Background
Each year millions of people are stricken with chronic wounds such as diabetic foot ulcers, pressure ulcers, and venous leg ulcers that contribute to the morbidity and mortality in the U.S. annually[
1‐
3]. Recent evidence indicates that bacterial biofilms are present in chronic wounds more often than in acute wounds and are related to the wounds inability to heal[
4‐
6]. Bacterial biofilms consist of bacterial communities embedded in a self-made extracellular polysaccharide matrix that are often resistant to a variety of antibiotics[
7]. Chronic wounds provide an excellent environment for this matrix due to the tissue surface for growth, poor blood flow, and poor oxygen flow that inhibit host cell defenses against the bacteria[
8]. The surface of chronic wounds allow bacteria to readily adhere to a surface and relinquish their planktonic state to form an aggregate of bacteria that enable the newly formed biofilms to better survive in their environment[
9]. The inhibitions of the host cell defenses allow the bacteria to cooperate in the distribution of nutrients, removal of wastes, and to resist host defense mechanisms[
6].
The establishment of
S. aureus biofilms in chronic wounds relies on the bacterial community’s ability to adhere to tissue. After attachment, the bacteria rapidly secrete cell signaling molecules that coordinate activities of the bacteria through a process known as quorum sensing[
10]. Biofilm formation by
Staphylococcus aureus has been shown to be highly dependent on the staphylococcal accessory regulator (
sarA)[
11] and to a certain degree on the (
icaABCD) operon[
12‐
15], and the
walRK operon[
16]. Mutations in either
sarA or the
ica operon have been associated with reduced capacity of
S. aureus to form biofilms. There is significant evidence that the molecules in the matrix of biofilms lead to impermeability to antibiotics and host defenses[
17]. While the idea that biofilms affect wound healing has been established, the exact role of biofilms in chronic wounds is not well understood[
7]. Biofilm’s resistance to antibiotics make the infections difficult to resolve and more likely to become chronic or recurrent infections in part due to the inhibition of the re-epithelialization process[
18].
Wound healing is a complex series of pathogen and host cell interactions. Most chronic skin wound healing is mediated by keratinocytes[
19,
20]. The ability of keratinocytes to migrate to the site of the wound and respond to inflammatory signals to eliminate infection and complete the process of reepithelialization is key to the ability of chronic wounds to heal[
20]. Keratinocytes have been shown to express toll-like receptors 1–6 and 9, which can allow them to act as a first responder against pathogenic microorganisms. For example,
S. aureus can activate nuclear transcription factor kB (NF-κB) in keratinocytes. Activated NF-κB then translocates into the nucleus and induces the transcription of NF-κB controlled genes such as interleukin 8 (IL-8) and nitric oxide synthase (iNOS)[
21,
22]. The role that keratinocytes play in wound pathogenesis makes them an excellent model to investigate the pathogenesis of wound healing
in vitro.
Inflammatory response of the host is important to the ability of wounds to heal. Biofilms have been shown to contribute to the failure of wounds to reepithelialize through the activation of the β-catenin/c-myc pathways which is in part attributed to the unresponsiveness of cells at the wounds edge[
23‐
25]. A part of that inflammatory response is the production of inflammatory cytokines that serve to mediate host immune responses. Recent evidence has revealed that
S. aureus biofilms affect the gene regulation and cytokine production of keratinocytes and thus may affect the way that wounds heal[
26]. The goal of this project was to further investigate and compare the effects of S
. aureus biofilm secreted products and
S. aureus planktonic secreted products on gene expression profiles and inflammatory responses of human epithelial keratinocytes (HEKa). The hypothesis is that products secreted by
S. aureus growing as a biofilm actively impair wound healing by promoting inflammatory responses in keratinocytes. To test this hypothesis, we investigated and compared inflammatory responses of HEKa cells exposed to BCM and PCM at both transcriptional and translational levels.
Methods
Preparation of biofilm conditioned media
An overnight culture of Staphylococcus aureus ATCC 6538 in 5.0 ml of tryptic soy broth (TSB) was incubated statically at 37°C for 24 hours. Tissue culture inserts were placed in a 24 well plate and inoculated with 10 μl of overnight culture and 500 μl of TSB and inoculated at 37°C for 72 hours. Every 24 hours during that 72 hour period the TSB supernatant was removed, the inserts were moved to new wells in the 24 well plates, and 500 μl of fresh TSB was added to the wells. At the end of 72 hour period the TSB was removed and 500 μl of phosphate buffered saline pH 7.4 (PBS) was added and left for 1 hour to wash the remaining TSB from the tissue culture insert. After the removal of the PBS, 500 μl of Epilife media (Invitrogen, Carlsbad, CA) was added and incubated for 24 hours at 37°C. The new biofilm conditioned media was then removed from the well and filtered with a 0.45 μm syringe and collected in 15 ml centrifuge tubes. This BCM collecting and filtering procedure was repeated every 24 hours for 3 days. The collected BCM was then pooled and frozen at -20°C until it was needed.
