Conducting the Hazard Identification (HAZ ID)

Chapter 4
Conducting the Hazard Identification (HAZ ID)


The understanding and description of human health hazards associated with microorganisms has primarily been part of three fields of study. Within the medical arena, this includes the infectious disease specialization. Within public health, the field of epidemiology has focused on disease transmission routes in populations, such as foodborne, vectorborne, and waterborne, and includes venues where diseases spread such as hospitals, nursing homes, day-care centers, and cruise ships. Finally, the field of clinical microbiology has examined the nature of the infectious microorganism, genetics and evolution of the pathogen, the interaction between the host and microbe, and immune responses. The term infectious is an adjective that comes from the word infect, meaning to contaminate with disease-producing substance, germs, or bacteria, and describes those agents that are able to reproduce in association with the disease process and therefore to be transmitted to others. Contagion is one of the hallmarks of most pathogens, yet there are several new emerging microbial hazards where humans seem to be dead-end hosts. Yet the evolution of pathogens depends on their ability to spread and infect the next host and evade host defenses, and thus, new genetic variants of bacteria, parasites, and viruses as well as antibiotic resistance are continually being discovered.


The major groups of infectious microorganisms are described in Chapter 2 and include bacteria, fungi, prions, protozoa, and viruses. Algae and dinoflagellates are also groups of microorganisms that naturally occur in water; however, the resulting human health hazards are associated with exposure to toxins produced by these microorganisms and not through an infectious process. This is similar to some foodborne bacteria that after growth produce a toxin in the food that results in disease (e.g., Clostridium). The elements of HAZ ID for the various types of microorganisms are descriptive and mechanistic and should be quantitative. This involves assessment of the microorganisms themselves, the disease process in individuals, and disease surveillance in populations.


The phases that should be part of microbial HAZ ID are as follows:



  1. Identifying the microorganism as a cause of human illness associated with proof using Koch’s postulates, which demonstrate that the agent is found and is the cause of specific types of disease and when transmitted causes a similar disease in the person newly exposed.
  2. Developing diagnostic tools that can identify the microorganisms associated with key symptoms and the infection and in particular in host specimens (e.g., sputum, stools, blood).
  3. Understanding the disease process from exposure (e.g., respiratory) to infection (colonization of the human body) to development of pathology, disease, and death. This includes excretion of the pathogen by the host.
  4. Identifying possible transmission routes.
  5. Assessing virulence factors and components of the microorganism and its life cycle that aid in understanding transmission and the disease process.
  6. Using diagnostic tools to evaluate the incidence and prevalence of disease in populations (endemic risks) and for investigation of outbreaks (epidemic risks).
  7. Developing of models (usually animal models) to study the disease process and approaches for treatment.
  8. Evaluating the role of the host immune system in combating the infection and the possible development of vaccines for prevention.
  9. Using large epidemiological studies to associate health outcomes with various exposures.

Identifying and Diagnosing Infectious Disease


The identification of disease (or illness) is made by one of several methods (Table 4.1). The difference between disease and illness may be minor in some cases, but from a medical viewpoint and for HAZ ID, these do not necessarily mean the same thing. Disease is defined as the process or mechanism that ultimately results in an illness or a condition that impairs vital functions. A person could have a disease without initially having any symptoms. Symptoms are a state where the effects of the illness (e.g., headache, diarrhea, stomach cramps, vomiting) can be described by the person who is ill. Clinical assessment of the illness is generally defined by a measurable description of the illness (e.g., fever, bloody stool). Infection is colonization of the microorganism in the body and may result in disease and symptoms, as this is the initial step in the microbial disease process. However, this may also result in asymptomatic or subclinical infections. Symptoms and clinical descriptions (e.g., fever, rash, inflammation) can be very specific, such as with measles, which is associated with a specific agent, or they can be generic, such as with diarrhea, which is associated with many different types of microorganisms. An important quantitative piece of information as part of HAZ ID that is needed for QMRA is the incubation time; that is the time from exposure to the appearance of symptoms. The time to excretion of the pathogen by the infected host, duration of excretion, and the concentrations of the pathogen excreted (e.g., in feces) are all important quantitative data that are needed for QMRA. Physicians rarely gather this information specifically and utilize the general medical information on pathogen incubation times and excretion rates to help with the diagnosis. For example, the duration of diarrhea may help to diagnose the difference between Giardia infections and Norovirus infections.


Table 4.1 Methods for Diagnosing Infections and Disease by the Medical Community






















Method Approach Advantages/Disadvantages
Symptoms and clinical descriptors Based on a person’s feelings (e.g., headache) and measurable impacts (e.g., fever, rash) Can quickly diagnose or identify those impacted, however not generally agent specific but more generic (e.g., diarrheal agent)
Do not do an adequate job of HAZ ID
Clinical diagnosis Based on testing specimens (e.g., feces (stools), blood, sputum) for the presence of the agenta Identifies the pathogen. Very extensive genetic testing is now available to distinguish serotypes and variants. This is commonly used for more severe illnesses presented at a doctor’s office. Patient must deliver a specimen, and there must exist a test method for the agent
Antibody response An indirect test of a specimen (from the blood or could be from saliva) for the presence of antibodies that the body produces as a result of infectionsa, b Is specific to the microbial agent; however, it may not be able to determine the timing of the exposure and infection

a Asymptomatic infections can be detected.


b Antibody response does not generally occur without infection unless an individual is exposed to large concentrations of the pathogen (such as with a killed vaccine). The antibody response may or may not be protective from subsequent exposures and infection.


The second means of identification is clinical diagnosis by detection of the specific microorganism in a host specimen (laboratory identification in a liquid stool of an enteric pathogen). This requires the collection of a specimen (sputum, feces, blood, biopsy) and a specific diagnostic test (specific growth, biochemical tests, stains, genetic or protein markers, microscopic identification). This also means that there is some understanding of the agents that may be responsible for the disease symptoms and the process of disease, resulting in the infection of specific cells and/or organs in the body affected. Infection without the person reporting symptoms (an asymptomatic infection) can be detected in this manner, but unless this is part of a larger clinical or epidemiological study, it is rare that people without symptoms are tested. This is generally because of the cost.


