- Open Access
Inhibition of pathogenic and spoilage bacteria by a novel biofilm-forming Lactobacillus isolate: a potential host for the expression of heterologous proteins
Microbial Cell Factories volume 14, Article number: 96 (2015)
Bacterial biofilms are a preferred mode of growth for many types of microorganisms in their natural environments. The ability of pathogens to integrate within a biofilm is pivotal to their survival. The possibility of biofilm formation in Lactobacillus communities is also important in various industrial and medical settings. Lactobacilli can eliminate the colonization of different pathogenic microorganisms. Alternatively, new opportunities are now arising with the rapidly expanding potential of lactic acid bacteria biofilms as bio-control agents against food-borne pathogens.
A new isolate Lactobacillus plantarum PA21 could form a strong biofilm in pure culture and in combination with several pathogenic and food-spoilage bacteria such as Salmonella enterica, Bacillus cereus, Pseudomonas fluorescens, and Aeromonas hydrophila. Exposure to Lb. plantarum PA21 significantly reduced the number of P. fluorescens, A. hydrophila and B. cereus cells in the biofilm over 2-, 4- and 6-day time periods. However, despite the reduction in S. enterica cells, this pathogen showed greater resistance in the presence of PA21 developed biofilm, either in the planktonic or biofilm phase. Lb. plantarum PA21 was also found to be able to constitutively express GFP when transformed with the expression vector pMG36e which harbors the gfp gene as a reporter demonstrating that the newly isolated strain can be used as host for genetic engineering.
In this study, we evaluate the ability of a new Lactobacillus isolate to form strong biofilm, which would provide the inhibitory effect against several spoilage and pathogenic bacteria. This new isolate has the potential to serve as a safe and effective cell factory for recombinant proteins.
Bacterial biofilms are a natural complex of microorganisms embedded in a protective slimy matrix composed of various types of polysaccharides, proteins, nucleic acids and lipids . The ability to form a biofilm is an important property for both pathogenic bacteria and bacteria used in diverse processes, such as fermentation and/or the preservation of food and feed. Biofilms are resistant to antimicrobial agents and present major challenges in the application of disinfectant treatments . The food industry faces serious challenges due to equipment impairment caused by metal corrosion in pipelines resulting from chemical and biological reactions by resident biofilms [3–5].
The adhesion capacity of food and water-borne pathogens, such as Salmonella spp., Bacillus cereus, Pseudomonas fluorescens and Aeromonas hydrophila, which develop biofilms in food-processing plants, lead to the transmission of diseases and decreased product shelf-life [6–10]. Some lactic acid bacteria (LAB) were discovered to have positive properties that could be used to control various types of pathogens and spoilage microorganisms [11, 12]. Lactic acid bacteria are well known as beneficial bacteria and include probiotic bacteria that have positive effects on the prevention of gastrointestinal related diseases improving digestion in lactose intolerants by alleviating it , preventing intestinal tract infections , reducing inflammatory or allergic reactions [15, 16], and easing the absorption of nutrients [17, 18]. Due to their health-promoting properties, LAB, particularly lactobacilli, are valued as candidates for cancer therapy, vaccine delivery, and immune-modulators .
The main feature of LAB, notably Lactobacillus, is their ability to ferment sugars leading to many organic acids production such as lactic, acetic and propionic acids as end products which provide an acidic environment unfavorable for the growth of many pathogenic and spoilage microorganisms . LAB are well adapted to live in low pH and high lactic acid environments [21, 22], and are therefore key players in fermented food ecosystems [23, 24]. The use of lactic acid bacteria and their metabolites is the most common and popular in methods of natural protection. In addition, biofilms are yet another protective agent formed by lactic acid bacteria. Current biofilm preventive strategies by Lactobacillus against pathogenic bacteria are essentially aimed with production of antimicrobial metabolites or inhibitory extracellular polymeric substance (EPS) surrounding the pathogenic bacteria. However, recent studies suggested that competition for adhesion sites and nutrients could also interfere with biofilm formation in pathogenic organisms, modulating Lactobacillus-pathogen interfaces . To date, few studies have addressed this issues in multispecies biofilm context; new information on Lactobacillus interactions with mixed biofilm communities is therefore needed.
Previously, it has been shown that biofilm formation and dispersal are regulated by several key regulatory proteins. These core proteins involved in the synthesis of adhesions and biofilm matrix components are evidently known, providing a tool for biofilm formation control . Engineering of even more efficient biofilm producers may be achieved by manipulating metabolic pathways via overexpression or down-regulation/knock-out of specific target proteins, which can mediate cell-to-cell interconnections or promote early biofilm formation and thereby bacterial survival.
