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2164 CHAPTER 342  PRE-2019 Coronaviruses

342
PRE-2019 CORONAVIRUSES
SUSAN I. GERBER AND JOHN T. WATSON

DEFINITION
Human coronaviruses were, until 2003, recognized as a frequent cause of
common cold symptoms, occasionally a cause of lower respiratory tract disease,
but rarely if ever a cause of serious disease. In 2003 a novel coronavirus was
recognized in humans as the etiologic agent of the outbreak of severe acute
respiratory syndrome (SARS).1,2 The SARS outbreak demonstrated that
coronaviruses can be serious human pathogens and led to discovery of other
novel human coronaviruses as well as multiple novel coronaviruses in bats,
the likely reservoir for SARS coronavirus. In 2012 the Middle East respira-
tory syndrome (MERS) coronavirus emerged and provided another example
of coronavirus’s ability to cause severe human disease.3,4 Then in 2019, the
SARS coronavirus 2 (SARS-CoV-2) emerged and caused coronavirus disease
2019 (COVID-19), which has led to the largest global pandemic for at least
a century (Chapter 342A).

The Pathogens
Coronaviruses are members of the family Coronaviridae, which includes two
subfamilies, Coronavirinae and Torovirinae. Coronaviruses are single-stranded
positive-sense RNA viruses with a genome of approximately 30 kb, the largest
genome among RNA viruses. These viruses were named coronaviruses because
by electron microscopy they have club-shaped surface projections that give
them a crown-like appearance. The genome encodes four or five structural
proteins (a spike protein [S], a small envelope protein [E], a membrane protein
[M], a nucleocapsid protein [N], and sometimes a hemagglutinin-esterase
protein [HE]), a varying number of open reading frames scattered among
the structural genes, and a polyprotein that is processed into multiple (usually
16) nonstructural proteins. These nonstructural proteins participate in virus
replication but are not incorporated into the virion. Coronaviruses have also

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CHAPTER 342  PRE-2019 Coronaviruses 2164.e3

ABSTRACT KEYWORDS
Human coronaviruses were, until 2003, recognized frequently as a cause of coronavirus
common cold symptoms, occasionally as a cause of lower respiratory tract severe acute respiratory syndrome (SARS)
disease, but rarely if ever as a cause of serious disease. In 2003, however, a Middle East respiratory syndrome (MERS)
novel coronavirus was recognized as the cause of the severe acute respiratory human-animal interface
syndrome (SARS). The SARS outbreak demonstrated that coronaviruses can
be serious human pathogens and led to discovery of other novel human coro-
naviruses as well as multiple novel coronaviruses in bats, the likely reservoir
for SARS coronavirus. In 2012 the Middle East respiratory syndrome (MERS)
coronavirus provided another example of coronavirus’s ability to cause severe
human disease, but the emergence of SARS coronavirus 2 (SARS-CoV-2)
and coronavirus disease 2019 (COVID-19) has resulted in the most serious
human infectious disease pandemic in at least a century.

