Abstract
One objective of this study was to determine overall prevalence of Salmonella in ground pork from U.S. retail stores over three seasons including both case-ready and store-ground packages. Package types collected included: overwrap, chub, modified atmosphere packaging, and other (plastic or wax paper wrapped). Because package type represents different production systems and are subject to varied microbiological government regulation and testing methodologies, both USDA-FSIS and FDA Salmonella isolation protocols were performed. Another objective of the study was to determine serotypes and antimicrobial susceptibility profiles of the isolates obtained from the ground pork samples. Ground pork aliquots were subjected to real-time PCR. Recovered isolates were serotyped and minimum inhibitory concentration analysis to 15 antimicrobials was determined using microbroth dilution. Overall prevalence of Salmonella in ground pork from the 865 samples collected was 1.39%. Prevalence was not affected by package type (p = 0.29) nor grind location (case-ready vs. store-ground; p = 0.17). Season affected Salmonella prevalence (p = 0.05) with most isolates found during fall, and there was a tendency for geographic region to affect prevalence (p = 0.07). The USDA Salmonella isolation method was more effective at recovering isolates (p = 0.01) compared with the FDA methodology and yielded a kappa statistic of 0.26 as a measure of agreement. The serotypes isolated included: Infantis, 4,5,12:i:-, Brandenburg, Typhimurium var 5-, Seftenberg, and Johannesburg with only two packages containing multiple serotypes. No isolates were resistant to antibiotics commonly used to treat human Salmonella infections including extended spectrum cephalosporins or fluoroquinolones. Although the recovery of Salmonella from retail ground pork samples was rare, Salmonella Typhimurium (and its monophasic variant 4,5,12:i:-), which are among the most common serovars recovered from human infections, were recovered. Therefore, more effective strategies to further reduce or eliminate these pathogens from retail pork products are warranted.
Introduction
S
Salmonella have been reported as a bacterial contaminant of raw pork that have also been associated with foodborne infections leading to human illness (Escartin et al., 2000). Studies suggest that among foodborne illness in the United States, 9–15% of all Salmonella infections, and 7.5% of Salmonella Enteritidis and Typhimurium infections, are associated with consuming pork or pork products (Hald et al., 2004; Pires and Hald, 2010). Although the risk of Salmonella infection from pork consumption is low compared with the consumption of other fresh retail meat products [e.g., poultry; M'Ikanatha et al. (2010)], the commonality in strains isolated from pigs and human infections combined with Salmonella's ubiquitous nature in the swine production settings makes it a pathogen of concern for the pork industry. In addition, Salmonella, in fresh retail pork have been reported to be resistant to clinically important antibiotics (White et al., 2001; Bottemiller, 2012). Therefore, the two main objectives for this study were (1) to determine the prevalence of Salmonella in retail ground pork, evaluate factors that may be associated with Salmonella prevalence, and distinguish between Salmonella prevalence in case-ready packages versus store-ground pork using USDA and FDA Salmonella isolation protocols; and (2) to determine the serotypes of the Salmonella isolates and their antimicrobial susceptibility profiles.
Materials and Methods
Sample collection
A convenience sample of packages of ground pork (n = 865) was obtained from retailers across the United States over a 12-month period. The ground pork samples used in this study were collected in 2012 and 2013. Pork samples were obtained from ≥12 cities within each of the 4 geographical regions within the United States (West, South, Central/Midwest, and East) evenly dispersed across three seasons (fall: September–November, winter/spring: January–March, summer: June–August; Table 1). Twenty-four packages were obtained from each city. Approximately 1/2 of the packages collected at each location were case-ready ground pork produced off-site, and the remaining packages were ground/produced on-site at the retail store. Packages were obtained from grocery stores, supercenters, and other markets that sold fresh meats. Before refrigerated shipping, each package was placed in a sealed plastic bag to prevent cross-contamination between packages in the shipping container. After package information was recorded, all identifiers were removed, and packages were assigned a three-digit code before analysis. Of the 865 packages of ground pork collected, ∼55% were overwrap packages, 6% were chub packages, 20% were modified atmosphere packages (MAP), and 19% were wrapped in butcher paper with or without a plastic liner (Other; Supplementary Table S1).
