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Applied and Environmental Microbiology, December 2007, p. 7697-7702, Vol. 73, No. 23
0099-2240/07/$08.00+0 doi:10.1128/AEM.01342-07
Copyright © 2007, American Society for Microbiology. All Rights Reserved.
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Fredrick Breidt Jr.,*
Zhongjing Lu,¶ and
Henry P. Fleming
USDA-ARS, Department of Food Science, 322 Schaub Hall, North Carolina State University, Raleigh, North Carolina 27695-7624
Received 15 June 2007/ Accepted 26 September 2007
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This study was carried out because of the need to reduce sodium chloride (salt) waste from commercial vegetable fermentations. It is well documented that the concentration of salt has a controlling influence on the microbial succession in a typical sauerkraut fermentation (11, 12, 22). It may be possible to reduce salt waste by fermenting cabbage with 1% salt instead of 2% salt, the concentration typically used. The introduction of an L. mesenteroides starter culture to the fermentation could help ensure that the initial stage of the fermentation produces the desirable flavor compounds (11). A method has been developed (23) to determine the ability of an unmarked starter culture to predominate over the indigenous microbiota in sauerkraut fermentations. In that study (23), however, the effect of the starter culture on the indigenous microbiota was not determined.
During the sauerkraut fermentation, there is a rapid turnover of LAB species. The dominant species present in the fermentation shifts within 2 to 3 days from less-acid-tolerant heterolactic LAB species to more-acid-tolerant homolactic fermenting LAB species, with the sequential populations each reaching concentrations of 108 to 109 CFU/g (11). Under normal conditions, the fermentation is essentially complete within 2 weeks, with the most-acid-tolerant species, L. plantarum, predominating. Our objective was to characterize the dominant LAB species in the successive stages of fermentation.
There is strong evidence that the genetic diversity of many ecosystems as assessed by molecular techniques exceeds the microbial diversity determined by traditional culture-based identification methods (26). However, due to the rapid succession of LAB in sauerkraut and the potential impact of large numbers of dead cells on culture-free nucleic acid-based methods, we carried out this study using bacterial isolates. In this study, we characterized isolates from the microbiota of commercial sauerkraut fermentations using an rRNA gene intergenic transcribed spacer (ITS)-PCR method with a database of known ITS-PCR patterns for LAB (4; this study), supplemented with 16S rRNA gene sequence analysis. Several species of LAB not previously found in sauerkraut were observed. Notably, Weissella and Leuconostoc citreum were found in the heterolactic phase of the fermentations, and two of the four LAB species expected to be present (P. pentosaceus and L. brevis) were apparently minor constituents of the microbiota. A better understanding of the microbial ecology of sauerkraut fermentations may aid in the development of low-salt fermentation technology, which may alter the normal microflora and sauerkraut flavor (F. Breidt, v. Plengvidhya, Z. Lu, and H. P. Fleming, unpublished).
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Commercial sauerkraut fermentation and sample collection.
Samples of sauerkraut fermentations from a commercial processing plant in Wisconsin consisting of approximately 100 Mg of cabbage were used for this study; samples were obtained from one tank in the first year of the study (Y1) and from three different tanks in the second year (Y2). Only one sauerkraut production facility in Wisconsin was used in this study because there are currently very few commercial production facilities in the United States. The fermentation tanks were cement tanks, and the approximate dimensions were as follows: length, 5 m; width, 5 m; and depth, 4 m. Each fermentation was carried out with approximately 2.3% (final equilibrated concentration) NaCl, which was added by a dry salting process using shredded cabbage (mixed cultivars). The cabbage was manually spread in the tanks, covered with plastic sheeting, and initially weighted down with water on top of the plastic sheeting. The fermentation temperature was not controlled, but the average temperature in these commercial fermentations typically was 18°C. For analysis of cabbage prior to fermentation, shredded cabbage samples (approximately 500 g) were collected in sterile plastic bags prior to salting. Brine samples (100 ml each) from the fermentations were obtained for microbial and biochemical analysis, with a 1-cm-diameter, perforated stainless steel tube that was sealed at the bottom, from a depth of approximately 60 cm from the top of each fermentation tank and about 60 cm from the sides. The sampling apparatus was sanitized with a dilute (10%) Clorox solution and rinsed with sterile water prior to use. Brine and cabbage samples were obtained on days 1, 3, 7, and 14 after the start of fermentation and were placed in two 50-ml sterile plastic tubes (catalog no. 430829; Corning, Inc., Corning, NY). The cabbage and brine samples were transported to the laboratory by overnight mail in insulated boxes containing wet ice packs to maintain the temperature between 0 and 5°C. Samples were processed immediately upon arrival.
