these factors inhibit ROCK1/2. Notch is a type I transmembrane receptor with a key role in cell fate determination and the differentiation of cells during development. Inhibition of Notch increases tumour formation by primary human keratinocytes expressing oncogenic Ras, suggesting a tumour suppressor role for Notch. Blockade of Notch also suppressed differentiation and increased stem cell populations. The binding of cognate ligands to the Notch receptor is followed by proteolytic cleavage of Notch, releasing its intracellular active domain. Notch translocates to the nucleus and interacts with DNA-binding proteins such as CSL, converting it from a transcriptional repressor to an activator[67, 68]. Notch also binds Mastermind-like 1 (MAML1) to further elevate CSL-regulated transcriptional activation. The Notch/CSL/MAML pathway targets the HES and HERP families of basic helix-loop-helix (bHLH) transcriptional repressors. Conserved HES-binding sites in turn, can be found in the promoter regions of ROCK2 and MRCKα genes, the effectors of RhoA and CDC42, respectively. Notch promotes the repressor function of HES1 leading to the downregulation of ROCK2 and MRCKα gene expression. Furthermore, use of DAPT increased the expression of ROCK1 and 2, supporting the idea that Notch1 normally controls these genes in keratinocytes to prevent tumour progression. The transcript levels of Notch have been shown to be upregulated in mouse embryos treated with trichostatin A, a potent HDAC-inhibitor. Therefore, there is evidence to suggest that Notch1 not only negatively regulates ROCK1 at the promoter level but that HDAC inhibitors upregulate Notch1 gene expression.
In HD matrix, we find that Notch1 but not p53 was upregulated by MS-275 and the increase in Notch1 levels was independent of CHX. When Notch1 activation was blocked using a γ-secretase inhibitor, DAPT, or when Notch1 levels were reduced by pooled siRNA transfection, the effect of MS-275 on ROCK1 activity was abrogated. The data suggest that MS-275 directly upregulates Notch1, which in turn blocks ROCK1 expression perhaps via repressor activities on the ROCK1 promoter.
N- (2-aminophenyl)-4-[N- (pyridin-3-yl -methoxycarbonyl) aminomethyl) benzamide (MS-275) was purchased from Enzo Life Sciences, International (Plymouth Meeting, PA). (R)-(+)-trans-4- (1-Aminoethyl)-N- (4-Pyridyl) cyclohexanecarboxamide dihydrochloride monohydrate (Y-27632), N- [N- (3,5-Difluorophenacetyl)-L-alanyl)-S-phenylglycine t-butyl ester (DAPT), and 3-[2-(3,5-Dimethyl-2-oxocyclohexyl)-2-hydroxyethylglutarimide, actidione, naramycin A (Cycloheximide), and Valproic acid were purchased from Sigma (Sigma-Aldrich, Corp., St. Louis, Mo). GM6001 was purchased from Calbiochem (Calbiochem, SanDiego, CA).
Mammary tissue accrual and histochemistry
Mammary tissue containing DCIS was surgically resected in accordance with standard health care procedures and with human research ethics committee (HREC) approvals (USyd #09-2009/12168 and Peter MacCallum #08/21). Human studies were performed in accordance with the ethical standards laid down in the 1964 Declaration of Helsinki and its later amendments. Patients have given informed consent to participate in the study. Mammary tissue collected from patients undergoing subcutaneous mastectomy for breast carcinoma was sliced thickly (~1 cm thick) in the superior-inferior axis, fixed in neutral buffered formalin and subjected to specimen radiography. Areas containing HMT or LMT were removed from the slice after registration with a specimen mammogram of the slice, transferred into 9.0% sucrose in 0.1 M phosphate buffer for 12 h and embedded in OCT compound. Routine 5 μm thick sections were cut with a Bright OTF cryostat at −30°C and fixed with absolute acetone at −20°C for 10 min. Masson’s Trichrome or H&E were used to stain these sections.
