Use of mini-antibodies for detection of bacteriophages by the electroaucoustic analysis method

The possibility of detecting bacteriophages using phage mini-antibodies by the electroacoustic analysis method using bacteriophages FA1-59b was shown. It was found that the frequency dependence of the real and imaginary parts of the electrical impedance of a resonator with a suspension of phages and the appropriate antibodies significantly differs from that of the resonator with a control virus suspension without addition of mini-antibodies. The amount of FAl-Sp59b bacteriophage in the analyzed suspension varied from ~10¹⁰ to 10⁶ phage/mL; the analysis did not take longer than 5 min. The change in the real or imaginary parts of the electrical impedance at the fixed frequency near the resonance after addition of specific mini-antibodies in the suspension appeared to be an optimal information parameter to obtain reliable information. These results may allow the development of a biological sensor to identify and quantify viruses in the liquid phase.     

Application of the method of electro-acoustical analysis for the detection of bacteriophages in a liquid phase

The possibility of the application of electro-acoustic analysis for the detection of bacteriophages was demonstrated for the first time based on the example of the interaction of the FA1-Sp59b bacteriophage with bacterial cells of the strain Azospirillum lipoferum Sp59b. Piezoelectric cross-field resonators with a 1-mL chamber for analyzed liquid were used as the biological sensor. It was revealed that the dependences of the real and imaginary parts of the electrical impedance of the resonator loaded with a suspension of viruses and microbial cells on the frequency was significantly different from those dependences of the resonator that contained a control cell suspension without the virus. It was shown that detection of the FA1-Sp59b bacteriophage using microbial cells was possible with both extraneous viral particles and extraneous microbial cells. The proposed method allows one to accurately determine the type of identified virus after a 5-minute interaction with indicating bacterial culture. As well, the minimum concentration of viruses is five virus particles per cell. These results as a whole demonstrate the possibility of detecting specific interactions of bacteriophages with microbial cells and provide a basis for the development of a biological sensor for the quantitative detection of viruses directly in the liquid phase.     

Investigation of specific interactions between microbial cells and polyclonal antibodies using a resonator with lateral electric field

The interaction between polyclonal antibodies and Azospirillum brasilense Sp7 cells was studied using a resonator with lateral electric field. To this end, specific polyclonal rabbit antibodies against the O-antigen epitopes of the strain A. brasilense Sp7 were obtained and the possibility of their application for detection of microbial cells using a piezoelectric resonator with lateral electric field was shown. It was established that frequency dependences of the real and imaginary parts of electrical impedance of such a resonator loaded with the suspension of A. brasilense Sp7 cells and antibodies substantially differed from those of the resonator with the control suspension of cells without antibodies. It was shown that the obtained antibodies interacted with azospirilla cells, and the marker was accumulated all over the cell surface. The limit of possible detection of microbial cells during their interaction with antibodies was found to be 10⁴ cells/mL. Detection of A. brasilense Sp7 cells using antibodies proved to be possible in the presence of foreign bacteria. The presented results demonstrate the possibility of recording the interaction between microbial cells and antibodies and developing a biosensor for quantitative detection of microbial cells.     

Biosensor for the detection of bacteriophages based on a super-high-frequency resonator

Azospirillum lipoferum Sp59b microbial cells were immobilized on the surface of thin polystyrene films modified in plasma from a high-frequency discharge of argon (13.56 MHz). The optimal conditions for immobilization, under which cell activity was maintained with respect to specific bacteriophages, were established. It was shown that it is possible to record the interaction of immobilized microbial cells and bacteriophages with a microwave-based resonant system (5–8.5 GHz). It was found that the biosensor made it possible to distinguish the interaction of bacterial cells with specific bacteriophages from the control, in which such interaction was absent. With the obtained super-high-frequency sensor, it was possible to determine the content of ΦAl-Sp59b bacteriophages in a suspension containing ~106 phages/mL. The analysis time was about 10 min. The viability of microbial cells after immobilization was also determined with this sensor. The results obtained with the use of the sensor on the basis of a super-high-frequency resonator have shown that it is promising for the development of methods to determine viral particles and the viability of microbial cells.     

