Detection limits of Legionella pneumophila in environmental samples after co-culture with Acanthamoeba polyphaga

Abstract

Background

The efficiency of recovery and the detection limit of Legionella after co-culture with Acanthamoeba polyphaga are not known and so far no investigations have been carried out to determine the efficiency of the recovery of Legionella spp. by co-culture and compare it with that of conventional culturing methods. This study aimed to assess the detection limits of co-culture compared to culture for Legionella pneumophila in compost and air samples. Compost and air samples were spiked with known concentrations of L. pneumophila. Direct culturing and co-culture with amoebae were used in parallel to isolate L. pneumophila and recovery standard curves for both methods were produced for each sample.

Results

The co-culture proved to be more sensitive than the reference method, detecting 10²-10³ L. pneumophila cells in 1 g of spiked compost or 1 m³ of spiked air, as compared to 10^5-10⁶ cells in 1 g of spiked compost and 1 m³ of spiked air.

Conclusions

Co-culture with amoebae is a useful, sensitive and reliable technique to enrich L. pneumophila in environmental samples that contain only low amounts of bacterial cells.

Background

The genus Legionella includes approximately 53 species[1], with Legionella pneumophila being the most common human pathogenic species and causing 90% of all outbreaks of Legionnaires’ disease (LD) in Europe[2]. Legionella species are ubiquitous microorganisms, occurring predominantly in aquatic environments, freshwaters and hot water systems[2], soils, potting soils[3], and composts[4]. Cooling towers, whirlpool spas and shower faucets could be the sources of contaminated bioaerosols, the inhalation of which is generally considered to cause LD outbreaks[2].

A variety of culture methods to detect Legionella species are used to analyze environmental samples[5]. Experience of the laboratory staff in Legionella identification mostly influences and limits the sensitivity of the method[2]. For clinical samples, for instance, the sensitivity and specificity of culture for respiratory secretions are approximately 42.8% and 100%, respectively[5, 6]. The standard detection method (ISO/DIS 11731) for Legionella in environmental samples consists of inoculating samples on selective glycine–vancomycin–polymyxin B–cycloheximide (GVPC) agar or on non-selective buffered-charcoal-yeast-extract (BCYE)[5, 7]. Limitations of the plating method are prolonged incubation periods[5, 8]; bacterial losses due to sample centrifugation or filtration and decontamination steps[8]; presence of contaminating microorganisms that may interfere with Legionella growth, thus decreasing sensitivity; and presence of Legionella cells as viable but not cultivable (VBNC) organisms[9]. The sensitivity of the culture method for samples with low Legionella counts (e.g. bioaerosols and rain) may be enhanced with an efficient enrichment or concentration step; correspondingly, samples with a rich and diverse flora (e.g. soils and composts) should be decontaminated before culture to inhibit growth of concurrent microorganisms[5], because the use of selective media cannot completely inhibit the growth of moulds, bacteria and yeasts[5].

Free-living amoebae (FLA) have long been used to enhance isolation of amoeba-resistant bacteria[10] and already more than 20 years ago Rowbotham proposed to use amoebal enrichment (co-culture) to recover Legionella from natural habitats and clinical specimens[11].

Co-culture aims to enrich the bacteria present in the specimen by exposing them to viable host amoebae[12]. The relative numbers of amoebae used for enrichment is important because too few amoebae may be destroyed before infection[13] and too many may encyst before spread, because L. pneumophila is able to penetrate trophozoites but not cysts[13]. Using co-culture, Legionella bacteria could be easily detected even in samples with high contaminant loads[12]. Macrophages have also been employed for enrichment steps[11].

L. pneumophila serogroup 1 strains are known to grow inside Acanthamoeba (A. castellanii and A. polyphaga) and Naegleria[14]. Non-pneumophila strains, e.g. L. anisa[12], L. drancourtii[15], L. micdadei[16], have also been isolated by co-culture with A. polyphaga.

