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Applied and Environmental Microbiology, October 2003, p. 6121-6127, Vol. 69, No. 10
0099-2240/03/$08.00+0 DOI: 10.1128/AEM.69.10.6121-6127.2003
Copyright © 2003, American Society for Microbiology. All Rights Reserved.
Institute of Food Technology, University of Hohenheim, Stuttgart,1 Department of Gastrointestinal Microbiology, German Institute of Human Nutrition, Potsdam-Rehbrücke, Germany2
Received 7 March 2003/ Accepted 31 July 2003
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Foods contain high amounts of RNA and DNA (20), leading to a roughly estimated dietary daily intake of 0.1 to 1 g per person (13). This DNA in food may persist for long periods of time (7, 32, 44, 45). The oral cavity and intestinal tract are densely populated with bacteria that may become transformed by this DNA. In vitro studies have shown that plant DNA is largely degraded during its passage through the human gastrointestinal tract (26). Nevertheless, in vivo studies revealed that plant-associated DNA from soybean leaves may persist for days in the intestines of mice (18). Reports about the competence development of bacteria inhabiting the digestive tract are, however, rare and focused on in vitro studies with oral bacteria (47). Many oral streptococci are capable of natural transformation, which has been best studied in Streptococcus gordonii (8). Recently, it has been shown that S. gordonii can be transformed by plasmid DNA or via chromosomal integration of plasmid DNA at increased frequency in the presence of human saliva (29, 30). These authors incubated plasmid DNA with human saliva or exposed the DNA to it in vivo and observed that the nucleic acid keeps its capability to transform oral streptococci in vitro. Up to now no data are available on the in vivo development of competence and transformation of bacteria inhabiting the digestive tract. To perform a risk assessment in accordance with the recommendation of the Food and Agriculture Organization (FAO) and World Health Organization (WHO) (1), these data as well as those on the persistence of DNA are needed to estimate the likelihood of an in vivo transfer of recombinant DNA to bacteria in the food chain.
In general, once a transformation event has taken place a further propagation of the acquired genetic information is facilitated via the more efficient mechanisms of horizontal gene transfer, conjugation, and transduction. Thus, transformation of bacteria in food and in the mouth can well contribute to the distribution of acquired traits to intestinal bacteria. In the food, either contaminating intestinal bacteria may become transformed directly or food-specific bacteria may spread the DNA acquired by transformation in food to bacteria of the digestive tract upon ingestion. Not only was Bacillus subtilis as a food-associated bacterium shown to develop natural competence during growth in foods (7, 49), but also the intestinal bacterium Escherichia coli was shown to have the ability of being transformed in foods (3, 4).
In this work we studied the transfer of recombinant DNA to the oral bacterium S. gordonii by using the marker rescue system based on the restoration of the kanamycin resistance gene nptII (22). The natural transformation of S. gordonii is controlled by a peptide-dependent quorum-sensing system (8, 17), and it was shown that serum which can be naturally contained in foods stimulates transformation (19, 37). S. gordonii strain TIGR, containing a plasmid-encoded marker rescue system, was used as a recipient to detect transformation in vitro, in foods, and in gnotobiotic rats by using bacterial and transgenic plant DNA as donor DNA.
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containing pMR2 (10) or pSR8-30 (14), and E. coli Sure (Stratagene). Solanum tuberosum cv. Apriori (AVEBE, Foxhole, The Netherlands) containing intact nptII in the genome was used as GM plant material. B. subtilis and E. coli were grown at 37°C in Luria-Bertani medium (40). S. gordonii was grown anaerobically at 37°C in brain-heart infusion (BHI) broth (Merck). Solidified media contained 1.5% (wt/vol) agar. Selective media contained 10 µg of chloramphenicol (Sigma)/ml and 100 µg of ampicillin (Roth)/ml for E. coli, 10 µg of erythromycin (Sigma)/ml and 1,000 µg of kanamycin (Sigma)/ml for S. gordonii, or 10 µg of erythromycin (Sigma)/ml for B. subtilis.
