Hart C. Anthony, Shears Paul. Color Atlas of Medical Microbiology.pdf
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Immunodiagnostic and Molecular Techniques 625
Table 11.5 Immunological and Molecular Diagnosis of Parasitoses in Humans: A Selection of Techniques and Established Methods
Parasitosis |
Methods |
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Antibody assay1 |
Antigen assay |
DNA analysis |
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African trypanosomosis |
IFAT, ELISA, HA |
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PCR (blood) |
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(sleeping sickness) |
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American trypanosomosis |
IFAT, ELISA, HA |
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PCR (blood) |
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(Chagas disease) |
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Leishmaniosis |
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& visceral |
IFAT, ELISA |
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PCR (blood, lymph |
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node aspirate) |
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& cutaneous/mucocuta- |
(IFAT, ELISA) |
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PCR (biopsy) |
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neous |
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Giardiosis |
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IFAT, ELISA (stool) |
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Amebosis (Entamebosis) |
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& intestinal |
ELISA, IFAT |
ELISA (stool) |
PCR (stool) |
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& extraintestinal |
ELISA, IFAT |
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Toxoplasmosis |
ELISA, IFAT, SFT, |
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PCR (amniotic |
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CFT, ISAGA, WB, |
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fluid, placenta, |
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IgG avidity test |
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etc.) |
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Cryptosporidiosis |
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ELISA, IFAT (stool) |
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Malaria |
IFAT |
Rapid test |
PCR (blood) |
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(blood)2 |
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Microsporosis |
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PCR (stool, urine, |
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etc.) |
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Schistosomosis |
IFAT, ELISA |
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Fasciolosis |
IFAT, ELISA |
ELISA (stool) |
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Opisthorchiosis |
ELISA |
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Paragonimosis |
ELISA, HA |
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Echinococcosis |
ELISA, IFAT, WB |
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PCR |
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(metacestodes) |
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Cysticercosis |
WB, ELISA |
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11 |
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Taeniosis |
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ELISA (stool) |
PCR (proglottids) |
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Toxocarosis |
ELISA, WB |
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Filariosis |
ELISA, IFAT |
ELISA (serum) |
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626 Laboratory Diagnosis of Parasitoses
Table 11.5 Continued: Immunological and Molecular Diagnosis of Parasitoses in
Humans
Parasitosis |
Methods |
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Antibody assay1 Antigen assay |
DNA analysis |
Trichinellosis |
ELISA, IFAT, WB |
PCR (biopsy) |
Strongyloidosis |
ELISA, IFAT, WB |
|
Ascariosis |
ELISA |
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Anisakiosis |
ELISA |
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1In parentheses: techniques with low reliability.
2Rapid test to detect Plasmodium-specific antigens or lactate dehydrogenase. Abbreviations: ELISA: enzyme-linked immunosorbent assay, HA: hemagglutination, IFAT: indirect immunofluorescent antibody test, ISAGA: immunosorbent agglutination assay, CFT: complement fixation test , PCR: polymerase chain reaction, SFT: Sa- bin-Feldman test, WB: Western blot (immunoblot).
11
VI
Organ System
Infections
629
Medical microbiology explores how infectious diseases originate and develop. The focus of this branch of the life sciences is of course on infective pathogens, the causes of infections. This explains why the taxonomy of these microorganisms determines the structure of textbooks of medical microbiology, and this one is no exception. This approach does not, however, satisfy all the requirements of clinical practice. The practicing physician is confronted with a pathological problem affecting a specific organ or organ system, and therefore might well find good use for a brief reference tool covering the pathogenic agents that potentially affect specific organs and systems.