Preparation of planktonic conditioned media
An overnight culture was created by inoculating a colony of S. aureus ATCC 6538 into 5.0 μl of TSB for 24 hours at 37°C on a rotary shaker set at 150 rpm. After incubation the S. aureus culture was centrifuged for 7 minutes at 1500 rpm. The supernatant was then replaced with PBS, and the pellet was re-suspended by thoroughly mixing with a pipette. The S. aureus was then centrifuged for 7 minutes at 1500 rpm and the PBS was decanted. Five milliliters of Epilife media with human keratinocyte growth supplement was then added to the washed S. aureus culture and mixed thoroughly with a pipette. The S. aureus in the Epilife media was then incubated for 24 hours at 37°C on a rotary shaker set at 150 rpm. After 24 hours the culture was centrifuged at 1500 rpm for 7 minutes and the supernatant was decanted and filtered with a 0.45 μm syringe and stored at -20°C until needed.
Culturing of human keratinocytes
HEKa cells (Invitrogen, Carlsbad, CA) were seeded into a T-25 and T-75 tissue culture flasks at 1 x 104 cells/ml along with Epilife media with human keratinocyte growth supplement and 100μg/ml and 100 U/ml of pen/strep and incubated at 37°C in a CO2 incubator. Every 48 hours the Epilife media was changed until the cells reached 80-90% confluence. In our hands, HEKa cells would start to become senescent at about passage 8 or 9. To prevent cell senescent from altering the results all experiments were performed with cells at passages 3 or 4.
XTT HEKa cell viability assay
BCM and PCM that was created previously were warmed to room temperature and diluted to1 mg/ml in Epilife media with human keratinocyte growth supplement. HEKa cells were cultured until they were at 80-90% confluence and then the original Epilife media with human keratinocyte growth supplement media was removed and 300 μl of either the PCM, BCM or media was added to the wells in triplicate and incubated for 0, 2, 4, 8, 24, and 48 hours. At the designated time 60 μl of activated 2, 3-bis-(2-methoxy-4-nitro-5-sulfophenyl)-2H-tetrazolium-5-carboxanilide (XTT) solution was added and absorbance read at 450 nm.
Genomic responses, statistics and bioinformatics analyses
HEKa cell genomic responses to PCM, BCM and Epilife media were also evaluated. HEKa cells were cultured and plated in a 24 well plate as described above and were grown to 80-90% confluence. After reaching 80-90% confluence the cells were exposed to 1.0 ml of PCM, BCM or Epilife media for a period of 0 and 2 hours. At the designated times points the BCM, PCM, and Epilife media was removed, and the cells liberated from the wells for RNA extraction using Qiagen RNAeasy Cell Protect kit (Qiagen Inc. Valencia, CA). The concentrations of the RNA were determined using a Nanodrop spectrophotometer. RNA was diluted to a 0.1 μg/ml concentration in RNase-free water and transported to Oklahoma Medical Research Foundation (OMRF) for microarray analysis. RNA quality was assessed using capillary gel electrophoresis (2100 Bioanalyzer, Agilent Technologies, Santa Clara, CA). Samples were labeled using Illumina TotalPrep RNA Amplification kit (Ambion/Life Technologies, Carlsbad, CA) and hybridized to whole genome gene expression microarrays (Illumina Human HT-12 v4 BeadChips, Illumina Inc., San Diego, CA) according to manufacturers’ instructions. Microarrays were stained and washed under high stringency conditions and were then scanned on an Illumina iSCAN scanner. Signal intensity values were obtained using GenomeStudio software (Illumina, v2011.1) and quantile normalized and log transformed using MatLab software (Mathworks, Inc., Natick MA) prior to importing into BRB-Array Tools ( National Cancer Institute, Biometric Research Branch, Rockville, MD). Genes were then filtered using the Log Expression Variance Filter to screen out genes that are not likely to be informative based on the variance of each gene across the arrays. Biological replicates for each group were designated and statistically significant differentially expressed genes were identified using a 5% false-discovery rate and a minimum 1.5 fold change between the BCM and the PCM samples[
27]. Bioinformatics analyses of differentially expressed genes were performed using Ingenuity Pathways Analysis software (Ingenuity Systems, Redwood City, CA).