Prevalence of Salmonella Isolated from Retail Ground Pork Based on Region, Season, Package Type, and Grind Location
Other = Butcher-wrapped paper package with or without a plastic liner.
MAP, modified atmosphere packages.
Five, 2.5 cm cores of ground pork were aseptically removed from each package and placed in a Whirl Pack® bag. The cores were mixed thoroughly, and 25-g aliquots were removed for FDA and USDA Salmonella isolation analyses. In addition, a 10-g aliquot from six different packages representing a single location and package type was homogenized to create a composite. A 25-g aliquot of the composite was analyzed by real-time PCR (RT-PCR) utilizing both internal and external positive and negative controls (RT-PCR; BAX, Dupont, Wilmington, DE; 100201; AOAC) similar to that conducted by Chaves et al. (2015b) and Chaves et al. (2015a). If a pooled composite sample was positive for Salmonella, individual packages represented in the composite were tested using the same procedure.
USDA isolation
Individual ground pork samples from a positive composite sample were diluted 10-fold with 225 mL BPW and stomached at 230 rpm for 2 min (Seward Stomacher 400, Davie, FL). Samples were incubated at 37°C for ∼24 h before analysis. Postenrichment, samples were subjected to RT-PCR analysis to determine Salmonella presence. If positive, samples were subjected to USDA Salmonella isolation techniques as described by USDA-FSIS Microbiological Laboratory Guidelines (US Department of Agriculture and Food Safety and Inspection Service, 2019). The enrichment was placed in tetrathionate (TT) and Rappaport-Vassiladis (RV) media and incubated at 37°C and 42°C, respectively, for 18–24 h. After incubation, samples were streaked onto brilliant green sulfa and xylose lysine tergitol-4 agar. Phenotypic colonies were streak plated on new selective media before biochemical confirmation as described hereunder.
FDA isolation
After a sample was deemed positive by RT-PCR analysis, a 25-g aliquot of ground pork was placed into a sterile container with 225 mL of lactose broth for enrichment. Samples were stomached at 230 rpm for 2 min and incubated at 25°C for 1 h. Samples were then enriched at 35°C for ∼24 h. Procedures were followed for Salmonella isolation as described in the FDA Bacteriological Analytical Manual (Andrews et al., 2007). After incubation, 0.1 mL was transferred to 10 mL RV medium, and an additional 1 mL of enrichment was transferred to TT broth. After vortexing, the RV media was incubated ∼24 h at 42°C, and the TT media was incubated for ∼24 h at 35°C. After incubation, one loopful (10 μL) from RV media was streaked onto bismuth sulfite agar, xylose lysine desoxycholate agar, and Hektoen enteric agar. The same process was repeated for TT media. The plates were incubated for ∼24 h at 35°C and were subsequently examined for the presence of phenotypic colonies.
Confirmation
Colonies exhibiting phenotypic Salmonella characteristics were re-streaked onto the same selective media from which they were recovered and were subjected to further biochemical confirmation. Specifically, isolates were subjected to latex agglutination (Oxoid, Thermo Scientific, United Kingdom), and were streaked onto triple sugar iron slants and MacConkey agar. Multiple isolates from each selective media were incubated and frozen in 10% glycerol for storage at −80°C. Isolates were also stored on tryptic soy agar slants and maintained for further antimicrobial resistance and serotyping analysis. Finally, to confirm the effectiveness of RT-PCR (BAX) in the detection of Salmonella in the packages, 144 packages determined to be negative after RT-PCR were subjected to USDA and FDA Salmonella isolation techniques.