The final method is an indirect test of the response of the host system to infection, which elicits an antibody response that can be detected in blood or in some cases saliva. This antibody response may be associated with past or current exposures. In some cases, depending on the type of antibody and amount, one can determine the approximate timing of the exposure and infection. Exposure without infection rarely causes an antibody response except in the case of repeated exposure to very high concentrations of the agent such as occurs with some vaccinations.


The first method, symptomology (headache, stomachache, diarrhea), has been used in numerous studies for assessing disease in a population. Example 4.1 demonstrates the use of this approach for identification of an array of possible microbial hazards associated with drinking water.



  • The Study: An intervention was undertaken that examined the health of populations drinking tap water compared to a similar population that drank water that was further treated through point-of-use-device reverse osmosis filters. The study focused on a community whose surface waters had known concentrations of viruses and untreated sewage inputs. This was one of the larger studies (606 households) undertaken for 15 months.
  • Health Effects: One member of each family was responsible for recording and reporting disease for all members (nausea, vomiting, diarrhea, fever, cramps, muscular pain, cold, flu, sore throat, absence from work or school, visit to a doctor, hospitalization).
  • Episode Definition: One or more days of symptoms (vomiting or liquid diarrhea or nausea or soft diarrhea combined with abdominal cramps) with at least six consecutive symptom-free days between episodes.
  • Results: Annual incidence of episodes per person was 0.76 for those drinking tap water and 0.5 in those drinking tap water that was further treated, so it was estimated that 35% of reported gastrointestinal illness was tap water related.
  • Advantages and Disadvantages: Identified the transmission route and some health endpoints that are useful for cost–benefit analysis; however, specific microbial hazards were not identified, chronic health outcomes with more rare occurrences (e.g., viral myocarditis) were not identified, and risk management options were not addressed. This study has been criticized as it was not blinded nor designed as a crossover. However, in other studies, the possible pathogens particularly viruses or pollution of the source water were not adequately addressed, fewer households were used, and the studies were conducted over a shorter time frame. Hazards are rarely identified with this type of study.

It is generally acknowledged that the identification of the disease burden and the specific microbial hazard in populations are underestimated. This is due primarily to the lack of diagnostic tests and the use of those tests to screen populations.



  • There was no recognition of human disease until 1976; intestinal biopsies are used for diagnosis, even though the parasite was first described in 1895.
  • Diagnostic tests were developed in the early 1980s; testing feces for oocysts showed 0.5–20% prevalence of disease throughout the world. Antibody tests showed 30–50% prevalence.
  • Most people do not go to a physician or submit an adequate specimen to the laboratory for diagnosis.
  • Test for Cryptosporidium is not run routinely in the parasite laboratory except by physician’s request
  • Not reportable to most state of national statistical databases until the 1990s.

Further discussion of endemic and epidemic disease as well as underdiagnosis will be addressed in the waterborne and foodborne disease section.


Health Outcomes Associated with Microbial Infections


After exposure to a microorganism, once infection begins (defined by dose–response or attack rates; see the section “Epidemiological Methods for Undertaking HAZ ID” and Chapter 5), there are a number of possible outcomes, including asymptomatic illness, various levels of acute and chronic disease (known as morbidity: mild illness to more severe illness, to chronic problems, to that which requires hospitalization), and potentially death (known as mortality). In particular, there have been inadequate recognition and documentation of the chronic disease and long-term sequelae associated with microorganisms such as degenerative heart disease and insulin-dependent diabetes caused by Coxsackievirus B infection and peptic ulcers and stomach cancer caused by the bacterium Helicobacter pylori.


Figure 4.1 demonstrates the various health outcomes that should be part of the HAZ ID, which can occur after exposure. It has been difficult to quantify what goes in each of these boxes, based on the current health databases. The goal is the development of a quantitative probability of each possible outcome; these are likely to be microorganism specific, even isolate specific, and can depend on the host status. The goal of the HAZ ID, however, is to define these outcomes to the extent possible. Each outcome can be described as a ratio or percentage; the numerator and denominator need to be adequately defined as well as the populations associated with the data. Table 4.2 is an example of the level of symptomatic infections for Salmonella infections. The term used to address this outcome is morbidity. In a total of 12 studies, conducted primarily during outbreak investigations, the percentage of people who exhibited symptoms, divided by the total numbers infected (in this case from a variety of species of Salmonella), was measured by the detection of the bacterium in fecal specimens, indicating infection, and averaged 41%, with a range of 6–80%, or stated conversely, an average of 59% were asymptomatic (ranging from 20% to 94%) [2]. These data do not indicate the type of disease or the severity, and often other databases are needed to address those aspects of the health outcome.

c4-fig-0001

Figure 4.1 Outcomes of the infection process: possible groups for quantification in populations.


Table 4.2 Morbidity Ratio for Salmonella (Nontyphi)


Source: Ref. [2].



























































Study Population/Situation Morbidity (%) Number Ill/Number Ill Plus Number of Asymptomatic Infections
1 Children/food handlers 50
2 Restaurant outbreak 55
3 College residence outbreak 69
4 Nursing home employees 7
5 Hospital dietary personnel 8
6 Hospital dietary personnel 6
7 Nosocomial outbreak 27
8 Summer camp outbreak 80
9 Nursing home outbreak 23
10 Nosocomial outbreak 43
11 Foodborne outbreak 54
12 Foodborne outbreak 66
Average
41

While acute outcomes have been described for most microbial infections, the chronic impacts may be more significant but are rarer (in terms of cases) and generally not as quantifiable. Table 4.3 lists some of the bacteria, protozoa, and viruses for which both acute and chronic effects have been documented. Some of the chronic impacts are more severe and particularly affect the more sensitive populations. For example, Enteropathogenic E. coli (EPEC) causes mild illness in adults (1–2 days of mild diarrhea), while E. coli O157:H7 causes hemorrhagic uremia, with death more likely in children and the elderly [4, 5, 8]. Figure 4.2 quantifies some of the health outcomes documented during the outbreak associated with contaminated hamburgers in the Northwest in 1993 [8].


Table 4.3 Acute and Chronic Outcomes Associated with Microbial Infections


Source: From Refs. [3–7].




