Detection of inflammatory cytokines
HEKa cells were cultured to 80-90% confluence in 24 well plates 1.0 ml of BCM, PCM or Epilife media without pen/strep was added in triplicate cultures for periods of 0, 2, 4, and hours. At the designated time points the BCM, PCM and Epilife media was collected and stored in 1.5 ml microcentrifuge tubes at -20°C until ELISA tests were performed. The concentrations of cytokines in the PCM, BCM, and Epilife media products that were exposed to HEKa cells were quantified and analyzed. Quantification of TNF-α IL-1, IL-6, and IL-8 was performed using the corresponding Quantikine Colorimetric sandwich ELISA assay kit (R&D Systems, Minneapolis, MN) following the manufacturer’s instructions. CXCL2 was quantified using Abnova Enzyme-Linked Immunoabsorbant Sandwich Elisa Assay Kit (Abnova Industries, Taipei City, Taiwan).
Ntiric oxide detection
Cell culture supernatants were collected, and the accumulation of nitrite (NO
2-), a stable end product of NO formation, was measured as an indicator of NO production. The concentration of nitrite in the samples was calculated from a standard curve of sodium nitrite[
28]
]. Briefly, at four and eight hours post exposure one hundred microliters of supernatants were collected from HEKa cells exposed to PCM, BCM, or control media samples and added in triplicate to the 96 well plates. One hundred microliters of Griess reagent was then added to all wells and incubated at room temperature for 15 minutes, and then absorbance was measured at 570 nm. After incubation the optical densities of each well were read on a Thermo Scientific Multiskan MCC microplate reader (Fisher Scientific, Pittsburgh PA) at 570 nm.
Statistical analysis
To determine if there were significant differences in the cell viability of HEKa cells exposed to PCM, BCM and the control media two-tailed t-tests were completed. To determine if there were significant differences in the mean concentration of the cytokines or nitric oxide between the three types of materials, two-tailed t-tests were completed along with ANOVA and Tukey’s statistical methods. An ANOVA resulting in a significant p-value (p < 0.05) was followed by Tukey’s Honestly Significant Difference to determine specifically which means were significantly different.
Discussion
The data collected in this study reveal a clearer picture of the role that
S. aureus biofilms play on cultured keratinocytes. Keratinocytes serve as the primary cell type in the epidermis and primarily function in providing a barrier between the external and internal environment. When breaks in this barrier occur, basal keratinocytes migrate to the site and reepithelization ensues. Chronic wounds are characterized by prolonged inflammation and the failure of wound reepithelization[
8]. Chronic wounds activate a number of inflammatory pathways that lead to the prevention of keratinocyte migration, growth, and differentiation and thus failure of wounds to heal[
25]. Due to their importance in chronic wound pathogenesis HEKa cells were chosen for experiments on the effect of biofilms on early chronic wound pathogenesis. Kirker et al.[
8] demonstrated that the viability of HEKa cells was significantly reduced when exposed to BCM or PCM for 24 hours. Results from our HEKa cell viability assays showed that viability was significantly reduced by BCM or PCM in as little as 8 hours of exposure (Figure
1), indicating that our findings are in general agreement with previous findings of Kirker et al.[
8]. Visual inspection of the cells showed morphological differences between HEKa cells exposed to the two treatment conditions. Evidence of cellular stress in the form of rounding of cell membranes and decreased culture confluency were observed in HEKa cells exposed to BCM after 8 hours of exposure that was not seen in HEKa cells exposed to PCM or the control media (data not shown). Based on the viability assay results and these morphological changes, transcriptional changes were measured at two hours after treatment to detect early transcriptional changes in cell populations with high viabilities. For inflammatory cytokine response and NO production 4 and 8 hour time intervals were used. These time points were selected in an effort to measure downstream effects of transcription and inflammatory responses.