Antimicrobial resistance profiling
The resistance breakpoints discussed in the paper are representative of those at the time of sample analysis. Antimicrobial breakpoints as of March 2021 can be found at CLSI (CLSI, 2020). Antimicrobial resistance of individual isolates was evaluated by determining their minimum inhibitory concentration (MIC) to a standard panel of 15 antibiotics (amoxicillin/clavulanic acid, ampicillin, azithromycin, cefoxitin, ceftiofur, ceftriaxone, chloramphenicol, ciprofloxacin, gentamicin, nalidixic acid, streptomycin, sulfisoxazole, tetracycline, and trimethoprim/sulfamethoxazole) using microbroth dilution. Isolates were first inoculated in sterile water and were analyzed on a spectrophotometer and adjusted to a 0.5 McFarland standard. A 10 μL aliquot was then inoculated into 10 mL of Mueller–Hinton broth. Then, 96-well plates containing predetermined concentrations of antibiotics (NARMS CMV3AGNF MIC panel; TREK Diagnostic Systems, Cleveland, OH) were inoculated and incubated for 18–24 h at 35°C. Growth was visually determined (Trek Diagnostics Systems, Inc., Cleveland, OH) with susceptibility and resistance of isolates based on established clinical or surveillance breakpoints (Clinical Laboratory Standards Institute [CLSI]; National Antimicrobial Resistance Monitoring System [NARMS]).
Isolate characterization and serotyping
To examine the genetic similarity of individual Salmonella isolates, pulse-field gel electrophoresis genotyping (CHEF-DRIII; Bio-Rad Laboratories, Hercules, CA) was performed on total genomic DNA. Agarose plugs prepared with the Salmonella isolates were digested using Xbal restriction enzyme (Promega, Madison, WI) following previously reported protocols (Ribot et al., 2006). After electrophoresis, banding patterns were compared and levels of similarity assigned using generally accepted criteria (Tenover et al., 1995). Salmonella isolates were compiled into pulsotypic groups by using the Dice coefficient similarity index and the unweighted pair-group method with arithmetic averages with clustering settings of 1.00% optimization and 1.00% band position tolerance using Bionumerics software (Applied Maths, Kortrijik, Belgium). Salmonella isolates were submitted to the National Veterinary Services Laboratory in Ames, IA for serotyping using polyvalent and single factor antisera to determine the O and H antigens.
Statistical analysis
Crude prevalence estimates were calculated as the proportion of all packages from which a Salmonella isolate was recovered. Crude prevalence was summarized for all packages and by region, season, package type, and grind location. The ability of the FDA and USDA culture methodologies to recover Salmonella from the same packages of ground pork was compared using McNemar's chi-square test to detect disagreement and the kappa statistic to estimate agreement beyond that expected by chance.
Adjusted prevalence estimates were obtained using logistic regression mixed models to estimate the adjusted probability that an individual package of ground pork would be contaminated with Salmonella. The store in which the package was purchased was included in each model as a residual random effect. Variables representing the season, geographical region, package type, and grind location were tested for inclusion in the model as categorical fixed effects using a forward stepwise model building procedure. All data were analyzed using SAS v.9.3 (SAS Institute, Cary, SC) with the Tukey option to separate mean differences at p ≤ 0.05 for all comparisons.
Results and Discussion
Prevalence
Salmonella was recovered from 12 packages (1.39%; Tables 1 and 2), and a total of 61 isolates were collected. Of the packages from which Salmonella was recovered, 75% (9 of 12) were case-ready packages packaged off-site from the retail location. In addition, 83.3% of the positive packages (10 of 12) were collected in the fall season (September–November). Eight of the positive packages were collected in September, and two of the positive packages were collected in November. The remaining two packages were collected in February. Overwrap packaging comprised 50% of Salmonella-positive packages (6 of 12), whereas MAP and chub packaging represented 33.3% and 16.7%, respectively. Most positive packages were collected from the East sampling region (83.3%; 10 of 12), with the other two packages collected in the Central/Midwest sampling region. The overall prevalence of Salmonella in retail ground pork was very low, indicating that Salmonella in retail ground pork may not be a large contributor to human foodborne illness in the United States. After PCR evaluation, 144 samples that tested negative were subjected to FDA and USDA culture isolation methodologies. Salmonella was not recovered from any of the packages after these analyses.