As such, in the present study, apart from evaluating the effectiveness of the new Lactobacillus isolate with adhesive properties to inhibit several pathogenic and food-spoilage bacteria, we also verified the ability of this strain to function as a host for future genetic engineering work. This is anticipated to improve biofilm production in this strain and provide insights regarding different aspects of the adhesion process.
Identification of LAB species derived from Pandanus leaves
The combination of biochemical and Gram stain results led to the identification of several putative LAB. The rapid crystal violet microtiter plate adherence test showed that one of the isolates was more efficient in its attachment to the well surface of microtiter plates compared with the Lactobacillus. plantarum ATCC 14917 control strain. Based on the 16S rDNA gene sequences, the best biofilm producer was identified as Lb. plantarum and designated as Lb. plantarum PA21. The comparison of the 16s rDNA gene sequences differentiated Lb. plantarum PA21 from other major bacteria in the same genus. The phylogenetic tree based on 16s rDNA was constructed; relationships among top hits after BLASTN similarity searches were identified. The Lb. plantarum PA21 was found to be closely related to Lb. plantarum WCFS1 (Figure 1). The 16S rDNA sequence in this study was submitted to GenBank under the accession number JX244277.
Analysis of LAB biofilm formation
SEM allowed the visualization of biofilm surface structures with a three-dimensional appearance at very different resolutions (Figure 2) and has been reported as an indirect method to estimate bacteria in situ [26, 27]. The ability of the Lactobacillus isolate to form the biofilm was also determined at two different temperatures and classified based on temperature and aeration (Figure 3). The mean of the resultant optical density was significant after 3 days at 35°C under both aerobic (Figure 3a) and anaerobic (Figure 3b) conditions. A microtiter plate adherence test and the imaged biofilms showed that the newly isolated Lactobacillus could form a strong biofilm.
Antibiotic susceptibility test
The resistance of the new Lactobacillus isolate was scored via agar disc diffusion on MRS agar medium. The strain displayed phenotypic resistance, which is a general feature of this species (Table 1). Lb. plantarum PA21 was susceptible to β-lactam antibiotics, which include penicillin G. The isolate was also susceptible to erythromycin, chloramphenicol, bacitracin, clindamycin and tetracycline. In addition, it was resistant to quinolones (nalidixic acid), glycopeptides (vancomycin) and aminoglycosides, which include kanamycin and streptomycin.
Antipathogenic activity of LAB biofilms
The viable counts of S. enterica, B. cereus, P. fluorescens and A. hydrophila cells that survived in biofilm (Table 2) and planktonic forms (Table 3) in the presence of Lb. plantarum PA21 were observed after 2, 4 and 6 days without replenishing nutrient. The effects of three main factors, P = Pathogen, L = LAB, and T = Time, were analyzed in a factorial experiment with two or more levels for each factor: S. enterica, B. cereus, P. fluorescens and A. hydrophila for pathogens; Lb. plantarum PA21 for LAB; and 2, 4 and 6 days for time were selected as different levels to measure the response in various combinations of factors and levels (PL, PT, LT). The results indicated the factors that have the largest effect on the response and possible interactions between factors. Based on the relationship between the pathogens and time levels (PT), the number of biofilm and planktonic cells were lowest for B. cereus during the first 2 days, while these parameters were highest for S. enterica during the same period. The mean results identified a linear decrease in both the biofilm and planktonic forms for all pathogens in the presence of Lb. plantarum PA21. The PL, LT and PLT combinations indicate that the overall means of the growth rate were highest in the positive control; this finding confirmed the significant effect of Lb. plantarum PA21 in controlling pathogens in biofilm and planktonic forms. In the presence of PA21, the planktonic and biofilm cells of S. enterica persisted even after 6 days, albeit at reduced levels. The interaction between the three variables (PLT) also indicated that both S. enterica biofilm and planktonic cells were reduced after 6 days by 2.4 log in the adherent and 3.86 log in the planktonic culture, while the mean for Salmonella remained higher than the mean for all other pathogens present at the same time compared to the control (p ≤ 0.01). The numbers of P. fluorescens, A. hydrophila and B. cereus cells in the biofilm were reduced on the second day of incubation by 1.7 log, 2.2 log and 5.9 log (p ≤ 0.01), respectively, and not detectable at the end of the experiments.
To better characterize the inhibitory effect of PA21 biofilm, the viable counts of pathogen cells were also measured in the absence of PA21 biofilm structure, using only PA21 planktonic cells (Table 4). While PA21biofilm was not structured, it has become apparent that viable cell counts of P. fluorescens, A. hydrophila and S. enterica cells were also reduced in 2 days of incubation in mixed bacterial cultures by 3.4, 3.0 and 1.9 log (p ≤ 0.01) respectively; however, pathogen cells showed considerably lower numbers when co-cultured with formed PA21biofilm cells in the same time period except for B. cereus. Together, these results determined how the structured environment of PA21 biofilm would alter inhibitory effect on the growth of pathogens cultures.