Increased apoptotic effects in HEKa cells exposed to
S. aureus biofilm secreted products provides greater understanding of the pathogenesis of wound healing. Decreased cell viability and the inability of wounds to heal have been linked to chronic wounds associated with biofilms[
8]. Figure
2C shows alterations in transcription of genes associated with apoptosis in BCM- and PCM-exposed HEKa cells. This correlates with our cell viability data (Figure
1) which reveals a statistically significant loss of HEKa cell viability in BCM and PCM after 8 hours. There are several definitions of what an actual chronic wound is, but some common themes are a prolonged inflammatory phase to the wounds and the failure of the wound to respond to standard treatments[
38]. These wounds fail to reepithelialize which is due in part to the decrease of cell production and the increase in cell death. Our data indicate that there is an increase in apoptotic effect in HEKa cells exposed to BCM over PCM or the control conditions.
Microarray analysis was performed on RNA gathered after 2 hours exposed to BCM, PCM, or the media control the samples of HEKa cells exposed for 0 hours were used as a control. The data were then filtered in order to identify differentially expressed genes that were associated with inflammatory responses, apoptosis and nitric oxide production in HEKa cells. There was an increase in transcriptional activity in HEKa cells exposed to BCM for genes associated with inflammation, apoptosis and NO production (Figure
2). In HEKa cells exposed to BCM some of the largest upregulation of transcriptional activity came from the genes CXCL2, IL-8, DUSP1, and ATF3. The DUSP1 gene is important for the regulation of p38 activation of LPS-activated macrophages. The p38 pathway plays a central role in multiple pathways associated with inflammatory response in many cell types[
39,
40]. The p38 MAPK pathway has been found to play a role in the production of inflammatory cytokines namely IL-1 and TNF-α but has also been found to contribute to the production of IL-8 in response to IL-1 osmotic shock and IL-6 in response to the production of TNF-α[
41]. NFKBIA like DUSP1 is an important transcriptional regulator that induces innate and adaptive immune responses. NFKBIA is one of the genes that assist in the regulation of the magnitude and duration of inflammatory responses. One of its key roles is to prevent the inflammatory response from destroying excessive amounts of tissue[
41]. Some of the other genes up regulated are associated with the production of inflammatory cytokines or chemokines. CXCL2, IL-6 and IL-8 are well known cytokines or chemokines which play important roles in mediating inflammatory responses to pathogen. CXCL2 and IL-8 are pro-inflammatory chemokines that assist in the mediation of neutrophil migration as well as the migration of other cellular and humeral factor components to the site of an infection. TNF-α, IL-6 and IL-8 were also upregulated but the fold change in expression over the control was much lower and the increase in expression was only seen in HEKa cells exposed to BCM. TNF-α, IL-6 and IL-1 are all multifunctional cytokines with a wide variety of functions. These three cytokines are interrelated with IL-1 and TNF-α inducing IL-6 and IL-6 in turn playing a role in the regulation of TNF-α[
42]. TNF-α plays a role in tissue repair, inflammation and regulation of apoptosis as well as the activation of transcriptional factors such as NFΚB that are important to several processes including growth, death, and inflammation and stress responses[
43]. While NF-κB is not regulated at the RNA level and is not be expected to be differentially expressed, Ingenuity Pathways Analysis software predicted its increased activation based on the expression patterns of 28 genes in the microarray results from BCM-treated but not PCM-treated HEKa cells relative to media controls (p = 1.06 x 10
-11). DUSP1 is produced in human skin cells and specifies a protein with structural features similar to members of non-receptor-type protein-tyrosine phosphatase family which inactivates MAPKs. MAPKs play an important role in the human cellular response to environmental stress as well in the negative regulation of cellular proliferation[
44]. This can lead to an increase in cell death and thus contribute to
S. aureus biofilms’ negative effects on the ability of HEKa cells ability to respond to bacterial challenges and prevent apoptosis and promote reepithelialization.
Seven cytokines or chemokines commonly produced by keratinocytes in response to pathogens were tested using sandwich ELISAs[
45‐
47]. After 4 hours, cells exposed to BCM showed statistically significant increases in concentrations of IL-6, TNF-α, and CXCL2 in HEKa cells exposed to BCM over HEKa cells exposed to PCM and the control media. The increase in inflammatory cytokine and chemokine responses after 4 hours of exposure to PCM, BCM, and the media control were in general agreement with earlier research by Secor et al.[
6] who showed increases in inflammatory responses by HaCaT cells exposed to
S. aureus biofilm products. HEKa cells exposed to PCM, BCM and the control media were also tested by ELISA’s for the same seven cytokines and chemokines. After 8 hours of exposure, levels of IL-8, along with previously elevated IL-6, TNF- α, and CXCL2 significantly increased in HEKa cells exposed to BCM over HEKa cells exposed to PCM and the media control. At the 8 hour time point HEKa cells treated with BCM showed a statistically significant increase in cytokines versus HEKa cells treated with PCM. These findings support the current hypothesis that biofilm-secreted products differ and have more dramatic effects than secreted products from planktonically grown bacteria which may contribute to difference between chronic and acute wounds[
5]. The creation of biofilms enables bacteria to increase their interaction with one another and thus resist antibacterial and environmental pressures[
6]. These biofilms are not only a congregate of bacterial cells but are also held together by a polysaccharide matrix. Understanding the components of the exopolysaccharide matrix produced by bacterial biofilms along with the difference in morphology of the cells may provide clues to the mechanisms of biofilms and why they produce the differential inflammatory responses that we have observed.