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CHAPTER 342  PRE-2019 Coronaviruses 2165
been isolated from a variety of animals and birds and, in their respective period is estimated at just over 5 days (range, 2 to 14 days), and sporadic human
species, cause a wide range of respiratory, gastrointestinal (GI), neurologic, cases and clusters of MERS coronavirus infections continue to be reported. 
and systemic illnesses. The coronaviruses are divided into four genera: alpha,
beta, gamma, and delta. The 229E and NL63 viruses are alphacoronaviruses, PATHOBIOLOGY
whereas OC43 and HKU1 are betacoronaviruses. SARS coronavirus, MERS The human coronaviruses characterized to date infect humans through the
coronavirus, and SARS-CoV-2 are betacoronaviruses but belong to different respiratory tract. The sites where the virus then replicates is determined at least
lineages. Detection and characterization of novel coronaviruses in bats has in part by which cells express the respective receptors. The receptors for 229E
greatly expanded our understanding of diversity among coronaviruses and and NL63 coronaviruses are aminopeptidase N and angiotensin-converting
will likely continue to do so.  enzyme 2 (ACE2), respectively. The receptors for OC43 and HKU1 corona-
viruses have not yet been determined, but OC43 may use several cell surface
molecules as receptors, including 9-O-acetylated neuraminic acid. The primary
Pre-2019 Coronaviruses
receptor for SARS coronavirus is ACE2, but the virus also binds to two C-type
EPIDEMIOLOGY lectins expressed on dendritic cells, DC-SIGN and L-SIGN. Aminopeptidase
The common human coronaviruses—229E, OC43, NL63, and HKU1—appear N is expressed in various cells, including respiratory, GI, kidney epithelial,
to be transmitted through close contact that probably includes contamination and myeloid cells, but 229E is known to infect only respiratory epithelial
of hands from person-to-person contact or from fomites, followed by autoin- cells. ACE2 is found in various tissues, including the lung, GI tract, heart,
oculation to the mucosal surfaces of the mouth, nose, or eyes or inhalation of and kidneys. The SARS coronavirus has consistently been detected in pneu-
infectious droplets and possibly aerosols. Infections are seasonal, with U.S. mocytes in the lung and enterocytes in the GI tract and is occasionally found
cases peaking in December through March.4b Recent data suggest that about in other cells, including distal tubular cells in the kidney and macrophages
25% of cases are from an infected household contact.4c in various tissues. Autopsy studies suggest that infection in the lung leads
Symptoms occur 2 to 4 days after infection. These coronaviruses are detected initially to diffuse alveolar damage and later may lead to a repair process that
in patients with acute respiratory illnesses, most often a mild upper respiratory includes fibrosis in the alveolar walls. It is not known whether NL63, which
tract illness (i.e., common cold) but also in patients with more serious respiratory also uses ACE2 as its receptor, infects sites other than the respiratory tract.
illnesses, including pneumonia, bronchiolitis, and croup. Coronavirus infections The MERS coronavirus receptor is the exopeptidase dipeptidyl peptidase 4
are detected early in childhood, and repeated infections can occur throughout (DPP4), also known as CD26. DPP4 is found on many different cell types
life. About 50% of children have antibodies against OC43 by 3 years of age, and including nonciliated bronchial epithelial cells, bronchiolar epithelial cells,
about 70% of adults have such antibodies. Up to 75% of children have antibodies alveolar epithelial cells, endothelial cells, and lung ex vivo organ cultures. In
against NL63 and 229E by 3 to 4 years of age. Studies looking for 229E- and addition, DPP4 is expressed on the epithelial cells in kidney, small intestine,
OC43-like infections suggest that coronaviruses are associated with about 15% liver, and prostate as well as in activated leukocytes.
of cases of the common cold and with up to 10% of cases of acute respiratory It is likely that the illness associated with coronavirus infections results from
illnesses in children and adults. Individually, 229E, OC43, HKU1, and NL63 both the cytopathic effect of the virus and the host immune and inflamma-
are detected in less than 1 to 4% of cases, and their individual contributions tory response to the viral infection. How this interplay contributes to disease,
will vary by location and year. Serious illness has been reported in outbreaks however, is not understood. The biphasic course of SARS in some patients, with
among elderly patients in nursing homes. In one outbreak associated with OC43 the onset of severe disease in the second week of illness and the decrease in
infection, for example, 23 residents and 24 staff reported influenza-like illness, lymphocyte numbers, suggests a role for the host response and virus-induced
and three residents died. However, some reports have found rates of detection immune suppression in the disease process. Similarly, it appears that the host
of coronaviruses among hospitalized children with acute respiratory illness response and virus-induced immune suppression may also contribute to MERS
and/or fever to be similar to the rates of asymptomatic controls, thereby raising coronavirus disease. 
questions about the virus’s role in more severe disease and hospitalization. The
229E, OC43, NL63, and HKU1 coronaviruses can be detected throughout the CLINICAL MANIFESTATIONS
year, but peak detection is often during fall and winter months in temperate 229E, OC43, NL63, and HKU1 coronavirus infections are commonly associ-
climates. A second respiratory viral pathogen can be detected in 20 to 60% of ated with acute respiratory illnesses that are usually mild and consistent with
specimens positive for one of these coronaviruses. the common cold (Chapter 337) but can also result in the full range of acute
Most documented SARS coronavirus infections in humans occurred in respiratory illnesses, including pneumonia (Chapter 91),6b croup (Chapter 401),
persons ill with a SARS-like illness during the 2002–2003 global outbreak. bronchiolitis, and bronchitis (Chapter 90). Endemic common human coronavi-
It is likely that wild animal markets in Guangdong Province, China, played ruses account for about 5% of hospitalized adults with acute respiratory illnesses.6c
a key role in amplifying and introducing the virus into humans, but the The best studied of these coronaviruses, human coronaviruses 229E
original source of the outbreak virus was likely bats. Detection of multiple and OC43, cause respiratory symptoms (e.g., rhinorrhea, nasal conges-
SARS-like and other coronaviruses in bats suggests that they are a rich tion, sore throat, cough) as well as systemic symptoms (e.g., fever, head-
source of coronaviruses. A coronavirus recently isolated from bats has 95% ache, malaise) when they are inoculated intranasally into adult volunteers.
nucleotide sequence identity to the SARS viruses and can infect humans Symptoms develop 2 to 4 days after inoculation, but about 30% of vol-
via the ACE2 receptor. Although animals were the original source of human unteers who excrete virus have no associated illness. Symptoms usually
infections, global spread of SARS coronavirus occurred through human-to- persist for about 1 week but sometimes for as long as 3 weeks. Previous
human transmission and involved droplet, fomite transmission, and, in some infection does not induce high levels of protective immunity. Humans can
instances, probably small-particle aerosol transmission. Most transmission be reinfected with respiratory coronaviruses throughout life, and human
occurred within households, hospitals, or other health care facilities; little volunteers can be symptomatically reinfected with the same strain of coro-
transmission occurred in the community. navirus 1 year after the first infection. As with other infections, the severity
MERS coronavirus was first recognized in the Arabian Peninsula in 2012. of disease varies among individual patients during the same outbreak and
Coronaviruses similar to the MERS coronavirus have been detected in bats, among groups of patients during different outbreaks in the same community.
suggesting that bats may be a source of this virus. Dromedary camels, however, In contrast to the mild illness associated with 229E and OC43, SARS
appear to act as a reservoir for the virus and a vehicle for human transmission. coronavirus infection nearly always results in a serious illness that requires
Dromedary camels in the Middle East and Africa may harbor live MERS hospitalization, often in an intensive care unit (ICU), and a high fatality rate.
coronavirus, and young camels in these areas nearly universally have anti- Radiologic evidence of pneumonia was seen in nearly all SARS coronavi-
body titers detected by the age of 2 years. Furthermore, in humans without rus–infected persons, and acute respiratory distress syndrome (Chapter 96)
known preillness exposure to other human MERS cases, direct exposure to requiring admission to an ICU and mechanical ventilation developed in 20%
dromedary camels during the prior 2 weeks is independently associated with or more of patients. The initial clinical manifestation of SARS was often sys-
developing MERS.5 Person-to-person spread occurs within health care settings temic symptoms of fever, malaise, and myalgias from 2 to 10 days (rarely
and is associated with the majority of reported transmission. For example, an >10 days) after exposure. Several days after the onset of systemic symptoms,
outbreak of 186 cases in the Republic of Korea in 2015 resulted from a single lower respiratory tract symptoms of nonproductive cough and shortness of
infected traveler who returned from the Arabian peninsula.6 Transmission breath were noted. Unlike patients with other respiratory virus infections,
among household family members also has been reported, but so far there the majority of patients never experience upper respiratory tract symptoms
has been no evidence of sustained community transmission. The incubation such as rhinorrhea, sore throat, or nasal congestion (Table 342-1). During the