LAB biofilm maturation and dispersal
When considering the competitive-inhibition of Lb. plantarum PA21 and different pathogens, the cells density of Lb. plantarum PA21 needs to be determined in the period of biofilm maturation as well as by co-culture experiments. The direct comparison of the adhesion ability of tested Lactobacillus was possible when using quantitative analyses to assess the relative biofilm densities. Prior to adding pathogens, the viable cell counts (log CFU) positively correlated with the days of incubation from day 1 to 4, which indicated that a Lb. plantarum PA21 biofilm formed. The Lb. plantarum PA21 cell counts analyses (CFU/cm2) revealed the highest biofilm cell density after 4 days of culture (Figure 4). A slight decrease in the viable cell count was observed in 6-day-old biofilm cells. On the contrary, the lowest and the largest numbers of planktonic cells were observed after 4 and 6 days, respectively. As the biofilm ages, the attached bacteria must be able to detach and disperse from the biofilm in order to survive and colonize new niches.
The recovery (CFU) of Lactobacillus biofilm cells in combination with each of the above-mentioned pathogens was also calculated. Because the Lb. plantarum PA21 biofilm contributed to reducing the growth of pathogens, we sought to determine the major impact on the mean values of Lb. plantarum PA21 biofilm and planktonic cells by these pathogens compared to the PA21 negative control. After 2 days of incubation, all of the pathogens tested appeared to exert almost no effect on the biofilm log reduction of Lb. plantarum PA21, except for B. cereus (Figure 5a). The number of cells in the Lactobacillus biofilm, which was initially 9 × 107 CFU/cm2, was reduced by 1.77 log in the presence of B. cereus. The number of biofilm cells gradually decreased over time, and the maximum reduction of 3.2 log was registered in the presence of B. cereus for 6-day-old biofilm. Within this interval, P. fluorescens exerted the smallest effect on Lactobacillus biofilm cells with only a 1.7 log reduction.
The differences in the response to various pathogens in biofilm-derived planktonic cells are also shown in Figure 5b. For PA21planktonic cells that were shed from biofilm, a similar trend was found in the presence of P. fluorescens and B. cereus, i.e., decreasing mean values at the end of the experiments compared to the first 2 days by 1.4 and 1.0 log, respectively. Interestingly, the trend for the bacterial densities (CFU/ml) in planktonic form was not consistent in the presence of biofilm cultures of S. enterica and A. hydrophila. The highest and lowest cell counts were observed after 4 days of incubation for S. enterica, and A. hydrophila, respectively, although the mean survival values of planktonic cells in the first 2 days and at the end of experiments were almost the same.
Moreover, the viability of wild-type PA21 planktonic cells that had not adhered to a surface was also compared with planktonic cells yielded from biofilm in mixed culture with spoilage and pathogenic bacteria. The obtained results showed greater numbers at day 2, while they were gradually decreased over 6 days starvation. The lowest number of planktonic cells was observed at day 6 in the presence of B. cereus. Comparison of viable cell counts results suggested that the survival values of planktonic cells were significantly lower in the absence of structured PA21 biofilm (Figure 5c).
Effect of antimicrobial metabolites
Lactobacilli reveal different antimicrobial mechanisms which can be shown through in vitro assays. The antimicrobial activity in liquid media is favored by rapidly diffusing antimicrobial compounds including organic acids and bacteriocins . In the present study no inhibitory effect of bacteriocin was observed against the pathogens and spoilage bacteria previously listed (data not shown).
In order to illustrate the possible influence of organic acid, a pH measurement was required. The new isolate produced a low content of lactic acid of 0.5 g/L in overnight culture, while acetate production was approximately 0.28 g/L. During the production of organic acids, the pH in the fermentation broth gradually decreased to 3.51 ± 0.02 in the first 2 days of biofilm development and it was constant during 7 days biofilm maturation. Interestingly, pH values lower than those in the control were found in the first 2 days of exposing Lb. plantarum PA21 biofilm to all of the above-mentioned pathogens except B. cereus. In addition, a pH level above 8 was observed after 6 days of incubation in the presence of S. enterica (Figure 6). The same pH patterns were observed within all above mentioned- pathogens in the absence of PA21biofilm (data not shown).
