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Applied and Environmental Microbiology, February 2008, p. 811-817, Vol. 74, No. 3
0099-2240/08/$08.00+0 doi:10.1128/AEM.01496-07
Copyright © 2008, American Society for Microbiology. All Rights Reserved.

UMR 1219, INRA-Université Victor Segalen Bordeaux 2, Talence, France
Received 4 July 2007/ Accepted 23 November 2007
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During winemaking, LAB are used to improve the organoleptic properties of wine, mainly by converting the malic acid that is present in grape juice and characterized by a strong acidic taste into the softer lactic acid (11). The conversion occurs during a phase of winemaking named malolactic fermentation, when the population of LAB in wine exceeds 106 CFU·ml–1. LAB growing in wine belong to the genera Lactobacillus, Pediococcus, Leuconostoc, and Oenococcus. The species Oenococcus oeni is generally predominant in wines undergoing spontaneous malolactic fermentation, i.e., fermentation performed by LAB naturally present in wine. O. oeni is also the species that is used industrially to inoculate wine in order to perform this fermentation under controlled conditions (11). Histamine is often detected in wines but at a rather low concentration compared to that of other fermented foods, such as cheese (29). However, wine contains alcohol and other substances that increase the toxicity of histamine. Therefore, the recommended upper limits of histamine in wine range from 1 to 10 mg·liter–1 (8). It is well established that histamine is produced by LAB during malolactic fermentation and the ensuing storage period (12, 14). Many HDC+ strains of the genera Oenococcus, Lactobacillus, and Pediococcus were isolated from wine, but it is still not well determined whether these bacteria are frequent and abundant or not during winemaking (2, 7, 9, 13, 20). The role of O. oeni in histamine formation is also unclear. Independent works suggest that HDC+ strains of this species are frequent or rare in wine, and they are considered either weak or strong histamine producers (2, 6, 7, 13, 20).
Real-time quantitative PCR (QPCR) is an efficient technique used to detect and count microorganisms in foods (for a review, see reference 27). During the past few years, diverse methods based on QPCR were proposed to determine populations of yeasts and bacteria in wine (3, 18, 21, 23, 24). Interestingly, a method was recently proposed to determine HDC+ LAB in cheese (4). The present study was initiated with the aim of analyzing the populations of HDC+ LAB present in wine during malolactic fermentation. A method involving QPCR was developed. It was used to analyze 264 samples collected in numerous wineries at the end of malolactic fermentation. Unexpectedly important populations of these undesirable bacteria, comprising between 103 and 107·ml–1, were often detected. The involved bacteria were characterized at the species and strain levels and a correlation was made between populations of HDC+ LAB and concentrations of histamine in wine.
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Wine samples.
All of the 264 samples used in this study were red wines produced in 116 wineries of the Bordeaux, France, area during the 2005 vintage. They were collected at or close to the end of the malolactic fermentation, before SO2 was added. Usually commercial starters are not used for malolactic fermentation in these wines, but this information was not known for some wines.
DNA purification.
Genomic DNA of bacteria grown in MRS broth was prepared by using the Wizard genomic DNA purification kit (Promega) according to the manufacturer's instructions. DNA of microorganisms present in wine was purified by a previously reported method (5) that was modified as follows. Microorganisms of a 10-ml sample of wine were collected by centrifugation at 5,300 x g for 15 min. The pellet was washed once with 1 ml of Tris-EDTA buffer (10 mM Tris hydrochloride [pH 8.0], 1 mM EDTA) and resuspended in 300 µl of the same buffer. Cells were disrupted with 200 µl of 0.1-mm-diameter glass beads in a FastPrep FP120 instrument (MP Biomedicals) used at a power level of 6.5 during five cycles of a 45-s disruption interspaced with 1 min of cooling at 4°C. The cell lysate was mixed with 300 µl of nucleus lysis solution and 200 µl of protein precipitation solution from the Wizard genomic DNA purification kit (Promega) and kept on ice for 5 min. Cell debris and proteins were precipitated by centrifugation for 3 min at 10,000 x g. A volume of 600 µl of supernatant was mixed with 100 µl of 10% polyvinylpyrrolidone molecular-grade solution (Sigma) and centrifuged for 10 min at 10,000 x g. The supernatant was collected and nucleic acids were precipitated in the presence of isopropanol. The DNA pellet was washed once with 70% ethanol, dried, and dissolved in 20 µl of sterile water.