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2166 CHAPTER 342  PRE-2019 Coronaviruses
have a severe lower respiratory tract illness and some potential exposure to
TABLE 342-1 PERCENTAGE OF HOSPITALIZED SARS SARS within 10 days before the onset of illness.
AND MERS CORONAVIRUS–INFECTED Laboratory confirmation of SARS coronavirus infection early in the illness
PATIENTS WITH SELECTED CLINICAL AND proved to be difficult even with sensitive real-time PCR assays. Unlike in most
LABORATORY FEATURES OF SARS AND MERS respiratory viral infections, the highest titer of virus or viral RNA was found
CORONAVIRUS INFECTIONS in clinical specimens from the beginning of the second week of illness. During
the first week of illness, the best way to detect infection is by a sensitive PCR
SARS MERS
assay or a sensitive enzyme immunoassay for N protein antigen applied to
CLINICAL OR AT HOSPITAL AT respiratory and serum specimens. During the second week of illness, respiratory
LABORATORY FINDING ADMISSION PRESENTATION and stool specimens are most likely to be positive for viral RNA. Antibodies
Fever 90-100% ≈90-100% were sometimes detected early in the second week of illness but at times
Cough or shortness of breath 40-75% 83% were not detected until 4 weeks into the illness. Because antibodies to SARS
Diarrhea 20-30% 26%
coronavirus were rarely present before the 2003 outbreak, a single positive
antibody test result from an ill person could be considered diagnostic of an
Chest radiograph abnormalities 65-90% 100% acute SARS coronavirus infection. However, because the reemergence of SARS
Lymphopenia* 50-90% 34% coronavirus will have substantial public health, social, and economic impact,
+ +
*Both CD4 and CD8 lymphocyte counts are decreased. and because of occasional cross-reacting antibodies induced by other corona-
MERS = Middle East respiratory syndrome; SARS = severe acute respiratory syndrome. viruses, a neutralization antibody test and confirmatory testing by a reference
From Assiri A, Al-Tawfiq JA, Al-Rabeeah AA, et al. Epidemiological, demographic, and clinical laboratory are required to confirm the diagnosis. Public health departments
characteristics of 47 cases of Middle East respiratory syndrome coronavirus disease from Saudi should be consulted for questions about SARS diagnostic tests. 
Arabia: a descriptive study. Lancet Infect Dis. 2013;13:752-761.