Microorganism Acute Disease Outcomes Chronic Disease Outcomes
Campylobacter Diarrhea Guillain-Barré syndrome (GBS)
E. coli O157:H7 Diarrhea Hemolytic uremic syndrome (HUS)
Helicobacter Gastritis Ulcers and possible stomach cancer
Salmonella, Shigella, and Yersinia Diarrhea Reactive arthritis
Coxsackievirus B Encephalitis, aseptic meningitis, diarrhea, respiratory disease Myocarditis, reactive insulin-dependent diabetes
Giardia Diarrhea Failure to thrive, lactose intolerance, chronic joint pain
Toxoplasma Newborn syndrome, hearing and eyesight loss Mental retardation, dementia, seizures
c4-fig-0002

Figure 4.2 Quantifiable health outcomes associated with E. coli O157:H7 exposures and infections during a foodborne outbreak. *HUS is hemolytic uremic syndrome, affecting the kidneys, which leads to death or possible kidney failure and there is a need for a transplant or long-term dialysis.



(modified from Ref. [8])


Salmonella, Shigella, and Yersinia have all been shown to initiate a reactive arthritis, which has been greatly underestimated, with attack rates ranging from 1.5% to as high as 29% in those infected with these bacteria [7]. Toxoplasma gondii is associated with very little disease in adults but causes congenital malformations. It has been estimated that there is a 45% chance (30–60% range) of maternal-to-fetal transmission of the infection if the mother is seropositive. The outcome, while normal for 55% of the newborns, is associated with 2% mortality, 11% retardation, and 6% blindness [6]. Guillain-Barré syndrome (GBS) is a major cause of neuromuscular paralysis in the United States, causing an estimated 2628 to 9575 cases each year, between 20% and 40% caused by infections with Campylobacter [9]. Figure 4.3 shows some of the health outcomes associated with Campylobacter-associated GBS that have been estimated.

c4-fig-0003

Figure 4.3 Quantifiable health outcomes associated with assessment of Campylobacter-associated Guillain-Barré syndrome (GBS) a neurological disorder causing paralysis.



(modified from Ref. [9]).


In order to examine the severity of the hazard, hospital data can be used. Data were obtained from the Centers for Disease Control and Prevention (CDC) for examining the range of severe outcomes as hospitalization ratios (numerator is the number of cases in the hospital divided by the total number of cases) during waterborne disease outbreaks. It should be kept in mind that the denominator in these outbreaks may be highly uncertain. The ratios have been shown to be highly dependent on the etiologic agent (Table 4.4). The highest percentages of hospitalizations during waterborne outbreaks in the United States were associated with HAV and bacteria such as Shigella, Salmonella, and E. coli. Levels of 1.0% were found for Cryptosporidium; in the outbreak in Texas, the ratio was 0.85%. In the Carrollton, Georgia, outbreak, although no hospitalizations were documented in the literature, the number of visits to the hospital ER increased five- to sixfold, giving approximately an 0.8% ratio (ER visits/total cases) [27]. In Milwaukee, Wisconsin, 4000 hospitalizations were estimated at less than 1% [28], a bit higher than for Giardia and Norwalk-like enteric viruses. The undetermined etiologic agents responsible for AGI also resulted in hospitalizations of less than 1%; however, a large number of cases (about 874 cases) felt that their illness was serious enough to warrant treatment in the ER. Almost four times the number of hospitalized cases of AGI were treated in the ER. The only other illness with significant numbers of cases that was treated in the ER was giardiasis; twice the number of hospitalized cases (60 cases) were seen in the ER (120 cases). While the more severe illnesses appear to be caused by bacteria and HAV infections, Giardia and the etiologic agents of AGI contribute to a significant number of hospitalized cases, representing 5.3% and 22.5% of all hospitalized cases, respectively.


Table 4.4 Hospitalizations Associated with Microorganisms Responsible for Waterborne Outbreaks Reported in the United States, 1971–1992


Source: Data from Refs. [10–28].




































































































Waterborne Outbreak Data, 1971–1992 Hospitalization Data during the Outbreaks, 1971–1992
Microorganism Number of Outbreaks Number of Cases Number of Outbreaks with Data Ratio of Cases Hospitalized to Total Cases Percent Hospitalized
Viruses
Hepatitis A 29 807 9 75/265 28.3
Viral gastroenteritis 30 12,699 4 10/1,154 0.9
Bacteria
Salmonella 12 2,370 3 12/293 4.1
Shigella 54 9,967 24 339/5,768 5.9
C. jejuni 13 5,257 5 73/2,152 3.4
Y. enterocolitica 2 103 2 20/103 19.4
E. colia 3 1,323 2 41/323 12.7
Typhoid 7 293 4 235/277 84.8
Protozoan parasites
G. lamblia 118 26,733 18 60/13,239 0.5
Cryptosporidiumb 5 433,517 3 4,105/415,960 0.99
Unknown etiology
Acute gastrointestinal illness 341 82,486 50 253/40,039 0.6

a Two outbreaks of O157:H7 and one outbreak of O6:H16.


b Includes Milwaukee, WI, outbreak and ER visits for Carrollton, GA [26–28].


Surprisingly, in the waterborne disease data sets reported in Morbidity and Mortality Weekly Report [29], it can be very difficult to find hospitalization data summarized in association with the outbreak statistics. Thus, other published data sets need to be scrutinized.


A review of outbreaks associated with E. coli O157:H7 from 1982 to 2002 found a 17% hospitalization ratio based on 350 outbreaks (9% of which were waterborne) from a total of 8598 cases [30, 31], which is not so different than the data from the waterborne outbreaks presented in Table 4.4.


Studies on the enteric bacteria are valuable as the severity associated with these infections is often more extreme. Scallan et al. [32] reviewed the hospitalizations and mortality ratios associated with infections in children in the United States. The hospitalization ratio overall was 7.6% (Table 4.5).


Table 4.5 Enteric Bacterial Illnesses and Associated Hospitalizations and Mortality in Children in the United States


Source: Adapted from Ref. [32].



