Obtaining phage mini-antibodies and using them for detection of microbial cells with an electroacoustic sensor

Phage mini-antibodies to bacterial cells of strain Azospirillum brasilense Sp245 were obtained, and the possibility of using them for detection of microbial cells with a lateral field excited piezoelectric resonator was studied. It has been found that the frequency dependences of the real and imaginary parts of electrical impedance of such a resonator loaded with a suspension of A. brasilense Sp245 cells with the mini-antibodies differ significantly from the dependences of the resonator with a control cell suspension without mini-anti-bodies. The limit of possible determination of the concentration of microbial cells is found to be 10³ cells/mL upon interaction with mini-antibodies. It has been ascertained that detection of A. brasilense Sp245 cells with the aid of mini-antibodies is possible even in the presence of other cultures, for example, E. coli BL-Ril and A. brasilense Sp7. Therefore, it has been shown for the first time that detection of microbial cells with an electroacoustic sensor is feasible.     

An Electroacoustic Analysis for Determining the Effect of Amoxicillin on Microbial Cells

The probability of determining the effects of amoxicillin, which is one of β-lactam antibiotics, on microbial cells of Escherichia coli by the electroacoustic analysis method was shown for the first time. A piezoelectric resonator with a lateral electric field with a 1-mL liquid container was used as a biological sensor. It has been established that in the presence of amoxicillin the frequency dependence of the real and imaginary parts of the electrical impedance of a resonator loaded with a suspension of sensitive cells differs significantly from those of the resonator with a control of a microbial cell suspension without an antibiotic. When the resonator is loaded with the amoxicillin-resistant cell suspension, these dependencies are virtually the same. These results open prospects for the use of electroacoustic analysis methods to register the effect of β-lactam antibiotics on microbial cells and evaluate their antibacterial activity.     

Obtaining the phage mini-antibodies and their use for detection of microbial cells by using an electro-acoustic sensor

The phage mini-antibodies to bacterial cells of strain Azospirillum brasilense Sp245 were obtained and the possibility of using them for detection of microbial cells by means of a lateral field excited piezoelectric resonator was studied. It has been found that the frequency dependencies of the real and imaginary parts of the electrical impedance of the resonator loaded by the cell suspension A. brasilense Sp245 with the mini-antibodies, significantly differ from those of the resonator with the control cell suspension without mini-antibodies. The concentration limit of possible determination of the microbial cells in their interaction with the mini-antibodies is equal to 10(3) cells/ml. It has been ascertained that detection of A. brasilense Sp245 cells using the mini-antibodies is possible even in the presence of other cultures, for example, E. coli BL-Ril and A. brasilense Sp7 cells. Therefore, it has been shown for the first time that detection of microbial cells by an electro-acoustic sensor is feasible.     

An acoustic method for the analysis of bacterial cells

The application of a biological electroacoustic sensor based on a lateral electric-field-excited piezoelectric resonator for the study of bacterial cells that interact with specific bacteriophages, mini-antibodies, and polyclonal antibodies was successfully demonstrated. The determined lower limit of microbialcell detection was approximately of 10³ to 10⁴ cells/mL for the duration of the assay of 10 min. The possibility of bacterial-cell detection via interaction with specific agents in the presence of extraneous microbiota was shown. The method allowed us to determine the spectrum of lytic activity of bacteriophages and the sensitivity of microbial cells to bacteriophages. The results of the study showed that application of a sensor piezoelectric lateral-field resonator is a promising technique for the detection and identification of microbial cells and determination of their phage resistance in microbiology, medicine, and veterinary medicine. Furthermore, the results of the experiments made it possible to understand the mechanisms of the processes that occur in a suspension of bacterial cells in the presence of various biological agents. The method also may provide useful information regarding biophysical mechanisms of interactions that occur in microbial populations.     