Medical microbiology must address two tasks: 1. describing the origins and development of an infection and 2. obtaining a laboratory diagnosis of the resulting disease that is of immediate clinical relevance to patient treatment. Chapter 12 of this book was written to help bridge the gap between basic microbiological science and the demands of medical practice. Concise information on etiology and laboratory diagnosis has been grouped in tabular form in 12 sections corresponding to the most important organs and organ systems. Infections that affect more than one organ system are listed with the system that is affected most severely and/or most frequently or in which the disease manifests most clearly. The pathogens in question are also listed with the other organ manifestations. In the tables, the most frequent causative pathogens in each case are printed in bold letters. Readers are referred to textbooks on internal medicine or specialist literature on infective diseases for exhaustive information on clinical aspects extending beyond etiology and laboratory diagnosis (see references at the end of the book). The descriptions of the diagnostic procedures used to clarify the different infections had to be kept concise in accordance with the tabular format. Since each laboratory offers its own specific set of testing techniques, a physician’s choices are defined and limited by what is feasible and available in a given
case. This applies in particular to the many different antibody assays now 12 available (= serology). The most important serological tests are listed together
with the relevant pathogens in the respective chapters.
630 12 Etiological and Laboratory Diagnostic Summaries in Tabular Form 
12Etiological and Laboratory Diagnostic Summaries in Tabular Form
FH Kayser, J Eckert, and KA Bienz
Table 12.1 Upper Respiratory Tract
Infection |
Most important |
Laboratory diagnosis |
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pathogens* |
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Rhinitis (common cold) |
Rhinoviruses |
Laboratory diagnosis not |
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Coronaviruses |
recommended |
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Influenzaviruses |
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Adenoviruses |
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Sinusitis |
Streptococcus pneumoniae |
Microscopy and culturing |
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Haemophilus influenzae |
from sinus secretion/pus |
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Staphylococcus aureus |
(punctate) or sinus lavage |
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Moraxella catarrhalis |
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(children) |
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Streptococcus pyogenes |
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rarely: anaerobes |
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Influenzaviruses |
Serology |
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Adenoviruses |
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Rhinoviruses |
Laboratory diagnosis not |
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Coronaviruses |
recommended |
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Pharyngitis/tonsillitis/ |
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gingivitis/stomatitis |
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Viruses |
Adenoviruses |
Isolation, if required, |
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Influenzaviruses |
or direct detection in |
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RS virus |
pharyngeal lavage or |
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Rhinoviruses |
nasal secretion; serology |
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Coronaviruses |
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Herpangina |
Coxsackie viruses, group A |
Isolation if required |
Gingivitis/stomatitis |
Herpes simplex virus |
Isolation |
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Serology |
12
632 12 Etiological and Laboratory Diagnostic Summaries in Tabular Form 
Table 12.2 Lower Respiratory Tract
|
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Infection |
Most important |
Laboratory diagnosis |
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pathogens |
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Acute bronchitis. |
Respiratory syncytial virus |
Serology, combined with |
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Acute bronchiolitis |
Parainfluenza viruses |
isolation from pharyngeal la- |
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(small children) |
Type A influenza viruses |
vage or bronchial |
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Adenoviruses |
secretion |
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Rhinoviruses |
Not recommended |
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Mycoplasma pneumoniae |
Serology |
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Chlamydia pneumoniae |
Serology if required |
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Pertussis |
Bordetella pertussis |
Culture; special material |
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sampling and transport |
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requirements |
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Direct immunofluorescence in |
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smear |
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Acute exacerbation |
Streptococcus pneumoniae |
Culture from sputum or |
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of “chronic obstructive |
Haemophilus influenzae |
bronchial secretion |
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pulmonary disease” |
Moraxella catarrhalis |
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(COPD) |
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Tuberculosis |
Mycobacterium tuberculosis |
Microscopy and culture |
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other mycobacteria |
(time requirement: |
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3–6–8 weeks) |
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Pneumonia |
Parainfluenza viruses |
Serology, combined |
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Viruses (15–20%) |
(children) |
with isolation from |
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(usually community- |
Respiratory syncytial virus |
pharyngeal lavage or |
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acquired) |
(children) |
bronchial secretion or |
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Influenza viruses |
antigen detection in nasal |
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Adenoviruses |
secretion |
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Epstein-Barr virus (EBV) |
Serology |
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Cytomegalovirus (CMV) |
Serology, combined with |
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(in transplant patients) |
isolation from pharyngeal |
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Measles virus |
lavage or bronchial secretion; |