MERS
A diagnosis of MERS coronavirus infection should be considered in patients
course of their illness, most SARS coronavirus–infected patients had elevated with severe acute respiratory infection of unknown cause and a possible expo-
liver enzyme levels and lymphopenia, including a substantial drop in numbers sure or epidemiologic link to the Arabian Peninsula.8,8b PCR assays have been
of both CD4+ and CD8+ T cells. In general, children had less severe illness used to detect RNA in upper respiratory tract specimens (nasopharyngeal,
than adults. oropharyngeal) and preferably in lower respiratory tract specimens (sputum,
The clinical spectrum of MERS coronavirus illness ranges from asympto- tracheal aspirate, and bronchoalveolar lavage fluid have the highest viral loads),
matic infection to severe illness.7 Symptoms include cough, fever, malaise, as well as in serum, stool, and urine. A confirmed case of MERS coronavirus
chills, arthralgias, rigors, and dyspnea. Approximately 25% of patients have infection requires a positive PCR on at least two specific gene targets or a
GI symptoms that include diarrhea, vomiting, and abdominal pain. Patients single positive target with sequencing on a second.
who are severely ill have pneumonia that sometimes progresses to acute res- A number of serologic assays can detect antibodies to the nucleocapsid and
piratory distress syndrome. spike proteins. The sensitivity and specificity of these assays for diagnosing
Laboratory findings include leukopenia and lymphopenia, and some patients current or past MERS coronavirus infection have not yet been determined.
have thrombocytopenia and abnormal liver enzymes. Chest radiographic find- Public health departments should be consulted for questions about MERS
ings have included patchy infiltrates, lobar opacities, and similar to the SARS diagnostic tests.
coronavirus, a ground-glass appearance. 