Serotypes of Salmonella-Positive Ground Pork Procured from U.S. Retail Locations
Although limited research has been conducted on Salmonella prevalence in ground pork in the United States, similar prevalence results have been reported in other countries. Salmonella prevalence in Irish pork was reported between 2.0% and 2.9% (Boughton et al., 2004; Prendergast et al., 2009). Salmonella surveillance in Belgium indicated prevalence between 0.3 and 4.3% (Delhalle et al., 2009). Two studies conducted in one metropolitan region in the United States reported 2% and 3.3% of retail pork products were contaminated with Salmonella (Zhao et al., 2006). In another U.S. study, Duffy et al. (2001) reported Salmonella contamination in 8.3% and 10.4% of whole muscle and enhanced whole muscle pork cuts, respectively. In Vietnam, Van et al. (2007) reported 62% of retail pork products contained Salmonella. The EFSA (2018) reported that pig meat and their products were responsible for 4.5% foodborne outbreaks associated with Salmonella, whereas only 1.85–2.15% of pork carcasses tested positive for Salmonella. Salmonella surveillance in other meat products has also been investigated in the United States. Mollenkopf et al. (2011) reported 6.3% of pork chops and 5% of pork ribs were contaminated with Salmonella in two U.S. regions. A Romanian study reported 9.1% of 146 retail pork products were contaminated with Salmonella over a 2-year sampling period (Tirziu et al., 2020).
Multiple factors such as region, season, package type, and grind location were analyzed to determine if each played a role in the Salmonella prevalence of retail ground pork. Salmonella contamination tended to be different among regions (p = 0.07; Table 1) and differed across seasons (p = 0.05; Table 1). More Salmonella was isolated from packages obtained in the fall season than the winter/spring season (p = 0.04). The fall season yielded the greatest Salmonella recovery at 3.47% compared with 0.76% for the winter/spring season. Of interest, no Salmonella was isolated in the summer season. Greater Salmonella prevalence in the fall season and the East region may be the result of two stores in the same town that yielded 50% (6 of 12; case-ready packages) of the positive isolates in this study, indicating store may play a larger role than season or region when estimating ground pork Salmonella prevalence at retail. Naumova et al. (2007) reported increased foodborne illness through Salmonella during summer. In addition, Barkocy-Gallagher et al. (2003) reported less Salmonella on the hides and feces of cattle during winter and spring. Kouppari et al. (2003) reported human clinical infections of Salmonella Enteridis may be season dependent. Although there was a difference between Salmonella prevalence across seasons (p = 0.05), seasonality may not greatly affect prevalence in ground pork owing to the thermoneutral environment in which pigs are produced. Schmidt et al. (2012) sampled pork-processing facilities, and although there were differences between seasons, a strong relationship between Salmonella contamination and season was not observed. However, Sorensen et al. (2005) reported seasonal variance on Salmonella prevalence at pork abattoirs in Denmark.
Salmonella isolation was unaffected by package type (p = 0.29); however, a greater number of chub type packages (3.85%) were contaminated with Salmonella compared with other package types (Table 1). A total of 1.26% of overwrap packages collected contained Salmonella, whereas chub and MAP contained 3.85 and 2.29%, respectively (Table 1). Most of the packages collected were overwrap (55%), and the majority of retail ground pork available for sale in the stores sampled were packaged in overwrapped trays. This is the packaging technology primarily used by stores who grind their own pork, whereas butcher paper wrapping is the second most common packaging used at the store. No Salmonella was isolated from butcher-wrapped (other) packages throughout the study (Table 1). Vipham et al. (2012) reported package type did not affect Salmonella recovery in ground and whole muscle beef cuts collected in the United States. This study appears to be the first to examine ground pork package type and its relation to Salmonella contamination in retail settings.