Verification of Lb. plantarum transformants
The total DNA isolation of Lb. plantarum PA21 compared to the control strain Lb. plantarum ATCC 14917 showed that the strain was devoid of the low molecular weight plasmid (results not shown). Based on the plasmid bands extracted from Lb. plantarum PA21 transformants, this new host can carry and replicate pMG36e containing the GFP insert without any indication of possible incompatibility. GFP gene could be retrieved from the digested recombinant plasmid pMG36e-GFP.
To calculate the generation time, the growth curves were obtained and viability plating was performed, and revealed a 48-min doubling time for Lb. plantarum PA21 carrying pMG36e-GFP. PA21 transformants carrying Emr on plasmid pMG36e were grown for 100 generations without antibiotic selection. After 100 generations without selective pressure, the number of viable cells growing on medium containing erythromycin suggested that the gfp-marked plasmid was 100% stable in Lb. plantarum PA21.
Expression of heterologous protein
The GFP expression plasmid was constructed by placing the gfp gene downstream of the constitutive promoter P32 and propagating the resultant plasmid within Lb. plantarum PA21. The plasmid was extracted, purified and digested to confirm the presence of the insert (GFP) by comparing the size differences of the linearized plasmid. A comparison of the PCR method and double digestion of the recombinant plasmid indicated the presence of the inserted DNA fragment. GFP expression was confirmed by the presence of a 27-kDa protein band on the blotting membrane following SDS-PAGE and western blot (Figure 7).
This study aimed to select an isolate of Lactobacillus spp. from the leaves of Pandanus amaryllifolius with the potential for biofilm development to inhibit various types of food-borne spoilage and pathogenic bacteria. The applicability and usefulness of the newly isolated strain, denoted as Lb. plantarum PA21, were extended via its capacity to express heterologous protein. The imaged biofilms and cell count results showed differences during the biofilm maturation periods. The ability of bacteria to adhere to the abiotic surface in plastic microtiter plates was measured using a conventional biofilm assay. The method offers some advantages compared to the study of biofilm formation in flow cells, which is an alternative widely used method. Watnick and Kotler  showed that the microtiter plate assay can be utilized to distinguish true biofilm formation similar to the biofilm grown in flow cells. This method appeared attractive for obtaining quantitative results based on CFU and optical density.
Previous study has shown that the ability of bacteria to integrate within a biofilm is basic to their survival. Importantly, the temperature, availability of nutrients, pH level, contact time of the bacteria with the surface, growth stage, and surface hydrophobicity can affect the development of biofilm . Biofilm formation by Lb. plantarum PA21 was measured at 30°C and subsequently enhanced by increasing the temperature to 35°C. Higher temperatures have been suggested to increase the initial adherence of LAB cells by promoting the generation and secretion of extracellular polymeric substances, which increases the biofilm density . The plating of Lb. plantarum PA21 biofilm cultures demonstrated no significant change in the adherent population after 4 days of incubation, suggesting that the new isolate could form a mature biofilm after 4 days.
In the natural environment and in the presence of other bacteria, 95–99% of microorganisms show biofilm-forming capabilities. Numerous studies have reported that pathogens may be protected when living in association with other strains in a mixed biofilm . In some food related environments, when a planktonically grown pathogen lands on a surface, it encounters the interface of a resident biofilm rather than a sterile material. LAB were reported to be good candidates to settle protective positive biofilms on food processing environment, a key role in controlling colonization by competitive interactions with food pathogens [11, 32]. The presence of Listeria monocytogenes in the biofilm on the surfaces of food-processing plants was controlled by bacteriocin-producing Lactococcus lactis, suggesting that LAB can be used as a “house microflora” to suppress the establishment of enteropathogens in a food-processing environment . Based on known facts about LAB biofilm and its behavior, the concept of “protective cultures” is a broad one and is not strictly related to the production of bacteriocins and organic acids, whose antimicrobial action is well known. Competition of protective cultures with potential pathogens is another major contributor to eliminate the primary localization of undesired organisms on the surface.
To assess the inhibition spectrum of strain PA21, a biofilm study was carried out to determine the ability of PA21 to form a biofilm in response to various types of pathogens. For this purpose, a 6- to 7-day period allowed the new isolate to grow and mature into a biofilm . The cell count results over 7 days of biofilm maturation demonstrated that the adhesion capability of Lb. plantarum PA21 was high, which can be utilized to protect surfaces during maturation. Viability of Lactobacillus isolate in a dual-species culture with pathogen species revealed strong biofilm during the first 2 days. Furthermore, there appeared to be a shift in the PA21 biofilm pattern from strong to moderate after 2 days and this may probably be due to a combination of factors, including inhibition of the growth stage, nutrient depletion and activity of either organism on the other.