DIAGNOSIS
Because illness is usually mild and there is no effective treatment, the TREATMENT
diagnosis of 229E, OC43, NL63, and HKU1 coronavirus infections has
not been important to the management of patients. The accurate diagno- There is no virus-specific treatment for 229E, OC43, HKU1, and NL63 corona-
virus infections, but the illnesses are mild and usually resolve in a few days to a
sis of SARS and MERS coronavirus infections is, however, critical for the week. Patients require symptomatic therapy or, uncommonly, management of
management of individual patients and to mount an appropriate public complications of infection.
health response. Treatment of SARS and MERS coronavirus infections is more complex. For
MERS, a combination of recombinant inteferon beta-1b and lopinavir–ritonavir,
229E, OC43, HKU1, and NL63 Coronavirus Infections when administered within seven days of onset, was shown in one study to
Coronavirus polymerase chain reaction (PCR) assays are the assays of choice lower mortality from 44% to 28% among hospitalized patients with laboratory-
for diagnosis of infection. Most coronavirus PCR assays are type specific—that confirmed disease.A1b Currently, however, there is no consensus recommendation
for the treatment of MERS, and no antiviral drug has proved to be effective for
is, specific to MERS coronavirus, SARS coronavirus, 229E, OC43, HKU1, SARS. With the high death rate associated with both of these viruses, supportive
or NL63 RNA. Coronavirus diagnostic assays are becoming more generally measures, including mechanical ventilation and oxygenation regimens (Chapter
available and are sometimes part of a PCR panel designed to detect respiratory 96), are key. In the SARS coronavirus outbreak, in vitro data showed little if any
viruses. Presence of the virus can also be inferred by electron microscopy and antiviral effect with ribavirin and suggested that interferon alfa, SARS convales-
confirmed by in situ or immunohistologic assays of affected tissues. Positive cent phase immune globulin, and lopinavir plus ritonavir might have been useful.
immunohistologic and in situ hybridization studies document the site of Although many people were treated during the outbreak, lack of control groups
infection and help support a link between the virus and the disease process. makes it impossible to determine which if any therapies were beneficial. For MERS
coronavirus, in vitro data and animal models demonstrate inhibitory effects for
A variety of enzyme or fluorescent immunoassays for antibodies have been a number of antiviral agents, including interferons, ribavirin, and lopinavir/rito-
used successfully to detect infection. Most assays detect immunoglobulin G navir. Immunotherapeutic options undergoing evaluation include convalescent
(IgG) antibodies, but virus neutralization antibody assays are more specific. plasma and monoclonal and polyclonal antibodies. However, no consensus is
Serologic tests to detect a diagnostic rise in antibodies between acute and currently available regarding their efficacy for treating human infection.
convalescent serum specimens for 229E, OC43, HKU1, and NL63 coronavirus
infections are not helpful for managing an acute illness but can be helpful for  
epidemiologic studies. 

SARS PREVENTION
Three features of SARS cases help guide approach to its diagnosis. First, SARS Handwashing and other infection-control measures probably decrease the
has been documented only in persons who have some potential exposure—that spread of coronaviruses in the home, health care facilities, and other settings.
is, to patients with SARS, to a location with SARS transmission, to a laboratory These strategies focus on reinforcing the need for patients with respiratory
working on SARS coronavirus, or to a setting where SARS-infected animals illnesses to cover the nose and mouth when coughing or sneezing, to use
might be located (e.g., southern China). Second, nearly 100% of infected tissues to contain respiratory secretions, and to wash the hands after contact
patients develop chest radiographic abnormalities by day 10 of their illness. with respiratory secretions. Staff should use good infection-control practices.
Finally, SARS nearly always develops within 10 days of exposure. Thus a sus- Within 4 months of the initiation of the 2003 SARS outbreak, the out-
picion of SARS and a diagnostic evaluation can be limited to patients who break was contained and human-to-human transmission stopped without a

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vaccine or effective antiviral therapy but thorough implementation of the
classic public health tools of early case detection, isolation, and contact tracing
and management, including quarantine of contacts. For MERS, the effective-
ness of these measures in interrupting transmission also has been repeatedly
demonstrated, most notably for outbreaks associated with health care facilities.
The cases of laboratory-acquired SARS coronavirus infection and the
subsequent transmission of disease to others after one such case reinforces
the importance of strict attention to safe laboratory practices. Because the
reemergence of SARS could lead to global spread, the local, national, and
global public health and health care communities must be alerted quickly and
updated regularly about new cases and the status of transmission.
Strict attention to standard contact and airborne precautions is recom-
mended for SARS and MERS coronavirus–infected patients within hospital
settings. MERS coronavirus infections continue to occur in the Middle East,
and local, national, and global public health and health care communities
should be immediately notified of a case. Vaccine development is underway
for both SARS and MERS coronaviruses. 

PROGNOSIS
Patients with typical community-acquired coronavirus infections typically
recover completely. However, patients with compromised cardiac, pulmonary,
or immune systems are at increased risk of more serious lower respiratory tract
illness, and outbreaks of human coronavirus infections in elderly patients in
chronic care facilities can cause severe lower respiratory illnesses and deaths.
In the SARS outbreak, nearly 10% of patients died. The death rate was espe-
cially high, approaching 50%, in elderly patients and patients with underlying
illnesses. Although most survivors of SARS coronavirus infection appeared
to achieve full recovery, as many as 25% had abnormal pulmonary findings
such as ground-glass opacities on chest radiograph or abnormal pulmonary
function test results (e.g., decreased diffusing capacity) 6 months or more
after their illness. The MERS fatality rate initially was reported to be about
40%, but is now lower as less severe cases and seropositive persons without
obvious infection have been identified.9 
SARS Coronavirus 2 (SARS-CoV-2) and COVID-19
See Chapter 342A.