There was no difference in the Salmonella prevalence of retail store-ground pork compared with case-ready packages (p = 0.17; Table 1). A total of nine case-ready packages were contaminated with Salmonella (1.90%), whereas only three store-ground packages contained Salmonella (0.77%; Table 1). Case-ready ground pork is subject to USDA microbiological testing, whereas store-ground pork is subject to FDA pathogen tests. In this study, both FDA and USDA Salmonella isolation protocols were conducted simultaneously on a single package to compare the effectiveness of each testing methodology. The USDA-FSIS method was the most effective method to isolate Salmonella compared with FDA isolation (p = 0.01). All but one isolate was recovered utilizing the USDA-FSIS Salmonella isolation protocol, whereas the FDA Salmonella isolation protocol recovered only 3 of 12 isolates. These data suggest the two Salmonella isolation methodologies produced varied results. A kappa statistic of 0.26 (95% confidence interval: −0.04 to 0.57) was calculated by comparing the agreement of the methodologies, suggesting there was 26% agreement between methods, beyond chance, in recovery of Salmonella from ground pork samples in this study, although no information was discovered in the literature directly comparing these methods for Salmonella isolation.
A total of 6 serotypes were recovered from the 12 packages and 61 isolates obtained (Table 2). The serotypes isolated included the following: Infantis (n = 2), 4,5,12:i- (n = 1), Brandenburg (n = 1), Typhimurium var 5- (n = 5), Seftenberg (n = 2), and Johannesburg (n = 3). Within serotype, strains were generally highly similar (Fig. 1). Only two packages contained multiple serotypes. All other isolates from packages containing Salmonella were found to be the same serotype. One of the packages containing multiple serotypes contained Typhimurium and Seftenberg, and the other contained Seftenberg and Johannesburg. Korsak et al. (2003) reported the presence of Salmonella Seftenberg, Typhimurium, Infantis, and Brandenburg in the feed of swine, the large intestine, and the surface of the carcass after harvest. In the Netherlands, Swanenburg et al. (2001) also discovered Typhimurium, Brandenburg, and Infantis on pork carcasses. Schlosser et al. (2000) reported the presence of Johannesburg, Typhimurium, and Infantis on pork carcasses and isolated Typhimurium and Infantis, along with other species, in raw ground pork. More recently Tack et al. (2020) reported the most common Salmonella serotypes were Enteritidis, Newport, Typhimurium, Javiana, I 4,[5], 12:i:-, and Infantis in 2019. In Romania, Tirziu et al. (2020) reported the isolation of Salmonella Infantis, Typhimurium, Derby, Enteritidis, Brandenburg, and others in ground pork with the majority of the isolates being Typhimurium.

Dendrogram showing Xba1 pulsed-field electrophoresis profiles for Salmonella spp. isolates recovered from retail packages of ground pork purchased from grocery stores throughout the United States. Text columns indicate the Salmonella serotype, the U.S. state in which the ground pork was purchased, grinding of the product, packaging of the product, season the product was purchased, culture protocol, package ID, and enrichment and differentiation media used.