Because of its sensitivity, the co-culture has the potential of improving bacterial yields in surveys of environmental samples with low Legionella counts or containing contaminating microorganisms. Co-culture has been described as the method of choice for the isolation of Legionella species, but no investigations have so far been carried out to compare the recovery efficiency for Legionella by co-culture with that of conventional culturing methods. In addition, the efficiency of recovery and the detection limit of Legionella after co-culture with A. polyphaga are not known.

In the present work, we utilized L. pneumophila as a model organism to study the interactions with A. polyphaga which, together with A. castellanii, is one of two FLA frequently used in co-culture experiments. We used trophozoites of the A. polyphaga because this species can be easily infected with L. pneumophila and can be effortlessly grown in vitro[13, 14].

This study aimed to determine the detection limits of co-culture with A. polyphaga compared to conventional culturing methods for L. pneumophila in compost and air samples.

Methods

Bacterial and amoebal strains

L. pneumophila Philadelphia 1 (Lp1) strain (ATCC 33152) was grown on BCYE (bioMérieux, Geneva, Switzerland) at 36°C for 48 h, re-suspended and adjusted to 1.5 × 10⁸ CFU/ml in 2.5 ml of API® suspension medium (bioMérieux) with an ATB 1550 densitometer (bioMérieux) to prepare the dilutions to be used for spiking. One millilitre of serial dilutions of Lp1 suspension were prepared to obtain a range of 1 × 10 to 1 × 10⁸ bacteria/ml in Page’s saline solution (PAGE: 120 mg/l NaCl, 4 mg/l MgSO₄ · 7H₂O, 4 mg/l CaCl₂ · 2H₂O, 142 mg/l Na₂HPO₄ and 136 mg/l KH₂PO₄).

Acanthamoeba polyphaga (strain ATCC 50362) was grown overnight in peptone-yeast extract-glucose (PYG) medium[17]. The trophozoites were then washed three times and re-suspended in PAGE. Finally, the amoebae were counted and their concentration was adjusted to approximately 9 × 10⁵ cells/ml.

Sterile compost and air samples

The compost was collected in an open-air composting facility in southern Switzerland. Compost samples were sterilized for 15 min at 121°C before spiking to eliminate Legionella cells potentially present in the compost[4].

Air samples are usually collected in the field with a portable cyclonic air sampler (Coriolis μ, Bertin technologies, Montigny, France) with a flow rate of 250 l/min during 4 minutes and the aspirate is diluted in 10 ml PAGE. Hence, for our experiments we used 10 ml sterilized PAGE samples spiked with known amounts of Legionella cells.

Spiking of the compost and air samples

To assess the detection limits and the recovery efficiency of culture and co-culture, 9 aliquots of 5 g sterile compost or of 9 ml of sterile PAGE were spiked with 1 ml of serial dilutions of Lp1 suspension to obtain a dilution range of 1 to 1 × 10⁸ cells per 5 g of compost or per 10 ml PAGE. Ten millilitres of sterile PAGE or 5 g sterile compost re-suspended in 10 ml sterile PAGE were used as negative controls. After spiking, compost and PAGE were thoroughly mixed to distribute bacteria homogeneously in the samples and 9 ml of sterile PAGE were added to the compost. The compost suspensions were mixed during 30 min at room temperature.

Recovery of Legionella from spiked samples by conventional culture

Ten microlitres of the compost supernatants and of the PAGE samples were diluted 1:100 with 0.2 M HCl-KCl acid buffer (pH 2.2), vortexed three times during 10 min and incubated at room temperature as previously described[18]. Then, 50 μl of each dilution and negative control of the spiked compost supernatant and PAGE samples were plated directly onto GVPC agar (bioMérieux) in duplicate and incubated at 36°C for 5 days. The amount of sample inoculated on the plate was 1/20,000 of the original compost portion.