Development and validation of a qPCR‐based method for quantifying Shiga toxin‐encoding and other lambdoid bacteriophages

To address whether seasonal variability exists among Shiga toxin‐encoding bacteriophage (Stx phage) numbers on a cattle farm, conventional plaque assay was performed on water samples collected over a 17 month period. Distinct seasonal variation in bacteriophage numbers was evident, peaking between June and August. Removal of cattle from the pasture precipitated a reduction in bacteriophage numbers, and during the winter months, no bacteriophage infecting Escherichia coli were detected, a surprising occurrence considering that 10³¹ tailed‐bacteriophages are estimated to populate the globe. To address this discrepancy a culture‐independent method based on quantitative PCR was developed. Primers targeting the Q gene and stx genes were designed that accurately and discriminately quantified artificial mixed lambdoid bacteriophage populations. Application of these primer sets to water samples possessing no detectable phages by plaque assay, demonstrated that the number of lambdoid bacteriophage ranged from 4.7 × 10⁴ to 6.5 × 10⁶ ml^?1, with one in 10³ free lambdoid bacteriophages carrying a Shiga toxin operon (stx). Specific molecular biological tools and discriminatory gene targets have enabled virus populations in the natural environment to be enumerated and similar strategies could replace existing propagation‐dependent techniques, which grossly underestimate the abundance of viral entities.     

In vitro lung delivery of bacteriophages KS4‐M and ΦKZ using dry powder inhalers for treatment of Burkholderia cepacia complex and Pseudomonas aeruginosa infections in cystic fibrosis

Aims: To determine the feasibility of formulating and aerosolizing powders containing bacteriophages KS4‐M and ΦKZ for lung delivery and treatment of pulmonary Burkholderia cepacia complex and Pseudomonas aeruginosa infections. Methods and Results: Endotoxin‐removed bacteriophages KS4‐M and ΦKZ were lyophilized in lactose/lactoferrin 60 : 40 w/w matrix and deagglomerated in a mixer mill (without beads) to formulate respirable powders. The powders were then aerosolized using an Aerolizer^® capsule inhaler. Mass median aerodynamic diameter (MMAD) of this inhalable aerosol was determined using Andersen cascade impactor at 60 l min^?1. Measured MMAD for both types of powders was 3·4 μm, and geometric standard deviation was 1·9–2·0. Viability of bacteriophages delivered distal to an idealized mouth‐throat replica was determined from bioassays of samples collected on filters placed after the idealized replica. As a percentage of inhaler load, amount of powder delivered distal to the mouth‐throat replica, which is a measure of lung delivery, was 33·7 ± 0·3% for KS4‐M and 32·7 ± 0·9% for ΦKZ. Titres collected downstream of the mouth throat were (3·4 ± 2·5) × 10⁶ PFU for KS4‐M with an Aerolizer capsule load of (9·8 ± 4·8) × 10⁶ and (1·9 ± 0·6) × 10⁷ for ΦKZ with an Aerolizer capsule load of (6·5 ± 1·9) × 10⁷. Conclusions: Bacteriophages KS4‐M and ΦKZ can be lyophilized without significant loss of viability in a lactose/lactoferrin 60 : 40 w/w matrix. The resulting powders can be aerosolized to deliver viable bacteriophages to the lungs. Significance and Impact of the Study: Development of lactoferrin‐based bacteriophage aerosol powders solidifies the ground for future research on developing novel formulations as an alternative to inhaled antibiotic therapy in patients with cystic fibrosis.     

Differential bacteriophage mortality on exposure to copper

Many studies report that copper can be used to control microbial growth, including that of viruses. We determined the rates of copper-mediated inactivation for a wide range of bacteriophages. We used two methods to test the effect of copper on bacteriophage survival. One method involved placing small volumes of bacteriophage lysate on copper and stainless steel coupons. Following exposure, metal coupons were rinsed with lysogeny broth, and the resulting fluid was serially diluted and plated on agar with the corresponding bacterial host. The second method involved adding copper sulfate (CuSO(4)) to bacteriophage lysates to a final concentration of 5 mM. Aliquots were removed from the mixture, serially diluted, and plated with the appropriate bacterial host. Significant mortality was observed among the double-stranded RNA (dsRNA) bacteriophages Φ6 and Φ8, the single-stranded RNA (ssRNA) bacteriophage PP7, the ssDNA bacteriophage ΦX174, and the dsDNA bacteriophage PM2. However, the dsDNA bacteriophages PRD1, T4, and λ were relatively unaffected by copper. Interestingly, lipid-containing bacteriophages were most susceptible to copper toxicity. In addition, in the first experimental method, the pattern of bacteriophage Φ6 survival over time showed a plateau in mortality after lysates dried out. This finding suggests that copper's effect on bacteriophage is mediated by the presence of water.     