Along with PA21 adherence pattern, the positive effect of this strain was also important for control or inhibition biofilm formation by pathogenic organisms. When the pathogens were challenged with PA21 for adhered and planktonic cells, the decrease in viable counts was strongly correlated with the presence or absence of PA21 biofilm. Due to Lb. plantarum PA21’s remarkable ability to inhibit the growth of pathogens, the viable counts of A. hydrophila, P. fluorescens and B. cereus biofilm cells were significantly reduced in the first 2 days, and no countable cells were detected at the end of the experiments, although S. enterica was able to survive in the presence of Lb. plantarum PA21 during 6 days compared to A. hydrophila and P. fluorescens. These differences were possibly attributed to S. enterica either having better carbon and nitrogen metabolism under nutrient-limited condition, or activating tolerance response to acid stress in order to survive multiple detrimental environmental factors . Moreover, in the presence of Salmonella, the endpoint of the 6 days incubation was the production of an alkaline pH. As previously observed, Salmonella rapidly metabolized glucose; as glucose depletes, the peptones (amino acids) are aerobically utilized as an energy source. Utilization of peptones causes the release of ammonia (NH3) resulting in the alkaline pH . Salmonella spp. may also increase their internal pH when they are exposed to a lethal pH challenge. Álvarez-Ordóñez et al.  demonstrated that Salmonella spp. can cope with the acid challenges encountered in various ecological niches, such as the environment in food processing plants and the gastrointestinal tract, via the log-phase and stationary-phase adaptive acid tolerance response (ATR) when organic acid is used. A potential ATR has also been proven in Aeromonas subjected to a low pH similar to that exhibited in some important enteric pathogens, including Salmonella enterica serovar Typhimurium and E. coli. San Jose et al.  reported that in addition to utilizable C and N sources, Pseudomonas can use lactic acid as a source of carbon and energy during biofilm formation while interacting with Lactococcus lactis subsp. cremoris. They can also obtain additional nutrients from the autolysis of lactococci [38, 39]. However, acid tolerance may be strain dependent and this may explain the differences between the planktonic and biofilm populations of S. enterica, A. hydrophila and P. fluorescens in the present of PA21 during 6 days incubation.
B. cereus was also found capable of producing alkaline pH for the first 2 days. B. cereus was grown in nutrient broth composed of a simple peptone and a beef extract. Peptone contributes organic nitrogen in the form of amino acids; alkaline pH was likely due to the formation of ammonium from ammonia resulting in an elevation of the pH from acidic pH, and/or availability of nitrogen . B. cereus was only detected in the planktonic form on day 2, after which it could no longer be cultured. Interestingly, at the same time, the lowest number of PA21 biofilm cells was also detected in co-culture with B. cereus. B. cereus can use enzymes, such as amylase and protease, as a defense to break down existing biofilm instead of only killing planktonic organisms . Notably, most bacillus proteases are active in a neutral or alkaline pH .
To determine the feasibility of using Lactobacillus as recombinant host for biological control strategies against different food-borne pathogens, it must be able to express genes of interest under inducible or constitutive expression systems . It has been brought to light that quorum sensing (QS) is a chemical signaling systems that control biofilm formation in bacteria . Quorum sensing is a cell density-dependent signaling system that coordinates many bacterial activities through small signal molecules known as autoinducers (AI). Many of the QS regulated microbial activities are involved in food spoilage and survival of pathogens within the food matrix. Proteomic analysis revealed that Lactobacillus acidophilus downregulates biofilm formation by reducing the AI-2 activity of E. coli O157:H7 . Interventions targeting bacterial QS in food are currently largely unexplored. Biocontrol strategies that exploit bacterial QS provide an opportunity to alter microbial activity such that survival of targeted microorganism is unlikely. This property can be enhanced with the help of genetic engineering as several key proteins have been shown to block QS by degrading the signal, signal analogues and signal antagonist .
To accomplish this goal, verification of PA21 as an expression host was performed. Plasmid pMG36e, carrying the gfp gene under the control of the constitutive p23 promoter, was successfully transformed into the Lb. plantarum PA21 without any signs of incompatibility. Successful expression of GFP as a reporter was evaluated by Western blotting. The stability of pMG36e-gfp in Lb. plantarum PA21, without antibiotic selection, was monitored over 100 generations of growth in MRS broth medium to ensure the ability of the cells to harbor the plasmid. No loss of the plasmid was observed over this period, indicating very high stability. With this, it was shown that PA21 could potentially be used as a genetic modification tool, and represents an ideal candidate to design novel strategies for biological control of various pathogens specifically in the biofilm mode of growth.