Grade A References

A1b.  Arabi YM, Asiri AY, Assiri AM, et al. Interferon beta-1b and lopinavir-ritonavir for Middle East
respiratory syndrome. N Engl J Med. 2020;383:1645-1656.

GENERAL REFERENCES
For the General References and other additional features, please visit Expert Consult
at https://expertconsult.inkling.com.

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CHAPTER 342  PRE-2019 Coronaviruses 2167.e1

GENERAL REFERENCES   6b.  da Veiga ABG, Martins LG, Riediger I, et al. More than just a common cold: Endemic coronaviruses
OC43, HKU1, NL63, and 229E associated with severe acute respiratory infection and fatality cases
1. U.S. Department of Health & Human Services. Centers for Disease Control and Prevention. Severe among healthy adults. J Med Virol. 2021;93:1002-1007.
acute respiratory syndrome (SARS). http://www.cdc.gov/sars. Accessed June 8, 2019.   6c.  Gilca R, Carazo S, Amini R, et al. Relative severity of common human coronaviruses and influenza
2. World Health Organization. Severe acute respiratory syndrome (SARS). www.who.int/csr/sars/en/. in patients hospitalized with acute respiratory infection: results from 8-year hospital-based surveil-
Accessed June 8, 2019. lance in Quebec, Canada. J Infect Dis. 2021;223:1078-1087.
3. U.S. Department of Health & Human Services. Centers for Disease Control and Prevention. Middle 7. Arabi YM, Balkhy HH, Hayden FG, et  al. Middle East respiratory syndrome. N Engl J Med.
East respiratory syndrome (MERS). http://www.cdc.gov/coronavirus/mers. Accessed June 8, 2017;376:584-594.
2019. 8. Ahmed AE, Al-Jahdali H, Alshukairi AN, et  al. Early identification of pneumonia patients at
4. World Health Organization. Middle East respiratory syndrome coronavirus (MERS-CoV). http:// increased risk of Middle East respiratory syndrome coronavirus infection in Saudi Arabia. Int J
www.who.int/csr/disease/coronavirus_infections/en/. Accessed June 8, 2019. Infect Dis. 2018;70:51-56.
  4b.  Killerby ME, Biggs HM, Haynes A, et  al. Human coronavirus circulation in the United States   8b.  Memish ZA, Perlman S, Van Kerkhove MD, et  al. Middle East respiratory syndrome. Lancet.
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  4c.  Monto AS, DeJonge PM, Callear AP, et al. Coronavirus occurrence and transmission over 8 years 9. Sikkema RS, Farag E, Himatt S, et al. Risk factors for primary Middle East respiratory syndrome
in the HIVE cohort of households in Michigan. J Infect Dis. 2020;222:9-16. coronavirus infection in camel workers in Qatar during 2013-2014: a case-control study. J Infect Dis.
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2167.e2 CHAPTER 342  PRE-2019 Coronaviruses
REVIEW QUESTIONS 2. What statement is most true about common human coronaviruses (OC43,
229E, NL63, and HKU1)?
1. Middle East respiratory syndrome (MERS) coronavirus has been detected
in which patient specimens? A . W henever a common human coronavirus is detected, there are associ-
ated severe clinical symptoms.
A . Respiratory tract specimen B. Common human coronaviruses are detected in individuals with mild
B. Serum or no clinical symptoms.
C. Stool C. All common colds are associated with common human coronaviruses.
D. Urine D. Common human coronaviruses have never been associated with croup
E. All of the above or pneumonia.
Answer: E  Virus has been demonstrated to be detectable in all of these patient Answer: B  Human coronaviruses may be detected from clinical specimens
specimens. Although respiratory tract specimens are most important for diag- from mildly ill or asymptomatic individuals. Human coronaviruses are only
nosis, specimens from additional sites may aid in the diagnosis of patients. one cause of the common cold, and these viruses also have been associated
with croup and pneumonia.

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