Category Archives: Microbiological Risk Assessment

Research – Fall Seasonal Effects Connected to E. coli Outbreaks in Bagged Romaine

USDA

Agricultural Research Service scientists have begun to uncover details underlying a pattern of seasonal E. coli O157:H7 outbreaks linked to bagged romaine lettuce.

That E. coli O157:H7 infection outbreaks connected to romaine are more frequently associated with lettuce commercially grown and harvested at the end of the growing seasons in California and Arizona has been recognized for several years. Although contamination of lettuce products is rare, between 1998 and 2019, 36 outbreaks that traced back to lettuce were recorded by the Centers for Disease Control and Prevention. Most of these outbreaks involved romaine lettuce harvested in the fall on the California Central Coast such as in Salinas, and in late winter in Southern California and Arizona. These two states are the major lettuce growing areas in the United States with farm production valued at nearly $2.7 billion in 2021.

“To begin unravelling the causes of these seasonal outbreaks, our research team looked at various factors to identify conditions that may increase E. coli survival on fresh-cut lettuce that we grew in Salinas, and processed and cold-stored in modified atmosphere packaging as is done commercially,” said ARS microbiologist Maria Brandl, with the Produce Safety and Microbiology Research Unit of the ARS Western Regional Research Center in Albany, California, and leader of the study.

One of the most significant findings of this study is that E. coli survived on average 5.6 times better in cold-stored packaged romaine harvested in the fall than on the same varieties harvested in late spring.

Romaine lettuce

ARS scientists have begun to unravel details that may underly a pattern of fall E. coli O157:H7 outbreaks linked to bagged romaine lettuce. (Photo courtesy of Getty Images)

“We also found that among romaine varieties with longer and shorter shelf life in this study, the deterioration rate of the variety with long shelf life was significantly greater when harvested in the fall than in spring. I have observed this in previous studies as well but the significance to E. coli on lettuce had not been tested. Here we showed that greater deterioration in the fall lettuce was associated with better pathogen survival,” explained study co-author ARS geneticist Ivan Simko, with the Crop Improvement and Protection Research Unit in Salinas, California.

In addition, the research team, which included biologist Susan Leonard and others at the U.S. Food and Drug Administration, demonstrated that the bacterial community present on bagged romaine differed by season, lettuce deterioration state, and whether survival of E. coli on the lettuce was high or low. This suggests a potential for using the microbiome as an indicator of the microbial quality of fresh-cut bagged lettuce.

The researchers were a little surprised to find such differences in E. coli survival in fall harvested-lettuces compared to spring-harvested ones because many current hypotheses about the seasonality of outbreaks linked to lettuce focus on differences in the prevalence of the E. coli pathogen in the environment.

“While prevalence may also be involved, our results strongly indicate that fall-harvested romaine and the microbe communities it harbors have intrinsic characteristics that make them a better place for E. coli to survive in fresh-cut product. These are the next areas we want to work on. For example, is this something we could try to manipulate in the long run through plant physiology and breeding, and microbiome engineering? And would this trend also be observed for E. coli survival in the field? Our observations definitely open an entire new branch of inquiry about outbreak seasonality,” Brandl said.

Research – New NARMS report shows rising resistance in Salmonella, Campylobacter

CIDRAP

The latest data from a national surveillance system that monitors foodborne bacterial pathogens for antimicrobial resistance (AMR) shows some concerning changes in resistance patterns among serotypes of Salmonella.

The findings come from the National Antimicrobial Resistance Monitoring Systems (NARMS) 2019 Integrated Summary, which combines data from the Centers for Disease Control and Prevention (CDC), the Food and Drug Administration (FDA), and the US Department of Agriculture (USDA). The report provides a snapshot of resistance patterns found in bacteria isolated from humans, animals, raw meats from retail outlets (chicken, ground turkey, ground beef, and pork chops), and meat and poultry product samples collected at slaughtering facilities.

In addition to Salmonella, which causes an estimated 1.35 million illnesses and 26,500 hospitalizations each year, the NARMS report also includes resistance data on Campylobacter (1.5 million illnesses and 19,500 hospitalizations), Escherichia coli, and Enterococcus. NARMS monitors these bacteria to detect emerging resistance patterns to the antibiotics that are most important to human medicine, multidrug resistance, and specific resistance genes.