QPCR assay.
Primers hdcAf (5'-ATGAAGCCAGGACAAGTTGG) and hdcAr (5'-AATTGAGCCACCTGGAATTG) were designed on the basis of the sequences of hdcA genes from O. oeni IEOB 9204, Lactobacillus hilgardii IOEB 0006, Lactobacillus sakei LTH 2076, Lactobacillus strain 30A, Lactobacillus buchneri DSM 5987, and Tetragenococcus muriaticus LMG 18498 that were available from databases. This primer set amplifies an 84-bp internal region of hdcA. Amplification and detection were performed with 20-µl reaction mixtures containing 10 pmol of each primer, 1 µl of DNA template prepared as mentioned above, and 10 µl of a 2x concentration of iQ Sybr green supermix (Bio-Rad) using an iCycler system (Bio-Rad). Amplification conditions were 5 min at 95°C, followed by 40 cycles of 95°C for 30 s, 55°C for 30 s, and 72°C for 30 s. The baseline and cycle threshold (CT) were automatically calculated. A melt curve analysis was performed with the same equipment after the completion of QPCR. Samples were heated from 65°C to 95°C in 0.5°C increments. The melting temperature of the samples was automatically determined.
Colony hybridization.
Detection of HDC+ LAB colonies was carried out by colony hybridization as previously described (10). The probe used for hybridization was a mixture of equivalent amounts of PCR products obtained using primers hdc3 and hdc4 specific for a 437-bp fragment of the hdcA gene (14) and genomic DNA of the HDC+ strains O. oeni IOEB 9204, L. hilgardii IOEB 0006, Lactobacillus buchneri DSM 5987, and Lactobacillus strain 30A. The probe was labeled with digoxigenin-11-UTP by using the DIG DNA labeling kit (Roche), and detection was performed by chemiluminescence with an antidigoxigenin antibody and CDP-Star reagent (Roche).
PFGE and Southern blotting.
Bacteria grown in MRS broth up to the exponential phase were collected by centrifugation, washed twice in Tris-EDTA buffer, resuspended in the same buffer adjusted to 100 mM EDTA (T100E), and embedded in 1% agarose slices. The bacteria were incubated at 37°C for 8 h in T100E containing 10 mg·ml–1 lysozyme and incubated for 16 h in T100E supplemented with 1.5% N-lauryl sarcosine and 2 mg·ml–1 pronase. NotI digestions were performed by incubating agarose slices at 25°C for 16 h in the presence of 30 U of the enzyme (New England Biolabs). Pulsed-field gel electrophoresis (PFGE) was carried out in a 1% agarose gel with the CHEF-DR III system (Bio-Rad) with pulse times of 1 to 25 s for 20 h at 6 V/cm and 15°C in 45 mM Tris, 45 mM boric acid, and 1 mM EDTA (pH 8). DNA fragments were transferred onto a Hybond-N+ membrane and hybridized with an hdcA probe as described previously.
Determination of biogenic amines.
Aliquots of wines were centrifuged for 10 min at 10,000 x g. Supernatants were collected, filtered through a 0.2-µm filter (Millipore), derivatized on a precolumn with o-phthaldialdehyde, and separated by reverse-phase high-performance liquid chromatography (HPLC) on a Waters Nova-Pak C18 column according to reference 22.