Bacterial Pathogen Physician Visits per Year Hospitalizations (%) Case Fatality Ratio (%)
All 102,746 7830 (7.6) 64 (0.06)
Salmonella 44,369 (42%) 4670 (10) 38 (0.086)
Campylobacter 28,769 (28%)
Shigella 21,577 (21%)
Y. enterocolitica 5,137 (5%)
E. coli O157:H7 3,763 (3.6%)

Vibrio infections associated with a variety of species but mostly V. vulnificus and V. parahaemolyticus from recreational water exposures resulted in 124 cases, 37 hospitalizations (29.8%), and 4 deaths (3.2%) for 2007 and 2008 [25].


Hospitalizations and mortality (death) are often endpoints that are more likely to be identified, reported, and quantified. The most common matrix for mortality is the case fatality ratio. However, these ratios may be overestimated, as the denominator (total cases) is not well defined and is often underestimated. Often, the severity associated with acute outcomes as well as mortality is much more significant in sensitive populations.


Key pathogens have very specific outcomes. Naegleria fowleri, a free-living amoeba, causes primary amebic meningoencephalitis (PAM). The parasite is acquired mostly through recreational exposure via entrance through the nasal passages and then migration to the brain where it causes neurological damage. There was a 100% case fatality ratio in 6 and 2 known cases in 2007 and 2008 in the United States (AZ, CA, 3 in FL, OK, and 2 in TX), respectively [25]. These cases occur in mostly warm lakes in children or young adults (13–22 years of age for these reports). Overall, from 1985 to 2008, 41 cases of PAM occurred ranging from 1 to 6 cases per year.


In the United States, from 2000 to 2009, there were 22,331 cases of Legionnaires’ disease caused by Legionella infections, and the case fatality ratio was 8% [33]. Transmission occurred through exposure to cooling towers, tap water (showers), building cooling systems, spas, and hot tubs. In these cases, 90% occurred in individuals greater than 40 years of age. In Europe, from 1995 to 2005, more than 32,000 cases of Legionnaires’ disease (600 outbreaks) were reported to the European Working Group for Legionella Infections (EWGLI).


Sensitive Populations


Select populations such as pregnant women, the elderly, infants, and the immunocompromised currently represent almost 40% of the general population (Table 4.6), and their numbers are expected to increase in the years ahead [38]. The elderly account for almost 32% of the vulnerable group, with a great percentage residing in long-term care facilities. Risks of increased severity and mortality are greater for these populations when exposed to a variety of pathogens. In some cases, this may be due to just reduced immunity, but in other cases, there seems to be some specific mechanisms such as with HEV and pregnant women as discussed in the following text.


Table 4.6 Sensitive Populations in the United States


Sources: Refs. [34–38].




















































Population Group Number Year Surveyed
AIDS patients 32,666 2012
Cancer: adult patients, noninstitutionalized 19,000,000 2011
Cancer: number of visitsa with a primary diagnosis of cancer 29,000,000 2010
Diabetes 25,800,000 2011
Elderly (>85 years of age) 40,817,922 2009
Neonates 4,136,000 2009
Pregnancies 4,552,922 2009
Residences in nursing homes or related care facilities 1,149,200 2004
Number of organ transplant 28,052 2012
Number of cornea transplants 46,000 2012
Number of tissue transplants 1,000,000 2012

a To physician’s offices, hospital outpatient, and emergency departments.


New microbial hazards are often discovered in sensitive populations that direct attention to further investigation. This includes C. difficile, a problem for those on antibiotics and particularly the elderly, which has now been associated with waterborne disease [39].


Women during Pregnancy, Neonates, and Young Babies


Women during pregnancy may be at increased risk from a number of infectious agents and may also act as a source of infection for neonates. During the past decade, at least 30 outbreaks of hepatitis E have been documented in 17 countries due to contaminated water [40]. Although outbreaks of hepatitis E have not been reported in the United States, cases do occur among tourists returning from developing countries. Waterborne outbreaks have at times involved thousands of people. Overall, case fatality ratios have ranged from 1% to 2% during outbreaks, which is significantly higher than that for HAV. However, for pregnant women, the ratio is generally between 10% and 20% but can be as high as 40% [40]. In contrast, hepatitis A does not appear to manifest itself differently in well-nourished pregnant women than in nonpregnant populations [41]. However, this may not be true for poorly nourished pregnant women. Numerous reports from developing countries recount disease of great severity, often leading to fulminant hepatitis, particularly in the third trimester [41].


Viral infection during pregnancy may also result in the transmission of infection from the mother to the child in utero, during birth, or shortly thereafter. This appears to be a common mode of transmission of Coxsackieviruses and echoviruses [42]. Neonates are uniquely susceptible to enterovirus infections. This group of viruses is capable of causing severe disease and death when infection occurs within the first 10–14 days of life. Acquisition of Coxsackievirus B infections early in life is the most significant risk factor leading to fatal disease. Most fatal cases caused by this virus are probably transmitted transplacentally at term [42]. Among 41 documented cases of fatal infection in infants, 24 of their mothers had symptomatic illness leading to fatal infection in infants, and 24 of their mothers had symptomatic illness consisting of fever, symptoms of upper respiratory tract involvement, pleurodynia, or meningitis.


Symptomatic infection occurred between 10 days antepartum and 5 days postpartum. The observed case fatality ratio for Coxsackievirus B in a New England county was almost 13%, with a morbidity ratio of 50.2 per 100,000 live births. Stillbirth late in pregnancy has been reported for the echoviruses and Coxsackievirus B [43]. Coxsackievirus B has been implicated as a potential important causative agent in spontaneous abortions, and anomalies (urogenital system, heart defects, digestive malformation) in children born to mothers infected with Coxsackievirus B suggested in several studies [43].


Echoviruses can also be transmitted from the mother to the unborn child or shortly after birth with a potentially serious outcome [44]. An average case fatality ratio of 3.4% was observed in 16 documented outbreaks of echovirus in newborn nurseries. In two outbreaks of Coxsackievirus B in nurseries, the infant mortality ratio from myocarditis ranged from 50% to 60%. Coxsackievirus and rotavirus have also been associated as potential cause of sudden infant death syndrome in young children. An outbreak of sudden infant death syndrome associated with rotavirus infection over a 3-week period was observed in the emergency facility of a hospital in which two of five children died [45].