These results support the conclusions that Lb. plantarum PA21, a very potent biofilm producer provided specific local micro-environments which were favorable to some pathogen or spoilage microorganisms. Expression of GFP as a reporter allowed us to identify the strain with the potential to express heterologous proteins of interest. The results presented here can be used to support the studies aimed at developing new protective cultures with novel, existing or new combinations of genes, whose specific properties would devise ways in eliminating undesirable biofilm.
Isolation and identification of lactic acid bacteria
The Lactobacillus used in this study was isolated using standard microbiological procedures from the tropical plant P. amaryllifolius, which is commonly used in Southeast Asian cuisines . The fermentation of 49 sugars and poly-alcohols (control) was carried out using the API 50 CHL kit (BioMérieux, Montalieu—Vercieu, France) incubated at 30°C. A rapid microtiter plate adherence test  was used to identify biofilm forming lactobacilli. Each well contained 2 ml of MRS broth (24-well microtiter plate; Nunc, Denmark) with 2% (v/v) inoculum of an overnight isolated culture that was incubated aerobically at 30°C for 1–2 days. After incubation, 500 µl of 0.21% (w/v) crystal violet staining solution (Fisher scientific Inc. USA) was added to each well and incubated at room temperature for 10 min. Microtiter plate wells were rinsed with 2 ml distilled water to remove unattached cells and residual dye.
Determination of organic acid concentration
Three independent cultures of locally isolated Lactobacillus were used to determine the lactate and acetate concentration. For each sample, 1 ml of culture was centrifuged to harvest the cells, and the supernatant was collected. The glucose and lactate concentrations were measured with a Pico TRACE glucose-lactate analyzer (Trace analytics, Germany) according to the manufacturer’s protocol. The acetate concentration was determined using an Acetic Acid kit (Boehringer Mannheim/R-biopharm). The manufacturer-supplied standards were used as controls.
Bacterial strains, plasmids and standard genetic manipulation techniques
The reference Lb. plantarum subsp. plantarum ATCC 14917  and new isolate were grown in MRS agar and MRS broth (pH = 6.5 ± 0.2) (Merck, Germany) at 35°C without shaking under aerobic conditions for 1–3 days. Pure cultures of Salmonella enterica (Institute for Medical Research, Malaysia), Bacillus cereus (Institute for Medical Research, Malaysia), Pseudomonas fluorescens ATCC 13525 and Aeromonas hydrophila ATCC 7965 were chosen as representative Gram-positive and Gram-negative food-borne pathogenic and spoilage bacteria. S. enterica, P. fluorescens and A. hydrophila were cultured in tryptic soy agar or broth (pH: 7.3 ± 0.2) (Merck, Germany) and B. cereus in nutrient agar or broth (pH: 7.0) (Merck, Germany). All strains were maintained as stock cultures at −80°C in the respective cultivation broth containing 20% (v/v) glycerol (Merck, Germany).
All cloning steps were conducted according to standard procedures as described previously . Escherichia coli TOP10 (Invitrogen) was grown at 37°C in Luria–Bertani (LB) broth with vigorous shaking at 200 rpm. PCR reactions were performed in a PCR Master Cycler (Eppendorf, Germany) with Pfu DNA polymerase (Promega Corp., Madison, WI, USA), as recommended by the polymerase supplier. E. coli-Lactobacillus shuttle vector pMG36e (generously gifted by Prof. Dr. Kees Leenhouts) and pGEM-T easy vector (Promega Co., USA) were used for protein expression and the cloning of PCR products, respectively. Chemically competent E. coli TOP 10 was transformed using the protocol provided by the supplier. Lactobacilli were transformed according to the protocol of Teresa et al. . Ampicillin and erythromycin were added to final concentrations of 150, and 5 μg/ml, respectively. E. coli recombinants were screened by the addition of 0.004% (w/v) of 5-bromo-4-chloro-3-indolylb-d-galactopyranoside (X-gal), while the Lb. plantarum transformants were screened based on the erythromycin resistance selection marker. Plasmid DNA from E. coli and lactobacilli was isolated using a High Yield Plasmid Mini kit (Yeastern Biotech Co., Taiwan). DNA was extracted and purified from agarose gels using the Wizard SV Gel and PCR Clean-Up System kit (Promega Co., USA). The total genomic DNA was extracted and purified with Master Pure Gram Positive DNA purification kit (Epicentre Biotechnologies., USA). All PCR-derived DNA fragments were sequenced using the ABI 3730XL DNA analyzer (Bioneer Co., Korea).
The16S rDNA gene fragment was amplified from total genomic DNA using conserved primers 16sF-GCG GCG TGC CTA ATA CAT GC and 16sR -ATC TAC GCA TTT CAC CGC TAC close to the 3′ and 5′ ends .The PCR products of the 16s rDNA were purified and ligated into pGEM-T easy vector and then transformed to TOP10 chemically competent E. coli. All cloning steps and plasmid DNA isolation were conducted according to standard procedures as described previously.