Foodstuffs.
Ultra-high temperature (UHT)-treated milk with a fat content of 3.5% was used. Blood sausage (100 g) obtained from a local grocery market was homogenized in 100 ml of saline peptone (0.85% NaCl, 0.1% peptone). One part of the homogenate was heat treated at 56°C for 30 min (H1), whereas the other part remained untreated (H2). Potato extract (PE) was prepared by homogenizing 43 g of ground Apriori potatoes in 50 ml of saline peptone (see above) and autoclaved. The mixture was centrifuged (3,000 x g, 4°C, 6 min), and the supernatant was used as extract.
DNA isolations.
Chromosomal or plasmid DNA from E. coli, B. subtilis, and plant DNA from potato tubers was isolated as described previously (22). Plasmid DNA from streptococci was extracted by using the QIAprep Spin Miniprep kit (Qiagen) according to the manufacturer's instructions with the following modification: cells of a 10-ml culture at the end of the exponential growth phase were harvested by centrifugation (4000 x g, 8 min, 4°C) and washed with 1 ml of 10 mM Tris-HCl (pH 8.0). The cell pellet was resuspended in 250 µl of STE buffer (20% sucrose, 10 mM Tris-HCl [pH 8.0], 10 mM EDTA, 50 mM NaCl) containing lysozyme (5 mg/ml) and mutanolysin (500 U/ml), and the suspension was incubated at 37°C for 15 min. Concentrations of DNA solutions were determined as described previously (22).
Transformation of S. gordonii.
An overnight culture (approximately 109 CFU/ml) was diluted 1:1,000 in fresh BHI broth supplemented with 10% (vol/vol) heat-inactivated (56°C, 30 min) horse serum (HHS). After incubation at 37°C for 4 h, the donor DNA was added, and the suspension was further incubated for 1 h before plating.
Marker rescue experiments in vitro and in foods.
The marker rescue experiments were based on the transformation protocol using S. gordonii LTH 5597 as a recipient. Plasmids pMR2 and pSR8-30 and chromosomal DNA of bacterial (E. coli Sure) and plant (Apriori potato) origin, all containing the intact nptII, were used as donor DNA. In addition, the 792-bp DNA fragment of nptII was used. It was generated by PCR amplification using primers Eonpt2 and Sonpt2 and chromosomal DNA of E. coli Sure as template DNA as described previously (22). DNA was added at concentrations below the saturation level. Total counts or counts of transformants in BHI media containing erythromycin (10 µg/ml) or kanamycin (1,000 µg/ml) were determined. Verification of the restoration of nptII was performed by amplification of the 792-bp fragment of nptII and digestion with NcoI as described previously (22). The detection limit of marker rescue transformation was the reciprocal value of the total recipient cells in the transformation assay.
Three marker rescue experiments were performed with foods. In trial I, overnight cultures of S. gordonii LTH 5597 grown in UHT milk (5 x 108 CFU/ml) and BHI medium (7 x 108 CFU/ml) were diluted 1:1,000 in milk and BHI medium, respectively, without or with supplementation of 10% (vol/vol) of the HHS. After incubation at 37°C for 4 h, DNA of pMR2 was added to a final concentration of 2.3 µg/ml. The mixtures were further incubated for 1 h before microbial counting. In trial II, both heated and nonheated homogenates of the blood sausage (H1, H2) were inoculated with an overnight culture of S. gordonii LTH 5597 grown in BHI medium, yielding a final count of 3 x 106 CFU/ml. Homogenates with 10% HHS or without supplementation were incubated at 37°C for 4 h. DNA of plasmid pMR2 was added to a final concentration of 6 µg/ml, and the mixture was further incubated for 1 h before microbial counting. In trial III, the PE was inoculated with strain LTH 5597 as described in trial II. Both PE without HHS and PE with 10% HHS were incubated at 37°C for 4 h and then supplemented with DNA of pMR2 or the Apriori potato to final concentrations of 9 or 30 µg of DNA/ml, respectively. The mixtures were further incubated for 1 h before microbial counting.