Diabetes


One of the largest-growing segments of the sensitive populations globally is those individuals who have diabetes [46]. While the causes of type 1 diabetes (T1D) are still unknown, viruses (enterovirus including the Coxsackievirus B) have been suggested as an environmental trigger for the disease, but the data are not conclusive. Type 2 diabetes related to diet, lifestyle, and genetics is by far the larger problem. Some of the evidence shows that this group is more susceptible to disease and severity of outcomes. Data on nontyphoid chronic infections found that 15% of 129 studied for over a decade at the Massachusetts General Hospital, Boston, had diabetes as a risk factor [47].


The Elderly


Most epidemiological studies concerning a specific agent in the elderly are focused around nursing homes since the impact can be more easily observed in a confined group of people. Case fatality ratios for specific enteric pathogens are 10–100 times greater in this group than in the general population (Table 4.7). One documented outbreak of rotavirus in a nursing home was characterized by high attack rates (66%), with few, if any, asymptomatic cases [50]. While the number of days of illness was within the range observed for other age groups (1–5 days), the convalescence was prolonged for some people. The case fatality ratio was 1%. Gordon reported a case fatality ratio of 1.3% among a retirement community during a foodborne outbreak of Snow Mountain agent, a calicivirus that is now known as norovirus [49]. They pointed out that several of the residents sustained serious injuries from falling because of near-syncopal episodes due to dehydration from the gastroenteritis. The elderly are expected to be more prone than younger adults to such injuries because of greater illness severity. Outbreaks of noroviruses and enteric adenoviruses have been reported in nursing homes and geriatric wards in hospitals [51, 53]. In the early years investigating the emergence of the norovirus types, no mortality was observed during these outbreaks, and higher attack rates occurred among the residents, as well as a more severe or protracted illness, compared to the staff [53]. In a review of norovirus infections resulting in 158 associated deaths, the reports from 12 countries (from 1988 to 2011) found age a significant factor [54]. Where there were age data, 61% of the deaths were found in those greater than 65 years of age with 22% and 17% occurring in age groups of less than 2 years of age and between ages of 49 and 65, respectively. Data from 11 outbreaks occurring in the United States (eight outbreaks), Finland, England, and Wales reported that 71 deaths occurred in nursing homes and 33 deaths occurred in hospitals.


Table 4.7 Case Fatality Ratios for Enteric Pathogens in Nursing Homes versus General Population


Source: Data from Refs. [48–52].
























Microorganism General Population Nursing Home Population
C. jejuni 0.1 1.1
E. coli O157:H7 0.2 11.8
Salmonella 0.1 3.8
Rotavirus 0.01 1.0

The most common causes of death for the elderly include pneumonia, influenza, and septicemia responsible for 5.5% (95,640 deaths) for those who are greater than 65 years of age (data obtained in 1997). A 25% increase in mortality between 1980 and 1992 was observed for infectious diseases in the elderly [55].


Cryptosporidium is also a significant cause of severe diarrhea in the elderly as well as mortality [56]. Records were examined from 1991 to 2004 in the United States from Medicare patients who were 65 years of age or older. Hospitalization rates were 0.15 to 0.39/100,000 cases per year (0.00015–0.00039%) for the general elderly population, and these doubled for those greater than 85 years of age. Case fatality ratios were 7.8% and only slightly below HIV patients (10.3%). The rates for hospitalizations for the elderly in a community are dramatically affected and are increased by age group (Fig. 4.4).

c4-fig-0004

Figure 4.4 Hospitalizations in the elderly before and during a waterborne outbreak of cryptosporidiosis



(modified from Ref. [57]).


HAV usually causes a mild and often asymptomatic infection in children. However, in adults, the illness typically produces clinical illness that can lead to death [58]. Waterborne outbreaks of hepatitis A are often characterized by high attack rates with all or most of the infected persons exhibiting clinical illness [59]. The case fatality ratio of hepatitis A cases from England, Wales, and Ireland for patients less than 55 years of age was 0.02–0.03% (0.9% at 55–64 years of age and 1.5% for older patients). The median age of those dying from hepatitis A is over 60 in the United Kingdom [60].


The elderly also experience higher mortality from enteric bacterial gastroenteritis (Table 4.6). The overall case fatality ratio for foodborne outbreaks in nursing homes in the period 1975–1987 was 1.0%, compared to 0.1% for outbreaks at other locations [51]. For domestically acquired cases of typhoid, the case fatality ratio is higher among those 55 years or older [61]. In a developing country, for E. coli O157:H7, children from birth to 1 year of age and adults greater than 31 years of age were at highest risk of complications and death [52].


The Immunocompromised


New protocols have decreased the incidence of AIDS; thus, there are many more individuals living with HIV infections but are not as susceptible to microbial infectious disease. However, the impact of AIDS can still be seen, particularly in parts of the world where drugs are not readily available or being used to keep the disease under control. An 18-year assessment found that case fatality in patients with HIV dropped dramatically with treatment going from 78.6% (11/14) to 11.4% (5/44) (1992–1999 and 2000–2009 periods, respectively) [62].


AIDS remains an important global disease. It is likely that without treatment/therapy the disease statistics associated with enteric, respiratory, and skin infections will remain relevant. Studies in Brazil found that Cryptosporidium infections were associated with poor observance to the antiretroviral therapy, diarrhea, and CD4(+) T lymphocyte counts less than 200 cell/mm3 [63].


Prior to the use of any treatment, it was found that AIDS patients (50–90%) suffered from chronic diarrheal illnesses that were often fatal [64]. Adenoviruses and rotavirus were the most common enteric viruses isolated in the stools of AIDS-infected persons [64]. A comprehensive study of Australian men showed that 54% of diarrheal illnesses in AIDS patients with clinical disease suffered from adenovirus infections and that 45% of these cases resulted in death within 2 months [65]. The other enteric viruses do not appear to be a significant problem in AIDS-associated gastroenteritis. Enteric bacterial infections are more severe in AIDS patients. For example, patients with Salmonella, Shigella, and Campylobacter often develop bacteremia [66].