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cell culture if CMV pneumonia |
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suspected. Antigen or DNA |
12 |
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assay. |
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Serology |
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Lower Respiratory Tract 633 |
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Table 12.2 Continued: Lower Respiratory Tract |
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Infection |
Most important |
Laboratory diagnosis |
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pathogens |
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Pulmonary hantaviruses |
Serology |
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(USA) |
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Enteroviruses |
Isolation from pharyngeal |
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lavage or bronchial |
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secretion |
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Rhinoviruses |
Laboratory diagnosis not |
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recommended |
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Bacteria (80–90%) |
Streptococcus pneumoniae |
Microscopy and culturing |
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“Community-acquired |
(30%) |
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from expectorated |
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pneumonia” |
Haemophilus influenzae (5%) |
sputum, or better yet from |
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Staphylococcus aureus (5%) |
transtracheal or bronchial |
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Klebsiella pneumoniae |
aspirate, from bronchoalveolar |
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Legionella pneumophila |
lavage or biopsy material. |
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Mixed anaerobic flora |
If anaerobes are suspected |
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(aspiration pneumonia) |
use special transport vessels |
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Mycoplasma pneumoniae |
Serology |
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(10%) |
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Coxiella burnetii |
Serology |
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Chlamydia psittaci |
Serology: CFT can detect |
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only antibodies to genus. |
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Microimmunofluorescence |
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(MIF) species-specific |
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Chlamydia pneumoniae |
Serology: MIF |
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“Hospital-acquired |
Enterobacteriaceae |
Laboratory procedures |
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pneumonia” |
Pseudomonas aeruginosa |
see above at “community- |
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Staphylococcus aureus |
acquired pneumonia” |
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Fungi |
Aspergillus spp. |
Microscopy and culture, |
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Candida spp. |
preferably from transtracheal |
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Cryptococcus neoformans |
or bronchial aspirate, |
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Histoplasma capsulatum |
bronchoalveolar lavage or |
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Coccidioides immitis |
lung biopsy. Serology often |
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Blastomyces spp. |
possible |
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Mucorales |
(see Chapter 5) |
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12
634 12 Etiological and Laboratory Diagnostic Summaries in Tabular Form 
Table 12.2 Continued: Lower Respiratory Tract
Infection |
Most important |
Laboratory diagnosis |
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pathogens |
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Pneumocystis carinii |
Pathogen detection in |
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(Pneumocystis carinii |
“induced” sputum or |
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pneumonia (PCP) frequent |
bronchial lavage by means of |
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in AIDS patients) |
microscopy, immunofluores- |
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cence or DNA analysis |
Protozoa |
Microspora |
As for P. carinii, DNA detection |
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(PCR) |
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Toxoplasma gondii |
Serology |
Helminths |
Echinococcus spp. |
Serology |
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Schistosoma spp. |
Serology; worm eggs in stool |
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Toxocara canis (larvae) |
Serology |
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Ascaris lumbricoides (larvae) |
Serology (specific IgE) |
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(worm eggs in stool) |
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Paragonimus spp. |
Worm eggs in stool and |
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sputum; serology |
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SARS (Severe Acute |
SARS Corona Virus |
Reverse transcriptase PCR |
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Respiratory Syndrome) |
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(RT-PCR) in respiratory tract |
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specimens (swabs, lavage |
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etc.). |
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Serology (EIA). |
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Empyema |
Streptococcus pneumoniae |
Microscopy and culture from |
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Staphylococcus aureus |
pleural pus specimen |
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Streptococcus pyogenes |
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Numerous other bacteria are |
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potential pathogens |
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Pulmonary abscess |
Usually endogenous |
Microscopy and culture from |
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Necrotizing pneumonia infections with Gram- |
transtracheal or bronchial |
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negative/Gram-positive |
aspirate, bronchoalveolar |
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mixed anaerobic flora |
lavage or lung biopsy. |
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Aerobes also possible |
Transport in medium for |
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anaerobes |
12 |
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Candida spp. |
Microscopy and culture, |
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Aspergillus spp. |
serology as well if required |
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Mucorales