Animals, diets, inoculations, and experimental design.
Ten germfree rats of the inbred strain Fisher 344/Rehbrücke (12-week-old male and female rats, with body weights of 255 ± 19 g [mean ± standard error]) were used. The rats had free access to diet and drinking water, and coprophagy was not prevented. One milliliter of an overnight culture (ca. 1.8 x 109 CFU/ml) of S. gordonii LTH 5597 was given orally for the three following days. From the first day of colonization up to 6 days the donor DNA (pMR2) was administered with the drinking water (200 µg/rat/day) to animals 1 to 6. The drinking water contained 0.1 mM Tris-HCl (pH 8.0) and 5% sucrose, which increased the colonization of S. gordonii in the mouth as found in preliminary studies (data not shown). To ensure the maintenance of pMK110 in the recipient, lincomycin (10 mg/kg of body weight) was given with the drinking water from the beginning of inoculation. After 6 days of DNA administration, the DNA was administered directly into the mouth of rats with the following daily dose: animals 1 and 4 received 200 µg for the remaining 3 days; animals 2 and 3 received 70, 100, and 200 µg for the 7th, 8th, and 9th day, respectively; animals 5 and 6 received 200 µg for the 7th day and 100 µg for the remaining 2 days. In the control, animals 7 to 10 were associated with S. gordonii LTH 5597 and received the same drinking water as described above but without plasmid DNA. Animal experiments were performed in accordance with permit 32/48-3560-0/3 from the Ministry of Agriculture, Environment Protection and Regional Development of the state of Brandenburg, Germany.
Before association, fecal samples were taken directly from the anus to ensure the germfree condition in the rats. From the second day of colonization, fecal and saliva samples were collected daily. From the 7th day of association, additional saliva samples from the animals 1 and 4 were taken 1, 2, 4, and 6 h after oral administration of the donor plasmid. From animals 2, 3, 5, and 6, saliva samples were taken after 90 min. To obtain saliva samples, the oral cavities of rats were rubbed with sterile cotton swabs. Swabs were soaked with 10 µl (males) and 5 µl (females) of saliva and vigorously agitated in 1 ml of BHI medium for 15 min to recover the bacterial cells (corresponding to 1 and 0.5% pure saliva in saliva samples, respectively). After 10 days the rats were killed by application of pentobarbital intraperitoneally (i.p.), and samples were taken from the various gut sections. All samples were subjected to microbial analysis.
Controls for animal studies.
For control I, four female germfree rats were associated with S. gordonii LTH 5597 (2 rats) or S. gordonii LTH 5743 (2 rats) and received the drinking water as described above. Saliva and fecal samples were taken daily for up to 5 days, and cell counts were determined on selective agar plates. For control II, saliva samples obtained from male germfree rats (sampling see above) with and without the addition of 10% (vol/vol) HHS were inoculated with S. gordonii LTH 5597 to a final count of 2.8 x 105 CFU/ml. The mixtures were incubated at 37°C for 4 h. DNA of pMR2 was added to a final concentration of 28 µg/ml, and the mixture was further incubated for 1 h before microbial counting. For control III, an aliquot (200 µl) of saliva and fecal sample taken at day 8 from animals 1, 4, and 6 was mixed with 1 volume of BHI medium supplemented with 10% (vol/vol) of heat-inactivated (56°C, 30 min) fetal calf serum and incubated at 37°C for 4 h. DNA of pMR2 was added to a final concentration of 25 µg/ml, and the mixture was further incubated for 1 h before microbial counting. For control IV, samples (0.5 g) of the contents of the stomach, jejunum, cecum, and colon obtained after killing animal 1 were mixed with 1 ml of saline peptone. One aliquot was spiked with plasmid DNA to a final concentration of 190 µg/ml. The mixtures were immediately centrifuged (200 x g, 4°C, 12 min) to remove large particles, and DNA was isolated as described below in "Stability of DNA" for the saliva samples. Aliquots were serially diluted and subjected to PCR amplification of the 792-bp nptII fragment. For control V, 1 ml of the drinking water was supplemented with 25 µg of DNA of pMR2 and incubated in an isolator for 24 h, and serial dilutions were subjected to agarose gel electrophoresis (6 µl).