A somewhat unexpected finding from the microarray analysis was the upregulation of genes associated with nitric oxide production in HEKa cells exposed to BCM. Nine genes were up regulated in HEKa that were not found in control samples. Eight of those genes were unique to HEKa cells exposed to BCM and were not found in HEKa cells exposed to planktonically secreted products. Despite the genes associated with nitric oxide production there was not a significant upregulation of iNOS or NOS2 which are most often associated with nitrite production in cells. The lack of significant iNOS an NOS2 upregulation may have been due to the short time between the exposure of the HEKa cells to the PCM and BCM and the time of mRNA collections. Schnorr et al. reported that iNOS expression in keratinocytes was not detected until 4–8 hours after exposure to inflammatory cytokines and maximal expression does not occur until 24 hours post exposure[
48]. Nitric oxide plays a key role in acute wound repair. Nitric oxide synthesis increases wound healing by enhancing collagen deposition within the wound and in dermal fibroblasts to enhance the mechanical strength of the tissue[
29,
30]. However, high concentrations NO may actually inhibit healing[
31]. In this study, we observed upregulation of genes associated with NO production in cells treated with BCM, and tested the downstream effects of such genes by performing nitrite assays on culture supernatants. These nitrite assays were done in order to measure nitrite as an index of NO formation. Statistically significant increases in the amount of nitrite produced by HEKa cells exposed to BCM compared to HEKa cells exposed to PCM or just Epilife media were detected. These results add to the understanding of NO role in chronic wounds as opposed to acute wounds. The role of NO in biofilm production and dispersal is controversial. Falsetta et al.[
49] found that in terms of
Neisseria gonorrhea biofilms there was a high level of NO which seemed to aid the biofilm’s growth. Other studies have found that NO has been linked to the dispersal of
Pseudomonas aeruginosa biofilms as well the prevention of biofilm formation in
S.aureus and
Escherichia coli[
50,
51]. It has been suggested that the disparate results are due to concentration of NO that is induced in the system. NO in large concentrations can be toxic to eukaryotic cells and in fact eukaryotic cells have developed defenses like metallothionein in response to oxidative stress[
32]. Our results show that NO production by HEKa cells increased over time (Figure
4) as inflammatory effects of biofilm secreted products increased (Figure
3). Overproduction of reactive nitrogen species can impair cellular migration, proliferation, and synthesis of extracellular matrix that is important to wound healing by keratinocytes[
35]. This lack of agreement between studies coupled with our results makes NO and its role in biofilm formation, dispersal, and/or chronic wound pathogenesis a topic that requires further investigation.
The majority of studies on immune responses to bacteria have been carried out with planktonically growing bacteria or cell components from planktonically growing bacteria. Infections due to
S. aureus are characterized by strong inflammatory responses[
52,
53]. Several molecules such as Panton-Valentine leukocidin[
54] sphingomyelinase[
55], peptidoglycan, lipoteichoic acid[
56,
57], superantigens[
58] as well as others have been shown to play a role in the inflammatory response directed towards
S. aureus. It is possible that some of these same molecules may be responsible for the differences in inflammatory and nitric oxide responses we have measured; however, these molecules have not been specifically linked to
S. aureus biofilms and chronic wound inflammation.
Competing interests
We, the authors declare that we have no competing interests.
Authors’ contributions
AT participated in the design of experiments, carried out experiments for cell viability, cytokine and nitric oxide detection, and Transcriptional profiling, participated in the statistical analysis of the data, and drafted the manuscript. MBF participated in the design of the transcriptional profiling experiments, directed microarray analysis, and help draft the manuscript. MB performed microarray analysis. RB conceived the study and participated in its design and coordination, participated in the data analysis, and helped draft the manuscript. All authors read and approved the final manuscript.