Chemical and microbial analysis of cabbage samples.
For chemical and microbiological analysis, 100 g of the shredded cabbage was blended in sterile glass blender jars with 200 g of water for 3 min using a Waring blender (Waring Products, Torrington, CT) and then homogenized with a stomacher (Stomacher 400; Tekmar, Cincinnati, OH) for 3 min at the maximum speed using bags containing an internal filter. Filtrate from the extract (approximately 30 ml) was transferred to a 50-ml sterile plastic tube and frozen at –20°C for subsequent chemical analysis. Prior to freezing, 1 ml of the cabbage extract was removed for microbiological analysis (see below). A chemical analysis was carried out using high-performance liquid chromatography. Organic acids and ethanol were analyzed using an anion exchange column (Aminex HPX-87H; Bio-Rad Laboratories) and 0.03 N H2SO4 at a flow rate of 0.8 ml/min at 75°C. A UV detector (UV-6000; Thermo Separation Products, Inc., San Jose, CA) and a differential refractometer (Waters 410; Waters, Milford, MA) were connected in series for detection of organic acids (at 210 nm) and ethanol. Sugars and mannitol were separated by using a Carbopac PA1 column (Dionex Corp., Sunnyvale, CA) and 0.12 N NaOH at a flow rate of 0.8 ml/min at room temperature and were detected with a pulsed amperometric detector (model PAD-2; Dionex). The salt (NaCl) content in the brine was determined by titration with an AgNO3 solution using 4'5'-dichlorofluorescein as the indicator (13).
For microbial analysis, samples were diluted in sterile saline (0.85% NaCl) and plated on plate count agar (Difco Laboratories, Detroit, MI), modified violet-red bile agar (violet-red bile agar [Difco] supplemented with 1% glucose), modified MRS agar (MRS agar [Difco] supplemented with 0.2% sodium azide), and yeast extract malt agar (Difco) containing 250 mg/liter chlortetracycline and 250 mg/liter chloramphenicol (Sigma Aldrich, St. Louis, MO) to enumerate the total aerobic microbiota, Enterobacteriaceae, LAB, and yeasts and molds, respectively. In addition, each brine sample was plated on unmodified MRS agar (without sodium azide) for collection of LAB isolates. Plating and plate counting were performed using a spiral plater (model 4000; Spiral Biotech, Norwood, MA) with an automated colony counter (Protos Plus; Microbiology International, Frederick, MD). For each of the five sampling times (days 1, 3, 5, 7, and 14 after the start of fermentation) in Y1, 96 isolated colonies were randomly selected from MRS agar and isolated on MRS agar, and then cells were frozen in MRS broth containing 16% glycerol at –80°C. For the four sampling times in Y2 (days 1, 3, 7, and 14), 20 isolates were obtained from each of three fermentation tanks. This resulted in a combined total for both years of the study of 720 possible isolates, although only 686 isolates were recovered. The isolates were screened for gas production using Durham tubes (6 by 50 mm; Kimble) inverted in 5 ml MRS broth. In addition, cells were cultured on homolactic-heterolactic differentiation medium (17).
DNA extraction and PCR amplification.