Stability of DNA.
Five saliva samples from germfree rats were spiked with DNA of pMR2 (final concentration of 200 µg/ml) and incubated at 37°C for 0.2, 30, 60, 120, and 360 min. In the control, the saliva was replaced by 0.1 mM Tris-HCl (pH 8.0). After incubation, the mixtures were treated once with 1 volume of phenol-chloroform-isoamyl alcohol (25:24:1) and once with 1 volume of chloroform. The DNA was precipitated with ethanol, washed with 70% (vol/vol) ice-cold ethanol, and resuspended in 50 µl of 0.1 mM Tris-HCl (pH 8.0). Aliquots (40 µl) were used in marker rescue experiments with S. gordonii LTH 5597 using BHI medium supplemented with 10% (vol/vol) HHS.
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TABLE 1. Marker rescue transformation of S. gordonii LTH 5597 with different types of donor DNA containing intact nptII genea
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Marker rescue experiments in the homogenates of blood sausage (trial II) were performed with DNA of pMR2. Marker rescue was detected in both heated and nonheated homogenates (H1, H2) with efficiencies of 3.0 x 10-9 and 7.9 x 10-10, respectively. The addition of 10% HHS to both homogenates did not enhance the efficiency of transformation (data not shown). In the experiments with the potato extracts (trial III) containing DNA of pMR2 or the transgenic potato, no marker rescue was detected with or without HHS supplementation of the extracts. In this food matrix the growth of S. gordonii was reduced (1.2 x 107 CFU/ml).
In vivo marker rescue experiments. In vivo transformation of S. gordonii was investigated by using gnotobiotic rats associated with the marker rescue recipient strain LTH 5597. The donor DNA (pMR2) was administered to the gnotobiotic animals in the drinking water for the first 6 days. The daily water uptake was determined for animals 1 to 6, and the mean values are depicted in Fig. 1. Calculation of the resulting DNA uptake revealed that the daily uptake of plasmid DNA ranged from 122 to 184 µg. Determination of the cell counts of S. gordonii LTH 5597 in the saliva and fecal samples showed that the recipient colonized the mouth and gastrointestinal tract of the animals (Fig. 2A and B). Within the first 6 days saliva and fecal samples were taken daily from all animals and investigated for the presence of kanamycin-resistant cells. Neither marker rescue transformants nor spontaneously resistant cells were detected. The absence of transformants might have been caused by failing colonization or decreased competitiveness of S. gordonii upon marker restoration and by rapid digestion of the donor DNA. Therefore, from days 7 to 9 the plasmid DNA was daily administered directly into the mouth of animals 1 to 6. Analysis of saliva samples taken after 1 to 6 h upon DNA administration and of the fecal samples taken daily revealed no transformants. Investigation of the killed animals showed high streptococcal counts in the cecum and colon, comparable to amounts in the feces (Fig. 3). Again, no transformants were detected in these sections. Samples of the stomach, duodenum, and jejunum were not analyzed because no detectable colonization (<103 CFU/ml) was observed in preliminary studies.
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FIG. 1. Average daily uptake of drinking water (closed symbols) and plasmid DNA (open symbols) for the animals in days 1 to 6.
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FIG. 2. Counts of S. gordonii LTH 5597 in fecal (closed symbols) and saliva (open symbols) samples of animals 1 to 6 receiving the plasmid DNA (A) and of the control animals (7 to 10) receiving no DNA (B). Data are expressed as mean log10 CFU per gram of sample (± standard error of the mean).