Polyhexamethylene biguanide exposure leads to viral aggregation

Aims: This study reports the activity of two biguanides against MS2 bacteriophage used as a surrogate virus for nonenveloped mammalian viruses and provides an explanation as to their apparent limited efficacy. Methods and Results: When tested in a standard suspension test, two polyhexamethylene biguanides (PHMB), VANTOCIL? TG and COSMOCIL? CQ, reduced the viability of MS2 by only 1–2 log₁₀ PFU ml^?1. Exposure time up to 30 min did not affect the activity of the biguanides, although both PHMB were shown to strongly interact with MS2 proteins. Conclusions: Inactivation kinetics and change in virus hydrophobicity suggested that PHMB induces the formation of viral aggregates. This hypothesis was supported using dynamic light scattering that showed an increase in viral aggregates sizes (up to 500 nm) in a concentration‐dependent manner. Significance and Impact of the Study: It has been reported that viral aggregation is responsible for virus survival to the biocide exposure. Here, this might be the case, because the virucidal activity of the biguanides was modest and viral aggregation important. The formation of viral aggregates during virus exposure to PHMB was unlikely to overestimate the virucidal potential of the biguanides.     

Analysis of interaction of bacterial cells and bacteriophages in conducting suspensions with an acoustic sensor

The possibility of analyzing bacterial cells infected by a specific bacteriophage, using Escherichia coli as an example, with an acoustic sensor directly in suspensions with different initial electrical conductivities was studied. The analysis was based on measurement of the time dependence of phase and the complete loss of output sensor signals of fixed frequency before and after biological interaction of microbial cells and bacteriophages. The aforementioned sensor makes it possible to detect bacterial cells and assess their viability in conducting suspensions. It was shown that the conductivity of the buffer solution should not exceed 10 μS/cm and the minimum detectable concentration of microbial cells was ~10⁴ cells/mL.     

On-chip impedimetric detection of bacteriophages in dairy samples

Bacteriophage infection of starter cultures constitutes a major problem in the dairy fermentation industry, which may bring about important economic losses. In this study, a rapid detection method of bacteriophages was developed based on analysis of impedance changes occurred upon infection of a host-biofilm established onto metal microelectrodes. Bacteriophage PhiX174 and Escherichia coli WG5 were chosen as models for bacteriophage and host strain, respectively, because of their easiness of manipulation. Impedimetric changes occurring at the microelectrode surface, caused by bacteriophage infection and subsequent lysis of the host strain, were monitored over a 6-h period after the initial inoculation of phages by non-faradic impedance spectroscopy (IS) in PBS and milk samples. Analysis of data was performed by two different approaches: (1) the equivalent circuit modelling theory, where a decrease in the magnitude of both the double layer and the biofilm capacitances due to the bacteriophage infection process was recorded, and (2) analysis of the impedance value, specially the impedance imaginary component (Z(i)) at selected frequencies. Z(i) is related to the capacitance of the circuit and also showed a decrease with respect to the control sample (without bacteriophages). The simplicity of the assay and the possibility of miniaturization of the system as well as its wide application, being able of detecting any bacteriophage as long as a suitable bacterial host is available, increase the number of applications to which this system could be used for.     