MRS broth cultures of each fermentation isolate were incubated at 30°C for 12 to 16 h and then subjected to DNA extraction. Genomic DNA was isolated using a Wizard genomic DNA purification kit (Promega Corporation, Madison, WI) in accordance with the manufacturer's instructions, with minor modifications. Twenty microliters of mutanolysin (2.4 mg/ml; Sigma-Aldrich) was substituted for lysostaphin. The method of Breidt and Fleming (4) was used to amplify the ITS region between the 16S and 23S rRNA genes. Each 100 µl of reaction mixture consisted of 10 µl of 10x PCR buffer (500 mM KCl, 100 mM Tris-Cl, pH 8.0), 10 µl of 25 mM MgCl2, 1 µl of a deoxynucleoside triphosphate mixture (25 mM of each deoxynucleoside triphosphate; Stratagene), 4 µl of a DNA preparation as described above, 70 µl of water, 1 µl of Taq DNA polymerase (5 U/µl), and 2 µl of each primer. The primers used for PCR amplification (4) were GAAGTCGTAACAAGG and GGGTTTCCCCATTCGGA. All primers in this study were obtained from Sigma-Genosys (Sigma-Aldrich, St. Louis, MO). PCRs were carried out using a model GTC-2 genetic thermal cycler with a model LTM-2 refrigeration unit (Precision Scientific, Inc., Chicago, IL). The temperature program consisted of an initial heat denaturation step of 94°C for 5 min and then 25 cycles of 1 min at 94°C, 5 min at 55°C, and 2 min at 72°C, followed by 5 min at 72°C. DNA products from the PCR were treated (without purification) with 1 µl of an RsaI enzyme solution (16 U/µl) (catalog no. 500890; Stratagene, La Jolla, CA) for 1 h at 37°C. The restriction digest samples were analyzed by electrophoresis in 5% nondenaturing polyacrylamide gels using a vertical gel electrophoresis apparatus (BRL model V16; Invitrogen, Carlsbad, CA). The DNA banding profiles were identified by ethidium bromide staining and were subsequently analyzed using GelCompar II software (Applied Maths, Inc., Austin, TX). For sequencing of 16S rRNA gene variable regions V1 and V2 (21), the primers (2) used for amplification of the 5' end (approximately 300 bases) of the 16S rRNA gene were 5'-AGAGTTTGATCCTGGCTCAG-3' and 5'-GTCTCAGTCCCAATGTGGCC-3'. The PCR program consisted of 10 min at 94°C, followed by 25 cycles of 1 min at 94°C, 2 min at 61°C, and 2 min at 72°C and then 5 min at 72°C. Alternatively, primers 5'-AGTTTGATCMTGGCTCAG-3' (M = A or C) and 5'-AGGAGGTGATCCARCCGCA-3' (R = A or G) were used to amplify the entire 16S rRNA gene (7) using an annealing temperature of 55°C. PCR products were purified using a QIAquick PCR purification kit (Qiagen, Inc., Valencia, CA), and the DNA fragments were sequenced commercially (Davis Sequencing, Davis, CA). Sequences were analyzed by performing a BLAST (Basic Local Alignment Search Tool) search of the National Center for Biotechnology Information nonredundant DNA sequence database (http://www.ncbi.nlm.nih.gov/).
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Glucose and fructose were the primary fermentable sugars in the cabbage (the concentrations were between 1.5 and 2.2%, respectively) (Table 1). Sucrose accounted for only a small amount of the fermentable sugars (less than 0.2% of the cabbage by weight) and was not detectable in Y2 samples. Overall, the cabbage used in Y1 contained more sugar than the Y2 samples. However, the sugar utilization, acid production, and pH profiles were similar in the commercial tanks in Y1 and Y2. The results of the chemical analysis indicated that the fermentations in the four commercial sauerkraut fermentation tanks in Y1 (Fig. 1) and Y2 (not shown) were normal and consistent with those described by Fleming et al. (14) and Pederson and Albury (22). During the first week of fermentation, lactic acid, acetic acid, and mannitol were produced. The pH on day 14 for all fermentations was in the range from 3.4 to 3.7 (data not shown).
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TABLE 1. Biochemistry of cabbage used in sauerkraut fermentations
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FIG. 1. Biochemistry of the Y1 fermentation. Changes in the concentrations of acids and sugars during the first 14 days after the start of the Y1 fermentation are shown. Symbols: , lactic acid; , acetic acid; , mannitol; , glucose; , fructose.