Picrosirus red collagen assay
Collagen content within HMT and LMT tissues was estimated against picrosirius red collagen standards (up to 31.93 mg/cm3). HMT and LMT tissues, HD matrices and samples with known collagen concentrations were stained with 200 μl 1% (w/v) Sirius red (Sigma-Aldrich) in saturated picric acid solution (Sigma-Aldrich) for 30 min. The samples were then washed in 0.02 M acetic acid followed by 10000 x g centrifugation for 1 min until all unbound stain was removed. Collagen-bound stain was then extracted in the presence of 0.5 M NaOH. Absorbance of the eluted stain was read at 531 nm using a VictorX Multilabel plate reader (PerkinElmer, Waltham, MA).
Samples were fixed in 2.5% glutaraldehyde followed by 1% Osmium tetroxide, dehydrated in a graded series of ethanol and critical point dried. SEM images were taken with the Zeiss Ultra field emission scanning electron microscopy (FESEM) (Carl Zeiss), using the SE2 or In Lens detector, 2 kV and of a working distance of 4 mm.
Cell culture and transfection
Rat mammary adenocarcinoma cells, MTLn3, were grown in Advanced Dulbecco’s modified Eagle’s medium (Adv D-MEM), supplemented with 5% fetal bovine serum, 1% GlutaMax and 1% antibiotic- antimycotic (Invitrogen/Gibco, Carlsbad, CA), at 37°C and 5% CO2 incubator and subcultured at 80% confluency. Twenty-four hours prior to transfection, 4 × 104 cells were seeded on 12 well plates. Rat Notch-1 ON-TARGET plus SMART Pool siRNA from Dharmacon (Thermo Fisher Scientific, Lafayette, CO) and non-targeted scrambled siRNA from Ambion (Ambion, Austin, TX) were transfected using DharmFECT 1 transfection agent. Twenty-four hours after transfection, cells were trypsinized and grown on the high-density collagen matrices for 24 h and then fresh medium was replaced with or without drugs. Forty-eight hours after drug treatments, cells were harvested and total RNA and protein were extracted for further analysis.
Preparation of collagen matrices and seeding cells
High-density collagen matrices were prepared by using 20 mg/cm3 concentrated collagen. Around 500 μl of 10 mg/cm3 acid-solubilised monomeric rat tail type I collagen (BD Biosciences, San Jose, CA) was centrifuged in a microcon-YM-30 column containing a 30 kDa filter cartridge (Millipore, Billerica, MA) for 60 min. Around 50–100 μl of concentrated collagen was added to the 14 mm microwell of a glass-bottom culture dish (MatTek Corporation, Ashland, MA). Collagen was polymerised by NH4OH vapour and the matrices were washed with 1X PBS and incubated in complete medium overnight in a humidified, 37°C and 5% CO2 incubator. Low-density (LD) collagen matrices were made by appropriate dilution of collagen followed by polymerisation at 37°C incubator. The present model studies how tumour cells enter high-density (HD) collagen matrices that are similar in density to stromal matrices. MTLn3 cells (10 X 104) were seeded on top of control LD and HD collagen matrices and were allowed to migrate for 24 h. The samples were then washed to remove non-adherent cells, treated with drugs or vehicle for another 48 h (unless otherwise stated) and then prepared for imaging, total RNA extraction or protein extraction. At the end of the 72 h in control untreated samples, 89% (n = 4 experiments) and 100% (n = 2 experiments) of total cells in the matrices have invaded into LD and HD matrices, respectively.
Light microscopy and cell invasion quantitation
Differential interference contrast (DIC) live cell imaging was performed on an Olympus CellR Live-Cell Microscope equipped with a 5% CO2 and 37°C enclosure (Olympus). Images of Masson’s Trichrome were captured using the Zeiss Axioskop 2 MAT Light Microscope (Carl Zeiss, Goettingen, Germany).