Degradation studies on Escherichia coli capsular polysaccharides by bacteriophages

The serologically and structurally related Escherichia coli capsular polysaccharides (K antigens) K13, K20, and K23 were found to be depolymerized by the bacteriophages ΦK13 and ΦK20 to almost similar oligomer profiles as shown by polyacrylamide gel electrophoresis. The phage-polysaccharide interactions were followed by an increase of reducing 2-keto-3-deoxyoctulosonic acid due to a phage-associated glycanase that catalyzed the hydrolytic cleavage of common β-ketopyranosidic 2-keto-3-deoxyoctulosonic acid linkages. The related E. coli K antigens K18, K22, and K100 as well as the Haemophilus influenzae type b capsular polysaccharide were degraded by bacteriophage ΦK100 with different efficacy. It is suggested that ΦK100 enzymatically cleaves ribitol-5-phosphate bonds as the only structural feature present in all the polysaccharides investigated.     

Molecular characterization of podoviral bacteriophages virulent for Clostridium perfringens and their comparison with members of the Picovirinae

Clostridium perfringens is a Gram-positive, spore-forming anaerobic bacterium responsible for human food-borne disease as well as non-food-borne human, animal and poultry diseases. Because bacteriophages or their gene products could be applied to control bacterial diseases in a species-specific manner, they are potential important alternatives to antibiotics. Consequently, poultry intestinal material, soil, sewage and poultry processing drainage water were screened for virulent bacteriophages that lysed C. perfringens. Two bacteriophages, designated ΦCPV4 and ΦZP2, were isolated in the Moscow Region of the Russian Federation while another closely related virus, named ΦCP7R, was isolated in the southeastern USA. The viruses were identified as members of the order Caudovirales in the family Podoviridae with short, non-contractile tails of the C1 morphotype. The genomes of the three bacteriophages were 17.972, 18.078 and 18.397 kbp respectively; encoding twenty-six to twenty-eight ORF's with inverted terminal repeats and an average GC content of 34.6%. Structural proteins identified by mass spectrometry in the purified ΦCP7R virion included a pre-neck/appendage with putative lyase activity, major head, tail, connector/upper collar, lower collar and a structural protein with putative lysozyme-peptidase activity. All three podoviral bacteriophage genomes encoded a predicted N-acetylmuramoyl-L-alanine amidase and a putative stage V sporulation protein. Each putative amidase contained a predicted bacterial SH3 domain at the C-terminal end of the protein, presumably involved with binding the C. perfringens cell wall. The predicted DNA polymerase type B protein sequences were closely related to other members of the Podoviridae including Bacillus phage Φ29. Whole-genome comparisons supported this relationship, but also indicated that the Russian and USA viruses may be unique members of the sub-family Picovirinae.     

Effects of sunlight on bacteriophage viability and structure.

Current estimates of viral abundance in natural waters rely on direct counts of virus-like particles (VLPs), using either transmission or epifluorescence microscopy. Direct counts of VLPs, while useful in studies of viral ecology, do not indicate whether the observed VLPs are capable of infection and/or replication. Rapid decay in bacteriophage viability under environmental conditions has been observed. However, it has not been firmly established whether there is a corresponding degradation of the virus particles. To address this question, viable and direct counts were carried out employing two Chesapeake Bay bacteriophages in experimental microcosms incubated for 56 h at two depths in the York River estuary. Viruses incubated in situ in microcosms at the surface yielded decay rates in full sunlight of 0.11 and 0.06 h-1 for CB 38 phi and CB 7 phi, respectively. The number of infective particles in microcosms in the dark and at a depth of 1 m was not significantly different from laboratory controls, with decay rates averaging 0.052 h-1 for CB 38 phi and 0.037 h-1 for CB 7 phi. Direct counts of bacteriophages decreased in teh estuarine microcosms, albeit only at a rate of 0.028 h-1, and were independent of treatment. Destruction of virus particles is concluded to be a process separate from loss of infectivity. It is also concluded that strong sunlight affects the viability of bacteriophages in surface waters, with the result that direct counts of VLPs overestimate the number of bacteriophage capable of both infection and replication. However, in deeper waters, where solar radiation is not a significant factor, direct counts should more accurately estimate numbers of viable bacteriophage.     

Transformation of mammalian cells with genes from procaryotes and eucaryotes.