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FIG. 3. Counts of S. gordonii LTH 5597 in different compartments of the gastrointestinal tracts of the gnotobiotic rats 1 to 6 (white bars) and 7 to 10 (grey bars). Data are mean log10 CFU per gram of sample (± standard error of the mean).
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In control IV, the contents of different gut sections of animal 1 were searched for the presence of donor DNA. DNA was isolated from stomach, jejunum, cecum, and colon samples and subjected to PCR. The 792-bp fragment of nptII was amplified with the DNA obtained from the stomach, cecum, and colon samples (faint bands on the gel) as well as from all samples spiked with DNA of pMR2. In contrast to the spiked samples, the amplified fragments could not be digested with NcoI (Fig. 4), indicating that these fragments originated from plasmid pMK110 of S. gordonii LTH 5597 and not from the donor DNA. Finally, the stability of plasmid DNA in the drinking water under the conditions prevailing in the isolators was confirmed for 24 h (control V, data not shown). The DNA remained detectable by agarose gel electrophoresis up to a dilution of 10-2.
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FIG. 4. Verification of the origin of the 792-bp amplification fragments of nptII generated with the DNA isolated from colon samples. The fragments were digested with NcoI. Lane 1, colon sample of animal 1 spiked with DNA of plasmid pMR2 (donor DNA); lane 2, colon sample of animal 1; lane 3, fragment amplified with DNA of E. coli Sure; Lane 4, nondigested fragment of nptII. L, 1-kb DNA ladder (MBI Fermentas).
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FIG. 5. Transformation of S. gordonii LTH 5597 with the reisolated pMR2 DNA which had been exposed to the saliva of germfree rats.
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Beside the well-studied quorum-sensing regulation of competence development (17), chemical and environmental factors such as peptides, CaCl2, pH, and temperature were described as affecting transformation in S. gordonii (8). Serum from horses, calves, and swine as well as serum albumin were found to stimulate the transformation (12, 25, 37, 38). Foods constitute a huge diversity of ecological niches not only as final products but also in the process of their production. Therefore, we included in our studies foods which may provide conditions that permit transformation. Milk contains approximately 6% serum (48), and a German blood sausage contains approximately 80% blood (corresponding to 56% serum). Transformation of S. gordonii LTH 5597 was observed in the blood sausage, whereas in milk the addition of HHS was required. Calculation of the serum albumin content according to Belitz and Grosch (6) revealed that milk, blood sausage, and BHI medium plus 10% HHS contain 0.03, 2.8, and 0.35% albumin, respectively. Since the presence of 0.2% serum albumin was found to be sufficient to stimulate transformation of S. gordonii (12, 36), the missing detection of transformation may have been caused by the low serum albumin content in milk. Furthermore, it can be assumed that the combined actions of ecological factors, food ingredients, and the matrix itself affect growth, competence development, and DNA uptake. This assumption is consistent with our observation that marker rescue transformation in the foods occurs with less efficiency (approximately 104- to 105-fold decreased) than in the in vitro experiments with BHI medium plus 10% HHS and plasmid DNA (Table 1). As the intact nptII is contained in the genome of the Apriori potato, we included this food matrix in our studies. However, despite addition of exogenous donor DNA no marker rescue transformation was observed. This observation is in agreement with our findings that S. gordonii LTH 5597 did not grow in this food matrix. It was not intended to broaden the experiments by using competent cells, as we have previously shown that competent cells take up free DNA from the food matrix (3, 7).