Antimicrobial resistance
These samples represent Salmonella isolates from ground pork 2012–2013. Recommendations for antibiotic treatment may have been updated since isolate characterization. Conclusions regarding the absence of Salmonella isolates with antimicrobial resistance of importance to human medicine should be interpreted based on current standards. Most notably, the recommendation for the use of azithromycin in the treatment of salmonellosis (CDC, 2019a). Antimicrobial resistance was determined by MIC analysis utilizing a NARMS surveillance panel of antibiotics (Table 3). Sixty isolates were analyzed to determine antimicrobial resistance profiles utilizing breakpoints from the CLSI. Forty isolates exhibited resistance to sulfisoxazole, 36 isolates were classified as resistant to ampicillin, and 37 isolates were classified as resistant to tetracycline (Table 4). Only one isolate exhibited resistance to trimethoprim/sulfamethoxazole. None of the isolates were determined to be resistant to ciprofloxacin, ceftiofur, ceftriaxone, or nalidixic acid. Few isolates exhibited resistance to antibiotics commonly used to treat Salmonella infections in humans. Of more importance than frequency of resistance may be the lack of resistant isolates to important antimicrobials used in human medicine. The CDC reports that severe Salmonella infections in humans may be treated with fluoroquinolones, extended-spectrum cephalosporins, and ampicillin (for susceptible infections), and none of the Salmonella isolates from this study were resistant to either fluoroquinolones or extended-spectrum cephalosporins (Hohmann, 2001; CDC, 2019b).
Black line on the left denote the line in which everything to the left of the line is considered susceptible to the antibiotic at that concentration.
Black lines on the right denote the line in which everything to the right of the line is considered resistant to the antibiotic at that concentration.
Spaces between the lines indicate intermediate resistance to the antibiotic at that concentration.
Frequency of Antibiotic Susceptibility and Resistance by Serotype for Isolates from Retail Ground Pork Samples in the United States1
Frequency = number of isolates resistant to each antibiotic/total number of isolates of each serotype. The isolate was determined to be resistant by minimum inhibitory concentration analysis utilizing a NARMS pork antibiotic panel.
Antiobiotics: Sus, susceptible to all antibiotics; Amp, ampicillin; Aug2, amoxicillin/clavulanic acid 2:1 ratio; Chl, chloramphenicol; Fis, sulfisoxazole; Fox, cefoxitin; Gen, gentamicin; Str, streptomycin; Sxt, trimethoprim/sulfamethoxazole; Tet, tetracycline; Xnl, ceftiofur.
Table 4 frequency calculations included intermediate isolates.
Following PFGE and storage, one isolate could not be recovered.
Antibiotic-resistant Salmonella is a public health and veterinary medical concern because conventional treatments may not be effective in mitigating human or animal illness, and many of the resistance mechanisms are transferrable to other bacteria (Van et al., 2007). Sinwat et al. (2015) reported that all isolates from pork, chicken, and humans were resistant to at least one antibiotic, and >95% of the isolates were classified as multidrug resistant. A report from Romania classified 92% of isolates as resistant to at least one antibiotic (Tirziu et al., 2020).
Conclusion
The overall prevalence of Salmonella in ground pork in this study was low, and likely the result of control measures implemented by the Hazard Analysis Critical Control Point system as well as harvest and processing procedures applied to pork products before consumption. Current testing procedures have become more efficient in identifying contaminated products; however, the methodologies used to isolate Salmonella in this study produced varied results. Further research is warranted to optimize the effectiveness of these testing methodologies. Our results indicate multiple Salmonella serotypes may contaminate ground pork. In addition, Salmonella isolated from ground pork at retail did not contain bacteria resistant to medically important antibiotics commonly used for treating human salmonellosis. Although the industry should continue to utilize technologies and practices to reduce pathogens in pork products, the risk to U.S. public health associated with Salmonella in ground pork appears to be low. This surveillance study may also provide public health authorities with additional information to utilize when managing decisions related to human Salmonella infections.
Footnotes
Disclosure Statement
No competing financial interests exist.
Funding Information
This research was funded, in part, by the National Pork Board through the Pork Checkoff, NPB # 12-170.
Supplementary Material
Supplementary Table S1
References
Supplementary Material
Please find the following supplemental material available below.
For Open Access articles published under a Creative Commons License, all supplemental material carries the same license as the article it is associated with.
For non-Open Access articles published, all supplemental material carries a non-exclusive license, and permission requests for re-use of supplemental material or any part of supplemental material shall be sent directly to the copyright owner as specified in the copyright notice associated with the article.
