PulseNet key to solving 2010 E. coli outbreak linked to lettuce

PulseNet key to solving 2010 E. coli outbreak linked to lettuce | www.APHLblog.org

by Kim Krisberg

On April 22, 2010, federal public health officials notified the New York State Department of Health of two E. coli clusters at colleges in Michigan and Ohio. The very next day, the New York agency got word of an illness cluster in its own state with symptoms similar to the neighboring outbreaks.

Fortunately, that initial notification came via PulseNet, the national molecular subtyping network for foodborne disease surveillance, which allows public health scientists and investigators to rapidly identify foodborne illness outbreaks. That meant staff at the New York State public health laboratory, officially known as the Wadsworth Center, had easy access to Michigan’s and Ohio’s laboratory findings, which allowed immediate testing to begin to discover whether the New York illnesses were connected to the larger outbreak. Just a handful of days later, the New York lab had an answer — DNA fingerprints from patient specimens in Michigan, Ohio and New York were a match. The E. coli O145 outbreak had spread to New York.

“It was invaluable for us,” said Madhu Anand, DrPH, deputy director of the Regional Epidemiology and Investigations Program in the department’s Bureau of Communicable Disease Control, of PulseNet, which celebrated its 20th anniversary last year. “PulseNet was critical at every stage of this investigation.”

Just a few days following identification of the initial New York illness cluster, which occurred at a college in western New York, public health staff got word about a cluster of hemolytic uremic syndrome (HUS) illnesses in a school district just north of New York City. HUS is a potentially life-threatening complication associated with Shiga toxin-producing E. coli infection. Public health workers began active surveillance in the district, Anand said, finding multiple cases that matched the profile of cases connected to the E. coli outbreak.

Around this same time, CDC announced that epidemiologic and traceback investigations in Michigan and Ohio pointed to shredded romaine lettuce from a single distributor as the culprit. In response, the New York State Department of Health worked with local public health to collect any leftover lettuce from the college. The college didn’t have any leftovers, said David Nicholas, MPH, research scientist and epidemiologist in the state’s Bureau of Community Environmental Health and Food Protection, but it did have an invoice, which showed the same distributor identified in Ohio and Michigan. Public health staff also sought out lettuce leftovers in the affected school district, and they found plenty.

On April 28, 2010, the Wadsworth Center received more than 150 pounds of shredded lettuce from the school district — or what Nicholas described as a “Honda full of lettuce.” Lab staff got to work testing portions of the entire lot, which were divided into two-pound bags, reported Nellie Dumas, associate director of the Wadsworth Center’s Bacteriology Laboratory. However, one of the two-pound bags was stamped with an expiration date indicating it could have been among the same batch of shredded lettuce that the sickened children had eaten. That expiration date led lab staff to test the entire two pounds of lettuce, Dumas said.

In testing that particular bag of lettuce, laboratorians were able to isolate E. coli O145, which was then tested by pulsed-field gel electrophoresis (PFGE) to obtain a DNA fingerprint. The DNA fingerprint matched the outbreak strains identified in Ohio and Michigan. The Wadsworth findings were then uploaded to PulseNet, helping to confirm that shredded lettuce was indeed the source of the outbreak, said Deborah Baker, research scientist in the Wadsworth Center Bacteriology Laboratory.

“PulseNet was vitally important because it allowed states to instantly share subtyping information,” Baker said. “As soon as we have a PFGE pattern, we can immediately go into the database and see what’s happening in other states.”

Overall, according to Anand, New York state was home to six confirmed cases and one probable case of E. coli O145 connected to multistate outbreak traced back to shredded lettuce. All six confirmed patients had to be hospitalized and four developed HUS. Nationwide, according to CDC, 26 confirmed and seven probable cases of illness were connected to the E. coli outbreak in five states: Michigan, New York, Ohio, Tennessee and Pennsylvania. (The cases in Tennessee and Pennsylvania were identified in retrospect using PulseNet data.) Among the 30 E. coli patients with available information, 40 percent became so sick they had to be hospitalized. Thankfully, no deaths occurred.

A May 10, 2010 news release from the U.S Food and Drug Administration linked the contaminated shredded lettuce back to Freshway Foods in Ohio. The company issued a voluntary recall.

“For 20 years, PulseNet has helped us find the sources of these horrific illnesses,” said Dumas, associate director of the Wadsworth Center Bacteriology Laboratory. “It’s total teamwork.”