Although patients with AIDS may not have more severe illness when infected with Giardia, they do exhibit impaired immune response to the parasite [67]. Cryptosporidium was at one time a serious problem among AIDS patients. A severe and protracted diarrhea results, with fluid losses of several liters per day in some cases. Symptoms persisted for months, resulting in severe weight loss and mortality. Cryptosporidium in some studies caused 7–38% of diarrhea in immunocompromised patients [68]. Case fatality ratios for Giardia are low and do not seem to increase in vulnerable populations. Waterborne outbreaks of Cryptosporidium in the United Kingdom increased the incidence of disease in the AIDS population, with severe consequences [69]. In the 2 years following the waterborne outbreak in Milwaukee, there were 54 cryptosporidiosis-associated deaths, compared to only four deaths in the 2 years prior to the outbreak [70].


Cryptosporidium at one time accounted for 16% of the cases of diarrhea in AIDS patients (and as much as 50% in the developing world), with 87% associated with chronic illness related to CD4 counts (<180 × 106 l−1). Three waterborne outbreaks associated with drinking water have found those with AIDS to be at grave risk. Community-wide exposure did not increase the attack rates in the AIDS patients; however, the outcome of the disease was severe, with 52–68% mortality within 6 months to a year after the outbreaks. During the Milwaukee outbreak, in the cohort of 73 AIDS patients (33 with Cryptosporidium), morbidity was also much more severe, with 400 of 444 hospital days logged in by those with protozoan infection and extra medical costs of $795,699 [71].


One year after Milwaukee, a cluster of cases and deaths in AIDS patients in Las Vegas, Nevada, alerted health officials to another outbreak [72]. Those who drank any unboiled tap water were four times more likely than those drinking only bottled water to develop cryptosporidiosis. It was hypothesized that contamination of the drinking water had been over an extended time period with intermittent low levels of oocysts as opposed to massive contamination event as was the case in the Milwaukee and Oxford/Swindon outbreaks, both associated with rainfall events.


Cancer patients undergo intensive chemotherapy with cytotoxic and immunosuppressive drugs and often radiation treatment in attempts to destroy neoplastic growth. These measures also attack the immune system, leaving the patient with little defense against opportunistic pathogens. For example, in cancer immunosuppressed patients, the mortality ratio for adenovirus infection was 53% [65]. Bone marrow transplantation is an effective therapy in patients with severe aplastic anemia or acute leukemia. However, because of a very weakened immune system, they are very susceptible to infection. The case fatality ratio among bone marrow transplants with enteric viral (rotavirus, Coxsackievirus, adenovirus) infection was 59% in one study [73]. Five of eight patients with rotavirus infections died. The case fatality ratios for adenoviruses for bone marrow patients ranged from 53% to 69%, depending on subgenus (Table 4.8).


Table 4.8 Mortality Ratios among Specific Immunocompromised Patient Groups with Adenovirus Infection


Source: Ref. [65].




























Patient Group Case Fatality Ratio Mean Age Of Patient Group (Years)
Bone marrow transplants 60 15.6
Liver transplant recipients 53 2.0
Renal transplant recipients 18 35.6
Cancer patients 53 25
AIDS patients 45 31.1

Coxsackievirus A1 infection, which seldom causes diarrhea in healthy persons, resulted in the deaths of six of seven bone marrow patients in one outbreak [73]. Hypogammaglobulinemic patients were at increased risk of chronic meningoencephalitis from enteroviruses [74]. Chronic meningoencephalitis was most frequently associated with echovirus infection but has occasionally been reported in association with Coxsackievirus B infection.


Databases for Statistical Assessment of Disease


In the United States, official statistics on diseases are compiled as part of the National Notifiable Diseases Surveillance System (NNDSS). For assessing vital statistics, certain diseases have been reported since 1920; up to 1960, the health statistics were obtained from publications of the National Vital Statistics System. Initially part of the Public Health Service, the National Center for Health Statistics is now a part of the CDC. The number of reported cases is summarized by type of disease, reported month, state, age, and race in some cases. There are some temporal, spatial, and demographic assessments of the health outcomes by disease [75, 76]. At the state level, the cases are generally reported by county. The data represent only clinically identified cases, and then case ratios (cases to total population) or incidence rates are most often reported annually (numbers of cases/total population per year, often referred to as cases per 100,000 population for U.S. data). It is clear that some diseases are easily identified and reported consistently by all states (e.g., human rabies), while other diseases (e.g., salmonellosis) are underreported. Diseases such as giardiasis are reported at the state level but not always at the national level, and some (e.g., infections associated with Helicobacter and enteric viruses) are not reported at all. Generic illnesses or symptoms are not reported, and antibody prevalence is not reported.


Many diseases associated with transmission through the environment are not reportable. The hazards and health outcomes are underappreciated and inadequately quantified, because these rates are reported without regard to who is exposed or who may experience the gravest consequence as a result of the risk. Worldwide, the assessment and reporting in most countries of most diseases are poor. Given the inadequacy of clinical tests and people’s failure to seek medical attention and even get the proper tests done, it is known that these reports woefully underestimate the burden of disease in most populations. Table 4.9 summarizes the diseases reported at the national level in the various reports for the United States (1943, 1970, 1996, and 2011). One can see the changes that have occurred over the last 60 years in the diseases reported; new emerging diseases of concern will be included in some years such as Cyclospora. The use of vaccines have essentially eliminated or reduced dramatically the level of some diseases in the United States.


Table 4.9 Summary of Notifiable Diseases in the United States for Selected Years


Source: Data from Refs. [3, 77, 78].












































































































































































































































































































































































Year
1943 1970 1990 1996 2011
U.S. Population 134,245,000 203,805,000 248,710,000 265,284,000 316,668,567
Disease



AIDS

41,595 66,885 35,266
Amebiasis 3,329 2,888 3,217
Anthrax 72 2

1
Arboviral diseases (neural invasive)



120
Aseptic meningitis
6,480 11,852
Botulism
12 92 127 153
Brucellosis 3,722 213 95 112 79
Chancroid 8,354 1,416 4,212 386 8
Cholera

6 4 40
Coccidioidomycosis



22,634
Cryptosporidiosis


2,426a 9,250
Cyclosporiasis



151
Dengue



251
Diphtheria 14,811 435 4 2
E. coli O157:H7


2,741
Encephalitis 771 1,580 1,341
Giardiasis



16,747
Gonorrhea 275,070 600,072 690,169 325,883 321,849
Granuloma inguinale 1,748 124 97
Haemophilus influenzae