The pGEM-T vector containing 16s rDNA regions of the LAB were extracted and sequenced using the ABI 3730XL DNA analyzer (Bioneer Co., Korea). Sequence similarity and database searches of DNA sequences or DNA-derived protein sequences were carried out using the BLASTN, BLASTP and BLASTX programs at the National Center for Biotechnology Information (http://www.ncbi.nlm.nih.gov/) . The relationship between the bacterial strains was further analyzed with a phylogenetic tree using the MEGA 4.1. Program . For phylogenetic analysis, multiple alignments of protein or nucleotide sequences were constructed using the program MAFFT 6.0  and edited using BioEdit . Trees were constructed based on the neighbor-joining method.
Antibiotic susceptibility test
Pure culture colonies of lactobacilli were inoculated in MRS broth at 35°C for 24 h. The Lactobacillus strains were subcultured on MRS agar plates with sterile cotton swabs and allowed to air-dry. The susceptibility pattern to 10 antibiotics (Table 1) was assessed using the agar-disc diffusion method with minor modification including the relevant quality control strain . The antibiotic discs (Oxoid) were placed on the agar, and the cultures were incubated at 37°C overnight. The diameter of the inhibition zone surrounding the antibiotic discs was measured. The test was carried out twice independently, and the average of the inhibition zone diameters was calculated. A plate containing only MRS was spread in tandem with the same overnight culture for a controlled comparison.
Biofilm growth study
The assay to grow and quantitate Lactobacillus biofilm was prepared in 96-well microtiter plates (Nunc 96-well polystyrene microtiter plates, Denmark) under various environmental conditions, including variations in temperature and incubation time with the method of O’Toole et al. , which has been used for several other bacterial species. Scanning Electron Microscopy (SEM) was employed to capture biofilm cells grown on glass coverslips (12 mm diameter; Electron Microscopy Science, Hatfield, PA, USA) according to the method of Sturme et al.  with some modifications. Biofilms formed on glass coverslips were rinsed and fixed in 4% (w/v) glutaraldehyde for 12–24 h at 4°C. The fixed bacteria were rinsed three times for 10 min in 0.1 M sodium cacodylate buffer, then post fixed in 1% (w/v) osmium tetroxide at 4 °C. The coverslips were washed again with 0.1 M sodium cacodylate buffer for 3× of 10 min each and then dehydrated using acetone solutions of 35% (v/v), 50% (v/v), 75% (v/v), and 95% (v/v) for 10 min each and 100% (v/v) for three 15-min periods. To observe planktonic cells, bacterial cells grown in suspensions were subjected to same methods as those in the biofilm before being transferred to an Isopore 0.2-μm membrane filter (Millipore, USA). After critical point drying, the biofilms and dehydrated cells were sputter-coated with gold. Images were taken with an S4300SE/N scanning electron microscope (Philips XL30 ESEM, Institute Bioscience, UPM).
Antimicrobial activity of LAB biofilms
The antibacterial effects of the LAB biofilm on the early development of food spoilage and pathogens were investigated according to the method of Guerrieri et al. . The cells were grown in MRS broth and centrifuged at 2,900×g for 20 min at 4°C. The supernatant was removed, and the pellets were re-suspended in 5 ml of fresh MRS broth. After three washes, the final suspensions were diluted to a concentration of approximately 106 CFU/ml. Biofilms were grown using 12-well microtiter plates. Two milliliters of Lb. plantarum PA21 suspensions in MRS broth were inoculated in each well and incubated for 7 days at 30°C to allow the adhesion and formation of mature biofilm in the well. Fifty percent of the growth medium was replaced with fresh broth every 48 h. After 7 days, the suspensions were removed, and the wells were washed three times with 1 ml of sterile saline solution (NaCl 0.85% w/v). A total of 2 ml of overnight cultures of S. enterica, B. cereus, P. fluorescens and A. hydrophila in their respective growth media were added to yield a final bacterial count of approximately 106 CFU/ml and incubation continued for 6 days. For the planktonic bacterial enumeration, serial tenfold dilutions were spread on MRS agar plates for specific growth of PA21, on triptic soy agar plates for specific growth of S. enterica, P. fluorescens and A. hydrophila and nutrient agar plates for specific growth of B. cereus under the appropriate culture conditions [11, 60]. At the same time, the pH of suspension was determined using a Sartorius pH meter (Sartorius Ltd, Germany). Three wells incubated with each pathogen were washed three times before the biofilm was scraped off to evaluate the viable counts of microorganisms adhered to the biofilm. Serial tenfold dilutions were spread on agar plates and incubated using the same procedure. An additional control consisting of mixed cultures of PA21 and pathogens in the absence of Lactobacillus biofilm was also conducted to gain further insight into the importance of PA21 biofilm. Cell viabilities were assessed in three independent biological experiments.