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A previously described procedure was used to prepare DNA of microorganisms present in wine (5). Some modifications were made in order to purify the microbial DNA from a 10-ml sample of wine and to obtain a DNA fraction free of wine compounds inhibiting PCR, such as polyphenols. The sensitivity and the efficiency of the QPCR assay were determined by using DNA extracted from nine freshly prepared samples containing 10 ml of filter-sterilized wine, 108·ml–1 cells of the yeast Saccharomyces cerevisiae, and serial dilutions of cells of HDC+ L. hilgardii IOEB 0006 (107·ml–1 to 1·ml–1, plus a control without HDC+ cells). The addition of yeasts was used not only to mimic yeast lees present in wine during malolactic fermentation but also to help precipitate the bacteria and to provide a large amount of DNA acting as a carrier during bacterial DNA preparation. Microbial DNA of the nine samples was purified and tested in QPCR. The eight reaction mixtures corresponding to samples containing HDC+ cells produced detectable amplification products and measurable CTs (Fig. 1). The presence of as few as 1 HDC+ cell per ml of wine was detected. In contrast, no amplification occurred in the control reaction performed without HDC+ cells. To determine the efficiency of the method, the measured CT values were plotted against the concentrations of HDC+ bacteria initially present (Fig. 1). A linear relationship was obtained for LAB populations ranging from 1 to 107·ml–1. Therefore, coupling the QPCR assay with the optimized DNA extraction procedure allowed us to determine efficiently populations of HDC+ LAB.
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FIG. 1. QPCR standard curve obtained with DNA of HDC+ cells serially diluted in sterile wine supplemented with yeasts. CT values are averages of results from three replicates. The coefficient of correlation (R2) was 0.996.
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FIG. 2. Comparison of results obtained by QPCR and colony hybridization. The populations of HDC+ LAB present in four wines were determined by QPCR (hatched bars) and colony hybridization (empty bars) using a DNA probe specific for the gene hdcA. QPCR data are the means of three replicates.
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TABLE 1. Populations of HDC+ LAB detected in 264 wines by QPCR
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FIG. 3. Populations of HDC+ LAB determined by QPCR for 264 wines collected during malolactic fermentation in 116 wineries of the Bordeaux area. Each number represents the HDC+ LAB population measured in a wine as described on the figure ("Legend"). They were positioned according to their site of production and grouped together when they were from the same local site.
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FIG. 4. Identification of eight HDC+ O. oeni strains by RAPD analysis (A) and frequency of these strains in four wines (B). Fifty-four bacterial colonies that hybridized with an hdcA probe were analyzed by RAPD analysis. The eight different RAPD patterns (named A to H) obtained for the 54 colonies are shown. Stars indicate some specific bands. The DNA marker was a 1-kb ladder (Promega) (lanes m).
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FIG. 5. Determination of the genetic localization of the gene hdcA in three strains of O. oeni (A, B, and C) by PFGE (A) and Southern blotting (B). Native (n) and NotI-digested (d) genomic DNA of three HDC+ O. oeni strains was separated by PFGE prior to transfer to a nitrocellulose filter and hybridization with a probe specific for hdcA. The sizes of the DNA standards are shown on the left of the figure. Arrows indicate the positions of native chromosomal DNA (ch) and hybridization signals of 100 kb and less than 20 kb.
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FIG. 6. Comparison of histamine concentrations (filled bars) and HDC+ LAB populations (hatched bars) determined in 12 wines by HPLC analysis and QPCR, respectively. Populations of total LAB were determined by enumeration on plates.
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An analysis of 264 wines collected in numerous wineries of the Bordeaux area during malolactic fermentation revealed that almost all wines were contaminated by HDC+ LAB. Previous work performed by PCR to detect these bacteria in a collection of 118 wines suggested that they were present in approximately 50% of the samples (2). It is possible that this proportion was underestimated given that PCR is generally much less sensitive than QPCR. Nevertheless, both studies are consistent and indicate that HDC+ LAB are very frequent in wines. In fact, according to QPCR, they are present in almost all wines during malolactic fermentation. However, populations of HDC+ LAB vary considerably. They represent only a few cells per ml in some samples and more than 106 per ml in others. It is usually considered that undesirable LAB may produce alterations in wine when their population reaches 103·ml–1 or more (11). QPCR revealed that nearly 70% of the wines contained HDC+ populations above this level during malolactic fermentation. Determination of histamine concentrations in some wines showed that almost all of those containing more than 103·ml–1 HDC+ LAB also contained more than 1 mg·liter–1 histamine. In contrast, histamine levels were negligible in wines with lower HDC+ populations. Therefore, 103 HDC+ LAB·ml–1 could be considered the upper limit above which the risk of histamine accumulation becomes important.