1,170 3,539
Hansen’s disease (leprosy) 35 129 198 112 82
Hantavirus pulmonary syndrome


22a 23
HUS post diarrhea



290
Hepatitis A
56,797 31,441 31,032 1,398
Hepatitis B
8,310 21,102 10,637 2,903
Non-A and non-B hepatitis

2,553 3,716 1229b
Unspecified hepatitis

1,671
Legionellosis

1,370 1,198 4,202
Leptospirosis

47 77
Listeriosis



870
Lyme disease


16,455 33,097
Lymphogranuloma venereum 2,593 612 471
Malaria 54,554 3,051 1,278 1,800 1,724
Measles 633,627 47,351 9,643 508 220
Meningococcal 18,223 2,505 2,130 3,437 759
Mumps
104,953 4,264 751 404
Murine typhus fever 4,528 27 43
Novel influenza A



14
Pertussis 191,890 4,249 2,719 7,795 18,719
Plague 1 13 11 5 3
Poliomyelitis 12,450 33 8 5 0
Psittacosis 1 35 94 42 2
Q fever


NR 134
Rabies (animals) 9,649 3,224 6,910 6,982 4,357
Rabies (humans) 47 3 3 3 6
Rheumatic fever
3,227 127
Rocky Mountain spotted fever 473 380 628 831
Rubella (German measles)
56,552 1,401 238 4
Rubella (congenital)
77 11 4
Salmonellosis 731 22,096 48,603 45,471 51,887
Shigellosis 31,590 13,845 27,077 25,978 13,352
Smallpox 765

NR
Syphilis 82,204 21,982 134,255 52,976 46,042
Tetanus
91,382 64 36 36
Toxic shock syndrome

322 145 78
Trichinosis
148 129 11 15
Tuberculosis 120,253 109 25,701 21,337 10,528
Tularemia 966 37,137 152 NR 166
Typhoid fever 4,690 172 552 396 390
Varicella (chickenpox)
346 173,099 83,511 14,513
Yellow fever


1
Vibriosis



832

a Cases from disease-specific reports.


b Hepatitis C virus.


Often, diseases that rise to national significance get reported in separate documents. In 1996, 2741 cases of E. coli O157:H7 illness were reported, including 102 cases of HUS. Cryptosporidiosis was made reportable in 1995 with 2972 cases reported from 27 states and 2426 cases reported in 1996 from 42 states but was not included in the 1996 table. In 2011, there were 9250 cases of cryptosporidiosis and 16,747 cases of giardiasis.


Hantavirus pulmonary syndrome associated with environmental transmission from rodents was reported in 26 states: 22 cases in 1996 and another 138 cases as of May 1997 (the case fatality was 47.5%; thus, although the incidence was low, the consequence or health outcome was significant). There were 290 cases reported in 2011.


ICD Codes


Within the National Center for Health Statistics are several other databases that are often used to examine health outcomes and relative risks. In 1990, the National Ambulatory Medical Care Survey provided data from office-based physicians through examination of patient records and gave an indication of the number of persons who seek a physician and are diagnosed. Like the FoodNet program developed in 1996, which enlists state health departments and local network systems, these systems have demonstrated that for most mild illnesses, patients do not seek a physician and do not undergo the correct clinical testing for diagnosing the diseases. Therefore, testing and not reporting appears to be the limiting factor for most diseases. Other significant databases that have been used to examine more severe disease outcomes and death include the National Hospital Discharge Survey (begun in 1988 to assess the number of patients treated in hospitals) and National Mortality Followback Survey (representing about 1% of the U.S. resident deaths). These systems use the International Classification of Diseases (ICD), which assigns codes for specific diseases.


The International Classification of Diseases Ninth Revision of the Clinical Modification (ICD-9-CM) codes have been used to examine foodborne disease. However, those cases of enteric infectious diseases may or may not have been transmitted by the foodborne disease or may actually have been waterborne; thus, the exposure may not be well defined. Nevertheless, medical discharge certificates are useful for assessing severity, costs, and relative health outcomes. Costs have been estimated by the average length of stay in the hospital and the 1990 national average cost per day of $687. The numbers of cases per year over a 4-year period ranged from 5,344 for Shigella to 530,689 for unspecified acute gastroenteritis at costs between $16 million and $2 billion. These data have also been used to examine the demographics of those affected, including AIDS patients and the elderly (Table 4.10). These data suggest that for HIV patients, protozoa are of greater significance, and for the elderly, other enteric bacteria are of greater concern. In all cases, unspecified intestinal illness appears to be a major cause of disease, and thus, the hazard remains unidentified.


Table 4.10 Summary of Patients Discharged from Hospitals by Category of Disease in the United States, 1990


Source: Data from Refs. [79–81].













































































































Year
Disease ICD-9-CM Code Total Mentions Percent Distributions by Mention with HIV/AIDS Percent Distributions by Mention with the Elderly
Amebiasis 006.0 1,341
0.11
Botulism 005.1 729
Cholera 001.9 92
0.04
E. coli enteritis due to unspecified strains 008.0 2,258
Giardiasis (part of other protozoa 007) 007.1 2,967
Hepatitis A 070.1 6,643 4.1 0.66
Hepatitis all 070 12,810
Ill-defined intestinal infections 009 28,303 12.1 1.62
Intestinal infections due to other microorganisms 008 176,282 15.1 25.11
Listeriosis 027.0 1,248
0.28
Other noninfectious gastroenteritis and colitis or unspecified 558 562,047 54.1 69.64
Protozoal intestinal disease (excluding amebiasis) 007 4,864 12.1 0.02
Salmonellosis 003 17,984 2.6 1.11
Shigellosis 004 2,113
0.04
Staphylococcal 005.0 308
0.88
Toxic effects of noxious substances (e.g., mushrooms, shellfish) 988 352
Trichinosis 124 42
Typhoid fever and paratyphoid fevers 002 2,056
0.49

By comparing Table 4.9 to Table 4.10 for 1990, one can see that in trying to define hospitalization ratios based on these data, the denominator will be greatly underestimated for some diseases. For example, for HAV, total hospitalizations/total national reports give a ratio of 6643/31,410 or 21%, compared to 28.3% for hospitalizations during waterborne outbreaks (see Table 4.4). However, for Salmonella, the hospitalizations/total reports were 17,984/48,603 or 37%, compared to 4.1% during waterborne outbreaks.