Increase in multidrug-resistant Salmonella serotype

Overall, the NARMS report shows that more than three fourths of the Salmonella isolates (78%) from humans were not resistant to any of the antibiotics tested, and that the overall level of resistance in humans remains relatively unchanged since 2018. However, the report also found rising resistance to ciprofloxacin—one of the three antibiotics used to treat severe Salmonella infections.

From 2018 to 2019, Salmonella with decreased susceptibility to ciprofloxacin increased from 9% to 11% in humans, from 18% to 31% in retail chicken, from 20% to 30% in chicken product samples, from 26% to 32% in chicken cecal content samples, and from 0% to 14% in retail pork samples.

The increase in resistance to ciprofloxacin among poultry isolates was primarily due to the increase in Salmonella Infantis, a multidrug-resistant (MDR) serotype that emerged in 2014.

The rise in Salmonella Infantis isolates was also behind an increase in MDR isolates found in retail chicken (from 20% to 32%) and in chicken product samples (22% to 29%). Up to 10 antimicrobial resistance (AMR) genes were found in some of the Salmonella Infantis isolates.

In addition, the NARMS report shows an increase in another MDR Salmonella serotype, I 4,[5],12:i:-, which is linked to pigs and has become an increasing public health concern in Europe and the United States. The percentage of MDR isolates from humans that are of the I 4,[5],12:i:- serotype rose from 7% in 2010 to 26% in 2019, and from 7% to 35% in swine samples.

NARMS data also show rising fluoroquinolone resistance in Campylobacter isolates. In humans, the proportion of ciprofloxacin-resistant Campylobacter isolates rose from 29% in 2018 to 34% in 2019 for Campylobacter jejuni and from 41% to 45% in C coli. Ciprofloxacin-resistant C jejuni isolated from chicken cecal contents (21% in 2018 to 26% in 2019) and chicken retail samples (20% to 22%) also rose.

Analysis of E coli isolates found increases in ceftriaxone resistance in sow cecal samples (3% in 2018 to 7% in 2019) and in retail pork (4% to 7%). Whole-genome sequencing of Salmonella and E coli from animals, animal products, and retail meats found that none harbored any of the MCR-1 through MCR-8 colistin-resistance genes.

USA/Canada – Norovirus Outbreak Linked to Raw Oysters from British Columbia

CDC

Fast Facts
Illnesses: 103 illnesses* have been reported as of April 6, 2022

States affected: CA, CO, FL, HI, IL, MA, MN, NJ, NV, NY, OR, TX and WA

Recall: No

Investigation Status: Active

*This number is an estimate based on the information we have at this time. CDC is working with state and local partners to determine a more accurate number of illnesses in this outbreak and will update this number as more information is gathered.

CDC is working with the U.S. Food and Drug Administration (FDA) state, and local officials, and with Canadian public health authorities to investigate a multistate norovirus outbreak linked to raw oysters from British Columbia, Canada.

As of April 6, 2022, at least 103 norovirus illnesses have been reported from 13 states: CDC is working with state and local partners to determine a more accurate number of illnesses in this outbreak and will update this number as more information is gathered. FDA Advises Restaurants and Retailers Not to Serve or Sell Potentially Contaminated Raw Oysters from Canada (April 2022)external icon

Norovirus is the leading cause of foodborne illness in the United States. However, state, local, and territorial health departments are not required to report individual cases of norovirus illness to a national surveillance system. That’s why we may not know about many cases, especially if people do not go to a doctor’s office or hospital. Each year, there are about 2,500 reported norovirus outbreaks in the United States. Norovirus outbreaks occur throughout the year but are most common from November to April.

State and local public health officials are interviewing people about the foods they ate a day to four days before they got sick. In interviews, many of the sick people reported eating raw oysters.

State and local officials have collected information about the source of oysters from restaurants where sick people ate. FDA has confirmed that potentially contaminated raw oysters were harvested in the south and central parts of Baynes Sound, British Columbia, Canada. The FDA and the states are conducting a trace forward investigation to determine where the raw oysters were distributed and to ensure they’re removed from the food supply.

This investigation is ongoing. CDC will update the public as more information is gathered.