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FIG. 2. Changes in gas production by microorganisms during commercial sauerkraut fermentations. The percentages of total isolates that were heterofermentative (A) or homofermentative (B) on each day (days 1, 3, 7, and 14) for each of the four commercial fermentations sampled are shown. T, tank.
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TABLE 2. Identification of Y1 isolates
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FIG. 3. Microbial diversity of the Y1 fermentation as determined by ITS-PCR and 16S rRNA gene sequencing. The percentages of the total isolates (95, 93, 93, and 90 isolates on days 1, 3, 7, and 14, respectively) that were members of different species are indicated by the bars.
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Isolates from the three Y2 fermentation tanks had the bacterial species profiles shown in Fig. 4 and Table 3. For tank 1, three heterofermentative LAB species (L. mesenteroides, Weissella sp., and L. citreum) were recovered from samples obtained on day 1. However, Weissella sp. accounted for the majority of the isolates recovered (12 of 20 isolates for day 1 and 7 of 19 isolates for day 3). L. curvatus, L. fallax, and L. plantarum were also recovered from day 3 brine samples. L. plantarum was the major LAB species isolated from the Y2 tank 1 samples obtained on days 7 and 14 and accounted for over 46 and 94% of the isolates, respectively. The bacterial species obtained from tank 2 were similar to the tank 1 fermentation species (Table 3). For day 14, L. plantarum was the only LAB isolated from the brine sample; it accounted for 100% (18 of 18) of the isolates. In tank 3, however, eight different species were identified for the 17 isolates obtained from the day 1 sample. Only 1 P. pentosaceus isolate and 1 L. brevis isolate were among the 219 Y2 isolates.
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FIG. 4. Microbial diversity of the Y2 fermentations as determined by ITS-PCR and 16S rRNA gene sequencing. The percentages of the total isolates (95, 93, 93, and 90 isolates on days 1, 3, 7, and 14, respectively) that were members of different species are indicated by the bars. The results for tank 1 (A), tank 2 (B), and tank 3 (C) are shown.
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TABLE 3. Identification of Y2 isolates
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During the transition period between the heterofermentation and homofermentation phases (days 3 to 9), a variety of LAB species, including L. curvatus and Leuconostoc argentinum, were isolated. L. argentinum was originally isolated from raw milk in Argentina (9). L. plantarum became the dominant microorganism after 7 days of fermentation, when the pH decreased to 3.9 or less in all four fermentations. However, we recovered relatively few L. brevis isolates (15 of 686 isolates) and only two isolates of P. pentosaceus. This was surprising because previous research showed that both of these species were considered major bacterial species involved in sauerkraut fermentation (22).
This study and a related study of the bacteriophage ecology of commercial sauerkraut fermentations (15) have significantly altered the classical understanding (11, 22) of the microbiota present in sauerkraut fermentations. Several LAB isolated from the 2-year study had never been previously recovered from sauerkraut fermentations, including Weissella sp., L. argentinum, Lactobacillus coryniformis, L. citreum, Lactobacillus paraplantarum, and Lactobacillus paracasei. This study and a recent study of the comparative genomics of lactic acid bacteria, including L. mesenteroides (16), may also aid in the development of starter cultures and increase our understanding of cabbage fermentation biochemistry and ecology.
We thank Janet Hayes and Roger McFeeters for aid with experiments and helpful discussions and Sandra L. Parker for excellent secretarial assistance.
Mention of a trademark or proprietary product does not constitute a guarantee or warranty of the product by the U.S. Department of Agriculture or North Carolina Agricultural Research Service, nor does it imply approval to the exclusion of other products that may be suitable.
Published ahead of print on 5 October 2007. ![]()
Supplemental material for this article may be found at http://aem.asm.org/. ![]()
Paper no. FSR06-22 of the Journal Series of the Department of Food Science, North Carolina State University, Raleigh. ![]()
Present address: National Center for Genetic Engineering and Biotechnology, 113 Paholyothin Rd., Klong 1, Klong Luang, Pathumthani 12120, Thailand. ![]()
¶ Present address: Department of Biology and Physics, Kennesaw State University, 1000 Chastain Rd., Kennesaw, GA 30144. ![]()
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