Interestingly, in wines containing more than 103·ml–1 HDC+ LAB, the production of histamine is not proportional to the population of HDC+ LAB. For instance, 6.5 x 106 HDC+ LAB per ml produced only 2.5 mg·liter–1 histamine, compared to the 18.2 mg·liter–1 produced in another wine containing 8.7 x 105 HDC+ LAB per ml. It is important to note that the QPCR assay proposed here does not discriminate between live and dead cells nor between functional genes and pseudogenes. The results suggest that the limiting factor for histamine production in most wines is not the population of HDC+ LAB. Therefore, the determination of the HDC+ LAB population would not allow the prediction of the final concentration of histamine in wine. However, it could help to predict the risk of histamine spoilage given that populations of HDC+ LAB only above 103·ml–1 produce concentrations of histamine exceeding the recommended upper limit in wine. Among the other factors possibly involved in the accumulation of histamine, the concentration of the amino acid precursor, histidine, is probably important (15). Histamine production seems to increase with the use of winemaking techniques such as maceration with grape skins or yeast lees (13, 17). It is likely that these techniques contribute to an increase in the concentration of histidine in wine, which can in turn be converted to histamine by HDC+ LAB.
Recurrence of HDC+ O. oeni strains during malolactic fermentation.
The HDC+ bacteria isolated from wine until now belong to many species, including O. oeni, L. hilgardii, Lactobacillus mali, Leuconostoc mesenteroides, and Pediococcus parvulus (7, 8, 14, 20). Therefore, it was unexpected to find that all of the 54 HDC+ colonies analyzed in this study were strains of the same species, O. oeni. This result suggests that HDC+ O. oeni bacteria are frequently present at high populations during malolactic fermentation. The predominance of this species is well supported by previous findings: (i) O. oeni becomes predominant during spontaneous malolactic fermentation and is often the only species detected at this stage (11), (ii) a large proportion (25% to 60%) of strains with the capacity to produce histamine exist in the species O. oeni (6, 7), and (iii) the dominance of HDC+ bacteria of the species O. oeni during malolactic fermentation is a possibility (2). Interestingly, this study revealed that a few strains of HDC+ O. oeni were present in diverse wines produced at distant sites. These strains were probably propagated in the vineyard before that grape was harvested or in the wine at the very beginning of winemaking. Dissemination of a limited number of strains in the wineries of a region followed by spontaneous malolactic fermentations could explain why these strains are frequent and abundant in wines during malolactic fermentation. However, it must be noted that these results were obtained for wines of the same region and collected during the same vintage. It remains to be determined whether the results repeat for other regions and vintages.
Localization of hdcA and instability of the HDC+ phenotype.
The detection of many HDC+ O. oeni strains in environmental samples contrasts with the low abundance of these strains in laboratory collections of wine LAB (1, 20). In our collection, which comprises several hundred O. oeni strains, only two scored positive in a PCR test specific for hdcA (unpublished results). The results reported here suggest that this situation results from the genetic localization of hdcA. Indeed, in three O. oeni strains, the gene was detected on a large plasmid of a size supposed to be 100 kb. In a previous work, hdcA was detected on an 80-kb plasmid in the HDC+ strain L. hilgardii IOEB 0006 isolated from wine (14). This plasmid was unstable and was rapidly lost during bacterial cultures. Similarly, if the O. oeni plasmid containing hdcA was unstable, then HDC+ strains could be easily converted into HDC– strains during subcultures of the bacteria in laboratory. This could explain some surprising experimental results, such as the low abundance of HDC+ strains in laboratory collections in contrast to the high frequency of these strains in environmental samples (2, 13, 20). Interestingly, a previous work has reported that HDC+ O. oeni strains were unstable during subcultures in laboratory-defined media (13). It remains to be determined if this instability actually results from the loss of the plasmid carrying hdcA.
This work was supported by the European Commission (contract number QLK1-CT-2002-02388).
Published ahead of print on 7 December 2007. ![]()
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