Research – Microbiology and Epidemiology of Escherichia albertii—An Emerging Elusive Foodborne Pathogen

MDPI

Escherichia albertii, a close relative of E. coli, is an emerging zoonotic foodborne pathogen associated with watery diarrhea mainly in children and immunocompromised individuals. E. albertii was initially classified as eae-positive Hafnia alvei, however, as more genetic and biochemical information became available it was reassigned to its current novel taxonomy. Its infections are common under conditions of poor hygiene with confirmed transmission via contaminated water and food, mainly poultry-based products. This pathogen has been isolated from various domestic and wild animals, with most isolates being derived from birds, implying that birds among other wild animals might act as its reservoir. Due to the absence of standardized isolation and identification protocols, E. albertii can be misidentified as other Enterobacteriaceae. Exploiting phenotypes such as its inability to ferment rhamnose and xylose and PCR assays targeting E. albertii-specific genes such as the cytolethal distending toxin and the DNA-binding transcriptional activator of cysteine biosynthesis encoding genes can be used to accurately identify this pathogen. Several gaps exist in our knowledge of E. albertii and need to be bridged. A deeper understanding of E. albertii epidemiology and physiology is required to allow the development of effective measures to control its transmission and infections. Overall, current data suggest that E. albertii might play a more significant role in global infectious diarrhea cases than previously assumed and is often overlooked or misidentified. Therefore, simple, and efficient diagnostic tools that cover E. albertii biodiversity are required for effective isolation and identification of this elusive agent of diarrhea. View Full-Text

RASFF Alert – Animal Feed – Salmonella

RASFF

Salmonella Infantis, Salmonella Derby, Salmonella Reading and Enterobacteriaceae in frozen dog food from Germany in the Czech Republic

Research – Food Safety in Focus: Clarifying Potential Hazards on Low-Moisture Foods

Newswise

Newswise — Washington D.C. — New research on hazards in low-moisture foods fills critical knowledge gaps and identifies cutting-edge decontamination tools that empowers food safety professionals to reduce risks in low-moisture foods and prevent foodborne illness outbreaks. To evaluate these hazards, the Institute for the Advancement of Food and Nutrition Sciences (IAFNS) supported a body of research on this topic.

The persistence of pathogens and viruses in ingredients and ready-to-eat foods has wide-ranging impacts on our food supply, and ultimately our health. Because low-moisture foods (LMF) such as nuts, dried fruits, cereal products, and chocolate are often used as ingredients in the manufacture of other foods, they carry significant potential for the amplification of outbreaks and recalls over a wide variety of products.

There has been worldwide recognition of the need to more seriously manage the microbiological hazards associated with these products. In particular, the underlying factors that mediate pathogen survival in LMF under standard processing and storage conditions—as well as mechanisms for isolating and inactivating them—have yet to be fully understood.

To address this need, IAFNS supported a body of research on this topic. Part of these studies were performed as part of a multi-center research collaboration between the University of Guelph, Health Canada, and North Carolina State University. This collaboration between investigators in the United States and Canada enabled the investigators’ diverse perspectives and expertise to strengthen this line of research.

For example, foodborne bacterial and viral pathogens such as Listeria monocytogenesSalmonella, and norovirus can survive in LMF and in dry food processing environments for months, or even years. Whether—and for how long—these pathogens remain capable of causing human illness is not completely understood. According to Dr. Jeff Farber of the University of Guelph, “the increased awareness of the importance of low-moisture foods as a possible vehicle for foodborne illness has already led to better approaches towards prevention and control and will continue to do so in the future.”

Furthermore, the lower moisture content of dry foods and manufacturing environments can substantially increase the heat resistance of foodborne pathogens and can increase their tolerance to further treatments, posing a vexing food safety challenge. As such, IAFNS supported further work by Dr. Meijun Zhu at Washington State University to comprehensively evaluate L. monocytogenes survival in LMF during heat processing, and to examine factors impacting their resistance. According to Dr. Zhu, “L. monocytogenes can survive in LMF for an extended period. The desiccation stability of L. monocytogenes in LMF is impacted by water activity, food matrices, and storage temperature. The thermal resistance of L. monocytogenes in LMF is inversely related to water activity and depends on the food composition. In general, L. monocytogenes is more stable at lower water activity and fat-rich food matrix.”