According to CDC, PulseNet identifies about 1,500 clusters of foodborne illness every year, about 250 clusters that cross state lines, and about 30 multistate outbreaks traced back to a food source. A recent economic evaluation of PulseNet found that every year, the laboratory network prevents more than 266,500 illnesses from Salmonella, nearly 9,500 illnesses from E. coli and 56 from Listeria. That translates into $507 million in reduced medical and productivity costs.

The post PulseNet key to solving 2010 E. coli outbreak linked to lettuce appeared first on APHL Lab Blog.

Lab sciences grad program brought me from the yogurt factory to public health

by Joe Shea, MS, research assistant, Wadsworth Center, New York State Department of Health

My career as a laboratory scientist started in a yogurt factory. Yes, you read that correctly. And no, it was definitely not your typical lab experience. Instead of putting on a lab coat each day, I would change from my street clothes into freshly cleaned white pants, a button-down shirt, steel-toe boots and a hairnet. I’d begin my day walking through large rooms crowded with industrial steel pipes carrying yogurt in every direction, a site I initially found intimidating. I spent my time measuring the pH, fat content, protein content and bacterial contamination of milk, heavy cream and yogurt. The skills I gained as an undergraduate biology student at Siena College were being applied to quality assurance and ensuring that our products were safe for human consumption.

It was a great job, but I had the urge to move into something I would find more meaningful.

Lab sciences grad program brought me from the yogurt factory to public health | www.APHLblog.orgDuring a visit to my alma mater, I heard about a seminar for students who were interested in public health graduate programs. On a whim I decided to go. At the seminar I learned about the Wadsworth Center’s (New York’s state public health laboratory) Master of Science in Laboratory Sciences (MLS) program, which at the time was only in its first year of existence. The MLS program combines coursework and laboratory rotations in fields ranging from biomonitoring, clinical chemistry and genetics to infectious disease and immunology, while also providing courses in laboratory management. Shortly after, I completed my application and was accepted into the MLS class of 2015 – the second class in the history of the program.

The highlight of the program was my capstone project, an eight-month project in the lab of my choosing. I chose to rotate through the Mycobacteriology Laboratory, and became fascinated with the amount of testing it takes to diagnose and confirm cases of tuberculosis (TB), and to perform drug susceptibility testing on each of those confirmed samples. I decided to focus on utilizing whole genome sequencing (WGS) to identify Mycobacterium tuberculosis, the causative agent of TB, and detect mutations associated with drug resistance in clinical isolates.

Drug resistant strains of TB represent a global health concern, as there are fewer treatment options and a higher likelihood of poor outcomes. Conventional drug susceptibility testing can take eight weeks or longer in some cases, which means that patients may receive ineffective treatment until these results are available. Currently, several different tests are needed to assess drug resistance; WGS, however, could be used to detect these potential mutations while also identifying the M. tuberculosis species and strain type. WGS would take far less time and provide more useful and detailed information than current methods and could decrease the time it takes for tuberculosis patients to receive appropriate treatments.

Having the opportunity to work alongside public health laboratory scientists at the New York State Department of Health’s Wadsworth Center was an invaluable experience. I believe in the importance of this work, and I loved having the chance to contribute to the groundbreaking work being done at the Wadsworth Center.

Lab sciences grad program brought me from the yogurt factory to public health | www.APHLblog.org

I recently graduated from the MLS program and am continuing to work in the Mycobacteriology Laboratory. I’ll be focusing on using WGS to identify and detect TB in clinical specimens (rather than pure isolates) which is challenging due to the presence of other sources of DNA in the sample. This position will also enable me to contribute to other ongoing projects in the lab using WGS, including the study of other pathogenic bacteria such as Legionella pneumophila.

Sometimes I think about that last-minute decision to attend the seminar at Siena College where I learned about this great program; it changed the course of my career by exposing me to a whole world of laboratory science that I had never considered.

It is never just a cold

By Stephanie Chester, Manager, Influenza Program, APHL

“Oh, it’s just a cold,” seems to be a common phrase heard in office spaces and schools alike during the winter months. But is it just a cold? Are we belittling our coughs and sneezing by grouping them under one tiny umbrella term? While the common cold is, in fact, common it is by no means simple. Your sniffles are never just a cold.

So how common is the cold? The viruses behind the common cold impact all of us at an average of two to three illnesses per year for adults and six to eight illnesses per year for young kids. And despite there being a cold season, these viruses are not actually confined to the winter months. There are differing theories on why people seem to catch colds more frequently during the winter but most agree that the viruses transmit more readily when people are clustered together in schools and offices.  “Environmental conditions may be a factor in which cold viruses are circulating,” said Kirsten St. George, MAppSc, PhD, chief of viral diseases at The Wadsworth Center, the New York State Department of Health’s public health laboratory . “It is not well understood, but certain viruses seem more stable in specific temperature and humidity conditions.”