Waterborne and Foodborne Outbreaks


The health endpoints measured in epidemiological and surveillance studies of infectious diseases can be divided into several groups: (1) endemic risks, which are the constant low levels of diseases or infections that are present and circulating in a population; (2) epidemic risks, which are disease cases in excess of the number of cases normally found or expected, constituted as an outbreak if limited to a specific population; and (3) outbreaks, where two or more cases are associated with a common exposure in time and place or source. In most cases, these studies rely on routine health surveillance methods, whereby people seek medical attention, submit laboratory samples, and are diagnosed. Often, this is done retrospectively, through the examination of records or through personnel interviews and recall.


There are several estimates of endemic waterborne disease risks that include:



  • Approximately 19 million waterborne illnesses/year for community water systems in the United States (5.4 million illnesses from groundwater and 13 million illnesses from surface water systems) [82]
  • 12 million cases/year [83]
  • 16 million cases/year [84]

Outbreaks are generally associated with specific population and exposure in time and place. There are community outbreaks that may be associated with the contamination of water or food. There are outbreaks at events (weddings and dinners, generally associated with foods), outbreaks associated with recreational exposure (fecal accidents in swimming pools), and outbreaks associated with place (hospital and day care and cruise shipoutbreaks, associated with contamination of food, water, surfaces, instruments, hands, etc.).


From 1971 to 2008 in the United States, more than 576,853 persons were reported ill during 747 documented waterborne outbreaks caused by bacteria (15%), viruses (9%), protozoa (19%), and chemicals (11%) [10–25, 72, 85–93]. The etiological agents causing acute gastrointestinal illness in a large percentage of the outbreaks were not identified (45%), and in the last record, outbreaks were identified with multiple types of pathogens (<1%). The numbers of outbreaks and cases associated with microbial agents are shown in Table 4.11. During the investigation of drinking water outbreaks, the source of the water (groundwater, spring, river) is also identified as well as the treatment deficiency (e.g., no disinfection).


Table 4.11 Historical Reported (US) Cases by Organism


Source: Refs. [10–25, 72, 85–93].

























































































































































































































































































































































































































1971–1980 1981–1990 1991–2000 2001–2008 1971–2008
Total Total Total Total Total
Etiology Outbreaks Cases Outbreaks Cases Outbreaks Cases Outbreaks Cases Outbreaks Cases
Bacterium 39 12,168 21 6,402 24 2,868 33 3,462 117 24,900
C. jejuni, Cryptosporidium spp., and Helicobacter canadensis





1 82 1 82
C. jejuni and Y. enterocolitica





1 12 1 12
C. jejuni and Shigella spp.





1 57 1 57
C. jejuni, Norovirus, and G. intestinalis





1 1,450 1 1,450
Cyanobacteria-like bodies

1 21



1 21
Campylobacter spp. 2 3,800 7 1,243 5 340 9 286 23 5,669
Cholera

1 17



1 17
E. coli and C. jejuni



1 761

1 761
E. coli 1 1,000 1 243 8 257 3 68 13 1,568
L. pneumophila
801
472
247 12 75 12 1,595
Non-O1 V. cholerae



1 11

1 11
Plesiomonas shigelloides



1 60

1 60
Providencia





1 55 1 55
Shigella 24 5,195 8 3,170 5 359

37 8,724
Salmonella spp. 8 1,150 2 1,220 3 833 4 1,377 17 4,580
Typhoid fever 4 222





4 222
Yersinia

1 16



1 16
Virus 26 3,562 19 9,435 6 584 14 1,352 65 14,933
HAV 16 415 9 299 1 10 2 25 28 749
Norovirus G1, C. jejuni, and Norovirus G2





1 139 1 139
Norovirus





11 1,188 11 1,188
Norwalk-like viruses 7 2,210 9 7,375 3 356

19 9,941
Parvovirus-like agent 3 937





3 937
Rotavirus

1 1,761



1 1,761
Small round structured virus



2 218

2 218
Parasite 38 19,546 63 18,931 32 410,437 9 204 142 449,118
Cryptosporidium species

2 13,117 11 408,259 1 10 14 421,386
C. cayetanensis





1 82 1 82
Entamoeba

1 4



1 4
G. intestinalis 38 19,546 60 5,810 21 2,178 6 110 125 27,644
N. fowleri





1 2 1 2
Chemical 37 3,592 16 282 21 486 8 190 82 4,550
Copper



5 117 2 30 7 147
Copper and other minerals





1 4 1 4
Chlorine



1 1

1 1
Concentrated liquid soap



1 13

1 13
Ethylene glycol





1 3 1 3
Ethylbenzene, toluene, xylene





1 2 1 2
Fluoride



3 305

3 305
Lead



3 3

3 3
Nitrate



6 15

6 15
Sewage poisoning 13 1,065





13 1,065
Sodium hydroxide



2 32 3 151 5 183
Unidentified 162 38,740 92 26,030 58 15,125 14 2,122 326 82,017
Multiple/unidentified





2 270 2 270
Total microbial 265 74,016 195 60,798 120 429,014 72 7,140 652 570,968
Total 315 78,673 211 61,080 141 429,500 80 7,600 747 576,853

Recreational outbreaks associated with ambient waters (untreated) and pools and spas, whirl baths, hot tubs, etc. (treated) have also been reported in the waterborne outbreak databases. From 1981 to 2008, 188 outbreaks occurred in natural recreational waters with an associated 7712 cases. Figure 4.5 and Figure 4.6 show microbial hazards (HAZ ID)/etiological agents by outbreaks and cases, respectively [23–25, 72, 85, 88–90, 92–94].

c4-fig-0005

Figure 4.5 Recreational waterborne outbreaks (n = 188) in natural waters, 1985–2008 in the United States by HAZ ID



(adapted from Refs. [23–25, 72, 85, 88–90, 92–94]).

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Dec 14, 2017 | Posted by in MICROBIOLOGY | Comments Off on Conducting the Hazard Identification (HAZ ID)

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