We have stably transformed mammalian cells with precisely defined procaryotic and eucaryotic genes for which no selective criteria exist. The addition of a purified viral thymidine kinase (tk) gene to mouse cells lacking this enzyme results in the appearance of stable transformants which can be selected by their ability to grow in HAT. These biochemical transformants may represent a subpopulation of competent cells which are likely to integrate other unlinked genes at frequencies higher than the general population. Co-transformation experiments were therefore performed with the viral tk gene and bacteriophage ΦX174, plasmid pBR322 or the cloned chromosomal rabbit β-globin gene sequences. Tk⁺ transformants were cloned and analyzed for co-transfer of additional DNA sequences by blot hybridization. In this manner, we have identified mouse cell lines which contain multiple copies of 4)X, pBR322 and the rabbit β-globin gene sequences. The ΦX co-transformants were studied in greatest detail. The frequency of co-transformation is high: 15 of 16 tk⁺ transformants contain the ΦX sequences. Selective pressure was required to identify co-transformants. From one to more than fifty ΦX sequences are integrated into high molecular weight nuclear DNA isolated from independent clones. Analysis of subclones demonstrates that the ΦX genotype is stable through many generations in culture. This co-transformation system should allow the introduction and stable integration of virtually any defined gene into cultured cells. Ligation to either viral vectors or selectable biochemical markers is not required.     

A general method for the induction and screening of antisera for cDNA-encoded polypeptides: antibodies specific for a coronavirus putative polymerase-encoding gene

A prokaryotic vector, pGE374, containing the recA and lacZ genes, out-of-frame, was used for the expression of cDNA derived from the putative polymerase-encoding gene of the coronavirus mouse hepatitis virus strain A59 (MHV-A59). The pGE374/viral recombinant vector generates a tripartite bacterial/viral protein composed of a segment of the RecA protein at the N terminus, the coronaviral sequences in the middle, and an enzymatically active beta-galactosidase at the C terminus. Rabbits immunized with such recombinant proteins generated antibodies to the MHV-A59 portion of the tripartite protein. Because the MHV-A59 polymerase proteins have been difficult to identify during infection, we used a novel method to demonstrate the viral specificity of the antiserum. The viral cDNA was excised from the expression vector, and transferred to a pGem vector, downstream from and in-frame with a portion of the cat gene. This construct contained a bacteriophage RNA polymerase promoter that enabled the cell-free synthesis of a fusion protein that was used to verify that antibodies were generated to the expressed viral DNA. This strategy was shown to successfully result in the specific generation of antibodies to the encoded information of the viral cDNA. Furthermore, this method has general applicability in the generation and characterization of antibodies directed against proteins encoded in cDNAs.     

Expression of Antisense RNA Targeted against Streptococcus thermophilus Bacteriophages

Antisense RNA complementary to a putative helicase gene (hel3.1) of a cos-type Streptococcus thermophilus bacteriophage was used to impede the proliferation of a number of cos-type S. thermophilus bacteriophages and one pac-type bacteriophage. The putative helicase gene is a component of the Sfi21-type DNA replication module, which is found in a majority of the S. thermophilus bacteriophages of industrial importance. All bacteriophages that strongly hybridized a 689-bp internal hel3.1 probe were sensitive to the expression of antisense hel3.1 RNA. A 40 to 70% reduction in efficiency of plaquing (EOP) was consistently observed, with a concomitant decrease in plaque size relative to that of the S. thermophilus parental strain. When progeny were released, the burst size was reduced. Growth curves of S. thermophilus NCK1125, in the presence of variable levels of bacteriophage κ3, showed that antisense hel3.1 conferred protection, even at a multiplicity of infection of approximately 1.0. When the hel3.1 antisense RNA cassette was expressed in cis from the κ3-derived phage-encoded resistance (PER) plasmid pTRK690::ori3.1, the EOP for bacteriophages sensitive to PER and antisense targeting was reduced to between 10⁻⁷ and 10⁻⁸, beyond the resistance conferred by the PER element alone (less than 10⁻⁶). These results illustrate the first successful applications of antisense RNA and explosive delivery of antisense RNA to inhibit the proliferation of S. thermophilus bacteriophages.