The key findings from this series of studies and their impact on public health are summarized below.

Findings

Identifying Novel Genes That Facilitate Survival of Salmonella in LMF

Ten genes important to Salmonella survival on LMF were impaired and their survival studied on pistachios. Pistachios were treated with pathogens and then measured after treatment, after drying, and after 120 days. The findings support a mutagenesis and sequencing strategy to identify genes key to Salmonella survival on LMF.

Modeling L. monocytogenes Survival on Model LMF

Three model LMF were inoculated with a 4-strain cocktail of L. monocytogenes to evaluate their survival under long-term (8-12+ months) storage at 23°C and 4°C. Decreases in L. monocytogenes during storage on the LMF were the result of both cellular inactivation and transition to a viable-but-not-nonculturable state. The surviving cells — specifically after long-term storage at 4°C on the chocolate liquor and pistachios — remained infectious and capable of replication. These findings will help predict future microbial health risk incidents. The paper also calls for adding LMF to food safety questionnaires used during listeriosis outbreaks because of this concern.

Pathogen Inactivation

Two decontamination methods were studied for inactivating a cocktail of Salmonella or Listeria monocytogenes inoculated on dried strawberry, dried apple, raisins, chocolate crumb, cornflakes and pistachios. One method was based on an acid-ethanol sanitizer and the other combined UV radiation, ozone and peroxide. Both methods show promise in reducing risks in LMF depending on the type of pathogen and product.

Virus Isolation

Foodborne viruses such as norovirus and hepatitis A virus (HAV) are highly transmissible, persist in the environment, and resist inactivation. Foods can become contaminated with these viruses during harvest, handling or processing. This study compared a bead-based magnetic assay with an existing International Organization for Standardization (ISO) method for virus recovery and tested it on chocolate, pistachios and cornflakes. Thus, depending on the food matrix and the virus, the bead-based assay efficiently and rapidly extracts viruses from LMF.

L. monocytogenes Survival and Virulence on Apples, Strawberries and Raisins

The survival of Listeria monocytogenes was measured during long-term storage on three fruits. After dry inoculation and storage at two different temperatures and humidity levels, the results show that L. monocytogenes is rapidly inactivated during storage on raisins and dried strawberries at 23°C, but capable of long-term survival at 4°C.

Virus Inactivation

This study examined the survival of foodborne viruses in LMF during 4-week storage at room temperature. It also evaluates a treatment geared toward inactivating viruses. Pistachios, chocolate and cereal were inoculated with hepatitis A virus and two related viruses. Then viral survival was measured over a four-week incubation at room temperature. The study found that while foodborne viruses can persist for a long time in LMF, combining UV radiation, ozone and peroxide as a treatment may represent an effective inactivation method.

Viable but Nonculturable

In this study, dried apples, strawberries and raisins were mixed with a five-strain cocktail of Salmonella and then dried. However, Salmonella could not be recovered, even after being enriched. The use of microscopy methods revealed that 56-85% of Salmonella cells were still viable despite their nonculturable state. These data suggest that the unique combination of stressors on dried fruit can keep pathogens viable but undetectable by culture, posing hidden risks for food safety.

The safety of low moisture foods in the food supply is capturing more scientific attention. Examining the survival and inactivation of pathogens and viruses on specific foods under common production conditions provides insights into the extent of contamination and methods to prevent it. This new information fills critical knowledge gaps and identifies cutting-edge decontamination tools that empower food safety professionals to reduce risks in low-moisture foods and prevent foodborne illness outbreaks.

The Institute for the Advancement of Food and Nutrition Sciences (IAFNS) Food Microbiology Committee continues to proactively improve the understanding and control of microbial food safety hazards to enable scientifically informed decision making. IAFNS committed to leading positive change across the food and beverage ecosystem. IAFNS is a 501(c)(3) science-focused nonprofit uniquely positioned to mobilize government, industry and academia to drive, fund and lead actionable research. iafns.org.

USA – Parnell brothers plan to file objections to magistrate’s denial recommendation

Food Safety News

Brothers Stewart Parnell, 67, and Michael Parnell, 63, will each be filing objections to the federal habeas corpus recommendations against them in relation to food safety felonies involving the deadly 2008-09 multistate Salmonella outbreak associated with Peanut Corporation of America .