Recovery of Legionella from spiked samples by co-culture

Co-culture was performed using a PAGE suspension of axenic A. polyphaga. A suspension of 900 μl of amoebae (approximately 9 × 10⁵ amoebae/ml) was added to each well of a 24-well microplate (TPP, Techno Plastic Products AG, Trasadingen, Switzerland) and incubated for 1 h at 36°C to obtain an amoebal monolayer. One-hundred microlitres of each spiked compost supernatant were then added to each well. One well of each plate contained only a PAGE suspension of axenic A. polyphaga as negative control. After inoculation, the microplates were centrifuged at 1,000 g for 30 min and incubated during 7 days at 36°C in a moist chamber[12]. After 7 days the wells were scraped with a 1,000 ml pipette tip to detach the amoebal monolayer from the well bottom. Then, 20 μl samples were diluted 1:10 with 0.2 M HCl–KCl acid buffer (pH 2.2) and vortexed three times during 10 min at room temperature. After acid shock, 100 μl amount of each acid-treated sample was then plated on solid GVPC agar and incubated at 36°C for 5 days.

Recovery of Legionella from untreated, natural samples

Culture and co-culture were performed in parallel on 88 compost and 23 air samples collected in composting facilities located in southern Switzerland. Air samples of 1 m³ were collected in 10 ml PAGE as previously described and compost samples were collected and stored in plastic bags at 4°C for 24 h. Compost supernatants were also plated directly onto both GVPC and MWY agar (bioMérieux). All Legionella-like colonies were identified by MALDI-TOF MS[1] and by slide agglutination tests (Legionella Slidex, bioMérieux, Switzerland). Serotyping of Legionella pneumophila isolates was performed by indirect immunofluorescence assay, using the monoclonal antibodies from the Dresden panel[19].

Data analysis

Mean and standard deviations of the colony forming units (CFU) values obtained were determined in two parallel experiments for both compost and air samples. All measurements were carried out in duplicate. Calculations and graphical displays were prepared using Microsoft Excel 2003.

The limit of detection for direct culturing and co-culture of the spiked compost and air samples was defined as the fifth percentile of all analyzed positive and negative samples.

The final Legionella counts of both methods were multiplied by the corresponding dilution factor of each method to normalized the data. 100% efficiency of recovery was calculated as if all inoculated Legionella could be recovered.

Results and discussion

This study demonstrates that the detection limit of co-culture is lower than that of conventional culture and allows detecting Lp1 in compost and air samples when the concentration is as low as 10⁵ cells in 1 m³ air and 10⁶ in 1 g compost samples.

The recovery of Lp1 from the compost by co-culture was significantly higher than with culture alone: the co-culture method showed a 3 logs higher sensitivity, with a detection limit of 10² in 1 g (culture: 10⁵ in 1 g compost) (Figure 1), similarly the recovery of Lp1 from the air (Figure 2) by co-culture was 3 log units higher, with a detection limit of 10³ Lp1 cells in 1 m³ air (culture: 10⁶ cells in 1 m³ air).

Figure 1

Recovery of spiked L. pneumophila in sterilized compost sample. (●) culture, (■) co-culture and (♦) theoretical recovery by 100% efficacy (means; bars: standard deviation).

Figure 2

Recovery of spiked L. pneumophila in sterilized air sample. (●) culture, (■) co-culture and (♦) theoretical recovery by 100% efficacy (means; bars: standard deviation).

Recovery from air and compost samples by conventional culture were approximately one log unit lower, compared to the theoretical recovery by 100% efficiency. By contrast, the recovery by co-culture from both compost and air were at least 2 logs higher compared to the theoretical recovery by 100% efficiency (Figure 1 and Figure 2).