For quantitation of migration depth, treated and control cells were washed in pre-warmed PBS and cells were fixed in 4% paraformaldehyde for 20 min, followed by washing, and permeabilisation in 0.1% Triton X-100 for 5 min. Cells were stained in with Alexa fluor 488 phalloidin (Invitrogen) for 15 min. Stained cells were imaged by confocal and collagen by reflection microscopy using an Olympus FluoView FV1000 microscope (Olympus, Tokyo, Japan). Reflection microscopy was performed by scanning with either the 488 or 559 nm laser line and detected by passing the reflected light through the DM405/488/559/635 dichroic and capturing within the bandwidth of 485–490 nm for the 488 scan or 555–560 nm for the 559 nm scan. Individual stacks were projected along the z-axis and migration depth was measured from the collagen surface to the ventral cell surface using ImageJ. Cells were sampled randomly for imaging and for the analyses.
Extraction of total RNA
Total RNA was extracted from treated and control cells to study the gene expression pattern. Culture medium was aspirated and cells were washed in pre-warmed PBS. Collagen matrices were transferred into 1.5 ml of eppendorf tubes and 1 ml of TRIzol® reagent (Invitrogen) was added to each gel and homogenized by pipetting up and down. After homogenisation, the tubes were incubated for 5 min at room temperature and 0.2 ml of chloroform was added to each tube and shook for 15 s. The mixture was incubated for another 5 min at room temperature and spun down at 13,000 rpm at 4°C for 15 min. The upper aqueous layer was transferred into a new tube and same volume of 70% ethanol was added into the tubes. It was mixed thoroughly and mixture was transferred into the RNeasy Mini spin column (Qiagen, Hilden, Germany) and remaining steps were followed according to manufacturer’s protocol.
Reverse transcription and real-time quantitative PCR (RT-qPCR)
Reverse transcription was performed using SuperScript III First-Strand synthesis system (Invitrogen) according to the manufacturer’s protocol. We have quantified expression levels of some of the genes, which are responsible for cell invasion and proliferation using fluorescence detection method (primer list attached on Additional file5: Table S1); 10 μl of Brilliant SYBR master mix (Stratagene, La Jolla, CA) or Express SYBR® GreenER (Invitrogen), 0.25 μM primers and 1 μl of cDNA were used in 20 μl of total reaction. The relative mRNA level was calculated by the 2-ΔΔCT method. GAPDH was used as an internal control. RT-qPCR experiments were performed in Rotagene 6000 from Corbett Research. Initial denaturation was at 95°C for 10 min. The cycling conditions afterwards were as follows: 95°C for 10 s, annealing dependent on the primer temperature, and elongation at 72°C for 20–30 s. Melting curve analysis was performed between 72°C and 98°C. Each sample was assayed in triplicate, each experiment had at least 2 biological replicates, and each experiment was performed at least 3 times.
Protein extraction and western blot analysis
Collagen matrices containing migratory cells were washed in PBS and transferred to 24 well plates. Matrices were digested by 0.5 mg/ml of collagenase (Sigma-Aldrich) in Kreb’s Ringer buffer supplemented with 50 mM CaCl2 at 37°C for 30 min. Cells were pelleted at 2000 rpm, were washed in ice-cold PBS. RIPA buffer (Sigma-Aldrich) that contain freshly added protease inhibitor cocktail (Sigma-Aldrich), was added to each pellet, mixed thoroughly and incubated for 1 h in the ice. Cell lysate was centrifuged at 13,000 rpm for 15 min at 4°C. Concentration of protein in the supernatant was determined using Bio-Rad protein assay dye reagent (Bio-Rad Laboratories, Hercules, CA). Twenty microgram of protein was solubilised in SDS-sample buffer at 95°C for 5 min, and separated by SDS-PAGE using 8–10% resolving gels. Proteins were electroblotted onto immunoblot PVDF membrane (Millipore). After transfer, membranes were blocked in 5% skim milk/TBST for 1 h and the membrane washed three times in TBST. The membranes were incubated overnight at 4°C in 1% skim milk/TBST containing primary antibodies that were specific for ROCK1 (H-85) (1:500) or Notch1 (1:1000) from Santa Cruz (Santa Cruz Biotechnology, SantaCruz, CA). After washing with TBST, membranes were incubated with 1% skim milk/TBST containing secondary antibody conjugated to horseradish peroxidase (GE Healthcare Bio-Sciences Corp, Piscataway, NJ) for 1 h. The blot signal was visualized by using enhanced chemiluminescence hyperfilm (GE Healthcare). Blots were then stripped at room temperature for 30 min in Restore plus western blot stripping buffer (Thermo Fisher Scientific) and reprobed with mouse anti-α-tubulin (1:2500) monoclonal antibody.