It's Never Just a Cold | www.APHLblog.orgThere are more than two hundred viruses behind the common cold, and there may be many more still that have not been identified. Rhinoviruses are the traditional cause of the common cold, but there are at least 100 rhinovirus serotypes (distinct variations of the virus). A close relative of rhinoviruses are the enteroviruses which you probably heard about with the fall 2014 enterovirus D68 outbreaks; in a normal year they typically cause mild respiratory illness. Other cold causing viruses include human parainfluenza viruses and human metapneumoviruses.

There is a veritable alphabet soup of virus names – but why does the specific virus matter to us if they all just cause a cold?

As you can probably imagine, the fact that there are hundreds of cold-causing viruses, each with several different strains and serotypes, creates many challenges for scientists, healthcare providers and public health practitioners. For starters, it makes it nearly impossible to predict which viruses will be dominant in a given season. “There may be a swell of dominance for one virus, but then it will fade and another will take its place,” explained Dr. St. George.

So if we can’t predict it, why don’t we just prevent it? Why is there not a vaccine for the common cold much like there is for influenza? Again, the sheer volume of viruses and their ability to change and evolve over time is a huge hindrance to this process. To create an effective flu vaccine, said Dr. St. George, researchers must change the vaccine composition annually, or nearly annually, to keep pace with the variants of the virus in circulation. In contrast, she said, “With the cold, there are a myriad of types within a single group, dozens of types circulating all of the time.” This diversity would make the creation of a vaccine very expensive and difficult. It is more likely that researchers will focus on ways to stimulate the immune system to respond more productively to infection and on medications to relieve symptoms.

One area where science is making progress is in the diagnostics and surveillance of the common cold and other respiratory viruses with the advent of new molecular tests. “A lot of these viruses were difficult to identify with classical virology laboratory methods such as culture,” said Dr. St. George. “They just don’t always grow well – or at all – in culture. With new technology, especially the commercially available molecular kits, they are readily detectable.” This advance may not save us from the coughing and congestion, but it provides researchers, physicians and public health practitioners with improved data about what is circulating and causing severe illness. And that information has a multitude of benefits!

For starters, data from these tests may ultimately help researchers and physicians learn if certain demographics or risk factors increase a person’s chance of more severe illness. This may allow for prevention and mitigation strategies, or may lead to a physician being more aggressive with treatment and supportive therapy. Though, as Dr. St. George explained, serious reactions are not limited to those higher risk populations such as those with underlying health conditions. “We have seen very severe manifestations in otherwise healthy people who ended up in intensive care.” Even still, understanding if it is the virus or the host that predisposes a person to more severe illness is incredibly helpful.

Additionally, school officials may decide to cancel classes (or not) if they know the current outbreak of sniffles and coughs is caused by a more troublesome virus. Hospitals can use this data to cluster and isolate patients when needed so respiratory outbreaks don’t spread throughout the entire facility.

While understanding the different viruses that cause the common cold is valuable to public health, we also keep a close eye on how cold treatment may be contributing to a larger health concern: antibiotic resistance. Antibiotics are overprescribed for many things including the common cold. Cold viruses do not respond to antibiotics because they are viruses; antibiotics are only effective for bacterial infections. “Often the thought process is that when you get sick, you should go to the doctor, get some antibiotics and get better,” said Lisa McHugh, MPH, influenza surveillance coordinator and supervisor for the regional epidemiology program at the New Jersey Department of Health. “There is not a clear understanding [among the public] of the difference between bacteriology and virology, and what the standard treatments are for each.” She went on to emphasize that it is critical for the public to understand the difference and that antibiotics are not be the remedy for every ailment. Dr. St. George agreed. “Clinical judgment is important. People need to trust their doctors. They are pretty good at telling when your illness is viral. We are in a time where we need to look carefully at antibiotic use and keep them in reserve.”

Next time you hear someone say, “Oh, it’s just a cold,” you can let them know they may actually be sick from one of hundreds of viruses. Regardless of which one (or several) has struck your family this year, remember to cover your coughs and sneezes with your elbow, wash your hands and stay home when necessary to prevent sharing your virus with others. While scientists work to broaden their understanding of this complex group of viruses, we can help make the common cold a little less common.