And Magistrate Judge Thomas Q. Langstaff has granted both brothers 14 additional days to file objections to his recommendation for denial of their habeas corpus petitions brought under Section 2255.

In the two decisions, running about 40-pages each, the magistrate judge came to very similar conclusions. For the Stewart Parnell Motion 2255, he makes this conclusion: “Petitioner has failed to establish by a preponderance of the evidence trial counsel’s ineffective assistance. Wherefore, it is recommended that Petitioner Stewart Parnell’s Motion to Vacate, Set Aside, or Correct Sentence Pursuant to 28 U.S.C. § 2255 be denied.”

And his conclusion for Michael Parnell’s Motion 2255: “Petitioner has failed to establish by a preponderance of the evidence trial counsel’s ineffective assistance. Wherefore, it is recommended that Petitioner Michael Parnell’s Motion to Vacate, Set Aside, or Correct Sentence Pursuant to 28 U.S.C. § 2255 be denied.”

Department of Justice attorneys, however,  did not have any objections to granting the Parnells more time to file objections.

USA – FDA investigates outbreak linked to cereal; continues with other outbreak work

Food Safety News

The FDA is investigating more than 200 “adverse events” related to an unnamed dry cereal. In recent days reports from across the country regarding illnesses linked to Lucky Charms cereal have been filed with government agencies and the iwaspoisoned.com website.

The reports include vomiting, diarrhea and other gastrointestinal symptoms. The Food and Drug Administration has separately reported in recent days that is is investigating complaints about Lucky Charms but has not released any other details about the investigation. General Mills, the maker of Lucky Charms, has reported that it is not aware of any confirmed illnesses associated with the cereal.

As of April 20, the FDA has initiated an on-site inspection in relation to the complaints about the cereal. 

The agency has not reported any information about the people who made the complaints of adverse events related to the cereal and has not reported where they live.

USA – New Salmonella outbreak possibly linked to chicken under investigation by USDA

Food Safety News

The USDA is investigating a new Salmonella Enteritidis outbreak but little information has been released.

Chicken has been identified as the possible source for the pathogen, according to the U.S. Department of Agriculture’s Food Safety Inspection Service.

The agency has not released any information regarding the number of infected people or where they live. Similarly, no information  has been released about companies involved in the investigation or brands of chicken involved.

As of April 19 the Centers for Disease Control and Prevention had not released any information regarding the outbreak.

Research – Initial and Final Cell Concentrations Significantly Influence the Maximum Growth Rate of Listeria monocytogenes in Published Literature Data for Whole Intact Fresh Produce

Journal of Food Protection

Listeria monocytogenes has shown the ability to grow on fresh uncut produce, however the factors that control growth are not well understood. Peer reviewed journal articles (n=29) meeting the inclusion criteria and related to the growth of Listeria monocytogenes of fresh produce were found through university library databases and Google Scholar searches. Growth models were fit to each of the extracted 130 datasets to estimate log CFU/day rates of growth using the DMfit tool. Multiple linear stepwise regression models for factors influencing growth rate were developed using the software R. Factors included were temperature, nutrient level of inoculation buffer, initial cell concentration, final cell concentration, inoculation method, container permeability, and surface characteristics. The full model produced adjusted-R2, AIC and RMSE values of 0.41, 488 and 1.61 respectively. Stepwise regression resulted in a reduced model with parameters for incubation temperature, inoculation buffer type, initial and final cell concentrations, container characteristics and produce surface characteristics. Model fit statistics improved slightly in the reduced model. A further reduced 3-parameter model included storage temperature and initial and final cell concentration with interaction terms. This 3-parameter model had adjusted-R2, AIC and RMSE values of 0.66, 417 and 1.24 respectively. Incubation temperature (p=1.00E-09) initial cell concentration (p=3.05E-12) final cell concentration (p=4.17E-09) all had highly significant effects on maximum growth rate. Our findings show the importance of inoculum concentration and produce microbial carrying capacity on the estimated growth rate and highlight the overall importance that temperature has on growth rate. Future experiments should consider initial inoculum concentration carefully when conducting growth studies for L. monocytogenes on whole produce.