An important limitation of this, as well as of previous, similar studies, is the lack of quantification of the amplification power by amoebae. In fact, only Legionella cells that grow on GVPC agar after interaction with A. polyphaga can be counted. The amount of Legionella cells that are present as free cells in the supernatant and the cells that are not phagocyted by the amoeba cannot be assessed. Entry/uptake of Legionella by the amoebae, the ability of Legionella to replicate within and to escape from the amoebal cytoplasm cannot be reliably quantified using standard methods[20]. We further observed that co-culture needs longer incubation periods than culture. We do not tested the recovery of Legionella from spiked samples without acid treatment, we are aware that this causes a dilution of samples, but for non-sterile compost samples the recovery of Legionella without acid treatment is not possible due to overgrowth of contaminant flora. Nevertheless, our study shows that co-culture, on the average, allows detecting smaller amounts of Legionella cells in a given substrate.

The analysis of non-sterile compost samples with a higher load of Legionella contamination showed no relevant difference in isolation rates between culture and co-culture; by contrast, recovery of Legionella from air samples, in which a lower contamination load can be expected, was possible only by co-culture (Table 1). In the compost samples with negative co-culture the load of Legionella is high. In general, other non-pneumophila species and contaminant flora present in the non-sterile compost samples could compete with Legionella for amoebal uptake (Additional file1). The hypotheses that could explain the negative co-culture results are: not all Legionella cells could replicate within amoebae and Legionella could “be eaten”; it is also possible that the cells were not uptake by the amoebae (no contact or interaction). It should be noted that the population of Legionella represent only the 0.01% of all the compost bacterial flora[21].

Table 1 Table 1 Percentage and no. of samples from wich Legionella spp. were recovered by culture and co-culture

Culture, however, yields apparently a better picture of the biodiversity of Legionella spp. in compost (Table 1); in fact, more species were recovered from each sample, whereas only one or two species per sample were enriched by co-culture (Additional file1). Up to now, in Switzerland and in Europe mainly L. pneumophila was isolated from compost[4, 22], in contrast to Australia and Japan where L. longbeachae was frequently isolated from compost by the conventional culture method[3, 23].

Co-culture allowed enriching Lp1 by up to 6 log units from the starting bacterial cells number; the method is thus potentially useful in environmental monitoring, in particular when low Legionella loads are expected (e.g. bioaerosol, rain and water). The presumptive concentration of Legionella bacteria in the bioaerosols of composting facility is between 0 to 10³Legionella per m³.

The detection of Legionella in environmental samples such as soil and compost is hampered by the presence of other microorganisms (mould and bacteria) that grow on selective media and may interfere with the Legionella growth, leading to an underestimation of the effective number of Legionella present in the sample[4]. PCR allows quantification, but the amplification of DNA of dead cells present in a sample makes the interpretation of results difficult; PCR is not an alternative for a reliable quantification of Legionella in environmental samples because humic acids present in the samples may inhibit the reaction[24, 25]. PCR has also been used to detect Legionella spp. in clinical samples, but sensitivity varies greatly (30-90%) depending on the type of specimen studied. In addition, the design of generic Legionella spp. primers is difficult[26].

Previous studies reported that the use of co-culture has allowed the isolation of L. pneumophila when plating on BCYE agar plates did not yield any colonies; it has also allowed isolation of several fastidious Legionella species from clinical stool[27] and sputum samples[12], as well as from environmental samples such as floating biofilms[28]. Co-culture allows the recovery of VBNC cells[14, 29] or of some Legionella species not growing onto BCYE agar[12], such as Legionella-like amoebal pathogens (LLAP)[30] or L. pneumophila in pulmonary specimens[31]. According to Descours et al. (2012) the amoebic co-culture was effective to isolate Legionella spp. from respiratory samples contaminated with other microorganisms even if the type of sample impacted on the performance of culture and co-culture[31].

Conclusions

The use of co-culture is thus potentially useful to detect Legionella spp. in clinical samples with a low degree of contamination by Legionella spp., but the long incubation period needed is a strong negative aspect of the method.

Further studies are needed to test different amoebal strains susceptibilities to various Legionella species. The detection of Legionella in environmental samples is still commonly carried out by conventional culture, but co-culture should be considered whenever there is a need to detect Legionella or VBNC expected to be present at concentrations below 10⁵ – 10⁶ cells, in particular when working with air samples.