Generation of GFP construct
To construct pMG36e-GFP, a 717 bp DNA fragment encoding for GFP protein was amplified by PCR amplification using the primers FGFP (AGAGCTCCGATGAGTAAAGGCGA) and RGFP (CCAAGCTTTTATTTGTAT-AGTTCATCC), which correspond to the gfp sequence from plasmid BL21 (DE3) pLysS pet 32b(+) GFP (obtained from Microbial Biotech Laboratory, UPM). The primers included SacI and HindIII restriction sites on the ends to facilitate cloning. The amplified fragments were then cloned into pMG36e following digestion with the same enzymes to construct the expression vector pMG36e-GFP. The ligation mixture was transformed in Lb. plantarum PA21 competent cells, and Erm-resistant colonies were subjected to colony PCR with oligonucleotides that flank the pMG36e multiple cloning site. Insertion was verified by restriction digest analysis, and the integrity of the sequence was confirmed by sequence analysis.
To test the stability of a plasmid under non-selective conditions, an overnight culture of Lb. plantarum PA21 harboring pMG36e-gfp was diluted (1:100) in MRS broth. The growth phases for Lb. plantarum PA21 carrying pMG36e-gfp were confirmed by calibrating the OD600 nm readings against CFU counts and the doubling time was calculated. The stability of the plasmid was tested based on a previously described method  with some modifications. Based on the number of generations in 24 h, the cells were maintained in the exponential phase for more than 100 generations. A volume of 100 μl of overnight culture of Lb. plantarum PA21 harboring pMG36e-gfp was inoculated into 100 ml MRS broth in the absence of antibiotic until 100 generations were achieved. Plasmid survival was assessed by comparing duplicate colony counts at the end of each 20-generations period on selective and non-selective plates. The percentage of plasmid stability was determined as the percentage of Erm-resistant colonies relative to the total number of viable colonies.
Western blot analysis
An overnight culture of Lb. plantarum PA21 harboring pMG36e-gfp was diluted (1:40) in MRS medium supplemented with erythromycin, grown to an early-exponential phase (OD600= 0.7) and harvested for protein analysis. Soluble protein extracts were collected following a procedure by Koistien et al. . The proteins were quantified using the Bradford method. Western blot analysis was performed with a SDS-PAGE electrophoresis system using primary antibody (Anti-GFP Rabbit pAb; Calbiochem) diluted 1:2,000 in 0.01% (v/v) Tris-Buffered Saline Tween-20 (TBST) . Nitrocellulose was then washed 4 times in 0.01% (v/v) TBST, and incubated with secondary antibody (Goat Anti-Rabbit IgG Alkaline phosphatase; Calbiochem) at a dilution rate of 1:5,000 in 0.01% (v/v) TBST for 2 h, washed again and developed.
The investigations in this study were conducted as factorial experiments based on CRD (Completely randomized design). Three replicates were prepared for each biofilm and planktonic sample. The means were compared using Duncan’s Multiple Range Test (DMRT). The statistical analysis was performed using the SAS 9.2 software. All tests were carried out at confidence level 0.01.
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TJ carried out the microbiology and molecular genetic studies, acquisition of data, analysis and interpretation of data. AB participated in molecular genetic studies and western blot detection. AAS participated in sequence alignment and drafted the manuscript. HLF participated in study design, coordination and helped to draft the manuscript. SM carried out biofilm study, and participated in its design. WZS participated in microbiology studies and data analysis. KY was involved in data analysis, drafting the manuscript and revising it for important intellectual content. RAR was involved in conceiving the study, acquisition of funding, supervision of research, drafting and revising the manuscript. All authors read and approved the final manuscript.
The authors acknowledge the support provided by the Universiti Putra Malaysia and the Ministry of Education (Malaysia) under grant No. 02-02-13-1249 FR. The authors would like to thank Prof. Dr. Kees Leenhouts for pMG36e and Mr. Mahmood Danaee for his assistance in portions of the statistical analysis.
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Competing interests The authors declare that they have no competing interests.
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Jalilsood, T., Baradaran, A., Song, A.AL. et al. Inhibition of pathogenic and spoilage bacteria by a novel biofilm-forming Lactobacillus isolate: a potential host for the expression of heterologous proteins. Microb Cell Fact 14, 96 (2015). https://doi.org/10.1186/s12934-015-0283-8
- Lactobacillus plantarum
- Food-borne pathogens
- Microbial cell factory