We initiated in vivo experiments with monoassociated rats, as our marker rescue system constitutes an efficient tool to detect the rare event of in vivo transformation. The system is based on the recombinational repair of nptII and does not require recircularization of the donor DNA as it is needed in transformation with nonhomologous plasmid DNA (5). The system is plasmid encoded, leading to increased transformation efficiencies as suggested by Lindler and Macrina (23) for S. mutans, since the homologous target DNA is provided in high copy number in comparison to chromosomal markers. Highest transformation frequencies (ca. 10-2) were obtained in vitro (Table 1), and therefore, we adopted these basic conditions for the animal model. However, no marker rescue transformation was observed in vivo when plasmid DNA was used. One reason may be the lack of availability of donor DNA in the compartments of the digestive tract, although a continuous supply was ensured by daily administration of high amounts of DNA. We found that plasmid DNA was rapidly degraded in the saliva of rats but marker rescue transformation with the partially degraded donor DNA was still detectable for up to 6 h (Fig. 5). This result is consistent with that of Mercer et al. (29, 30), who observed the degradation of plasmid DNA in human saliva. In the distal sections of the rats' gastrointestinal tracts we did not detect the donor DNA by PCR. Apparently, the DNA is rapidly degraded in vitro as shown by Maturin and Curtiss (27), who used the intestinal contents of gnotobiotic and conventional rats. Another reason for the lack of marker rescue transformation in vivo may be that S. gordonii does not develop competence in the animal model. This assumption is supported by the results of the control experiments II and III, showing that the efficient transformation of S. gordonii LTH 5597 in the presence of rat saliva or feces requires the addition of serum as stimulating factor. On the other hand, we observed (unpublished results) that strain LTH 5597 develops competence during growth in BHI medium in the presence of 10% human saliva without HHS, and also Mercer et al. (30) reported that filter-sterilized human saliva induces competence in S. gordonii. Thus, S. gordonii LTH 5597 has the potential to develop competence in vivo, at least in the mouth of the animal.
To detect the rare event of transformation, our in vivo studies were designed to take worst-case conditions into account. For that purpose the animals were monoassociated with S. gordonii to achieve defined conditions with regard to potential recipients in the oral microbiota. In addition, up to 200 µg of plasmid DNA were administered daily to the animals, corresponding to 3.2 x 1013 intact genes of nptII, an amount that is present in approximately 222 kg of transgenic potato tubers. This weight is far beyond the daily energy and nutrient requirements, as only ca. 49 g (7.1 x 109 nptII genes) of potato tubers can be taken up maximally by a rat with 263 g of body weight. Despite application of the worst-case conditions, no transformation of S. gordonii was detectable in vivo. The meaning of this result for assessing the likelihood of transfer of transgenic plant DNA to S. gordonii in the human digestive tract is rather limited for numerous reasons. For example, no data about the competence development of S. gordonii in the human oral cavity are available. Thus, the animal model has limitations in its value to calculate transfer rates meaningful for humans. In addition, the human exposure to intact potato DNA can hardly be estimated for the following reason. The average consumption of potatoes by Austrians has been calculated to be 55.8 kg per capita per year (20). Potatoes are, however, eaten only after being processed, and thus, the DNA is subjected to degradation depending on the degree of processing involved. For example, in fried potatoes the degradation went so far that no DNA fragments of >100 bp were detectable by PCR (unpublished results). Finally, it has to be considered that during transformation each incoming DNA fragment has to be rescued by homologous recombination or, as recently demonstrated for S. pneumoniae, by homology-directed illegitimate recombination (39).
In conclusion, an in vivo transfer of recombinant DNA to S. gordonii has not been detected under the experimental conditions but cannot be excluded and may show up when the experiments are performed on a large scale. To take into consideration the whole food chain, the key event of the transfer under these conditions is the experimentally proven transformation in the food matrix. The transformed bacteria can then spread the acquired genetic information to other components of the flora inhabiting the digestive tract. Thus, our results confirm the need for a case-by-case consideration in risk assessment of genetically modified organisms.
This work was partly supported by EU grant QLK1-1999-00527.
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nptII) with transgenic plant DNA in soil microcosms and effects of kanamycin on selection of transformants. Appl. Environ. Microbiol. 66:1237-1242.
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