ROCK activity assay and immunoblotting
ROCK activity was measured using ROCK activity immunoblot kit from Cell Biolabs Inc (Cell Biolabs Inc. San Diego, CA). The reaction was carried out with slight modification of manufacturer’s protocol; 65 μl of Kinase/ATP/Substrate solution was prepared by adding 3 μl of 10 mM ATP and 3 μl of ROCK substrate (recombinant MYPT1) to 59 μl of freshly prepared 1X Kinase buffer and then 10 μl of 1X Kinase/ATP/Substrate solution and 10 μg of whole cell lysate protein from treated or untreated cells were used for the kinase reaction. The kinase reaction was initiated by incubating tubes at 30°C for 1 h with gentle agitation and stopped by adding SDS-sample buffer. Protein mixture was boiled at 95°C for 5 min. Protein was separated in 12% resolving gel. Rabbit anti-phospho-MYPT1 (Thr696) primary antibody (1:1000) was used to detect the phosphorylated MYPT1 substrate.
Rheological analyses for measuring the viscoelastic properties of collagen gels were performed using the Physica MCR 301 (Anton-Paar GmbH, Austria) and a cone plate of 50 mm in diameter. Collagen gels (50 mm in diameter and 1 mm in thickness) were loaded onto the rheometer lower plate. The upper cone plate was slowly lowered onto the collagen gel until full contact was achieved. Frequency sweep oscillations from 0.01 to 30 Hz were performed and the storage modulus (G’) and loss modulus (G”) were recorded. For the frequency sweep oscillation measurements, 1% maximal strain and shear rates from 0.000626 to 1.87 1/s was used.
Morphometric measurements and statistics
Cell morphology was analysed using ImageJ. The outline for each cell was traced and parameter measurements were obtained for Circularity and Aspect Ratio. The data were transferred to Microsoft Excel for analysis and statistical evaluations. Data were expressed as Mean ± SD. Analyses were performed by Student t-test or one- way ANOVA followed by post-hoc Tukey’s test. P values less than or equal to 0.05 were considered statistically significant.
VR designed the experiments, analysed gene expression profiles, performed siRNA knockdown experiments, Q-PCR and western analyses, ROCK inhibitor assays and contributed to the writing. SF analysed the concentration, organization and biophysical properties of collagen in HMT, LMT and HD matrix, developed HD matrices, and performed live-cell imaging of cell migration in the presence and absence of ROCK inhibitors. JZ performed and analysed the data for ROCK migration assays and participated in manuscript writing. HC performed the ROCK and MMP inhibitor studies. JGL assisted in the development of HD matrix and provided intellectual input on collagen gel properties. ET provided the clinical samples and intellectual input oriented towards clinical assessment of dense tissue and MMP-related cell processes and proofread the manuscript. LS provided the intellectual direction, coordinated the experiments and wrote most of the manuscript. All authors read and approved the final manuscript.
Extra cellular matrix
Intracellular domain of Notch1.
This work was supported by the NHMRC (#402510), ARC (#DP0881012), St Vincent’s Hospital Research Endowment Fund, VBCRC and FABLS, and was conducted with human ethics approvals (USyd #09-2009/12168 and Peter MacCallum #08/21). VR is funded by the NHMRC biomedical scholarship (#571200). We gratefully acknowledge AMMRF, AKCMM, EMU, Sydney, Australia for use of the facility and Dr Renee Whan and Mr Dennis Dwarte for technical assistance. We thank Prof. John Condeelis for kindly providing the MTLn3 cells, Ms Joyce Lin, Dexing Huang and the Peter MacCallum Tissue Bank for assistance with the mammary tissue accrual and Assoc. Prof Jenny Cawson, and others at Breast Screen, Vic, for mammography imaging. We also thank Assoc. Prof. Prue Hill, St. Vincent’s Pathology, Melbourne, for assistance with histopathological assessments of tissues.
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