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Microbiology

Specific information on tests performed by the Microbiology Lab:

(By Organism/Disease entity)

A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S |

T | U | V | W | X | Y | Z

Acid Fast Bacilli

Acquired Immune Deficiency Syndrome (AIDS)

Adenovirus Infection

Adiaspiromycosis (Fungal Infection)

Aeromonas Infection (caviae, hydrophila, veronii b. sobria),

Superficial Wound

AFB (Mycobacteria)

Amoebic Dysentery (Parasitic Diarrhea)

Amoebic Encephalitis, Primary

Amoebic Hepatitis

Ancylostomiasis (Hookworm Disease)

Anthrax (Cutaneous, Gastrointestinal, Pulmonary)

Anti-DNAse B (Streptococcal Infection)

Antifungal Levels

Arbovirus Infection

Aseptic meningitis

Aspergillosis

Aspergillus antigen detection

Astrovirus Infection

B Virus Infection

Balantidiasis (Parasitic Diarrhea)

Bejel (Treponema pallidum subspecies endemicum, Same testing as for Syphilis)

Bilharziasis (Schistosomiasis)

Blastocystis species

Blood Culture, TB (Mycobacteria)

Bornholm Disease (Enterovirus Infection)

Borreliosis (Lyme Disease)

Brills Disease (Rickettsial Infection)

Bronchiolitis of Infants

Brugia species (Filariasis)

Burkholderia mallei (Glanders)

Burkholderia pseudomallei (Melioidosis)

Calicivirus Infection (Viral Diarrhea)

Campylobacter spp (Bacterial Diarrhea)

Cat Scratch Disease/Fever (Bartonella species)

Chagas Disease (Trypanosomiasis)

Chancroid (Genital Infection)

Chickenpox, Varicella and Zoster (shingles)

Chinese Liver Fluke Disease (Clonorchiasis)

Chlamydia

C. psittaci infection

C. trachomatis infection (See “Genital Infection – Chlamydia”)

Cholera (Bacterial Diarrhea) - Indicate on Requisition

Chromoblastomycosis (Fungal Infection; "Chromomycosis", "Cladosporiosis", "Fonseca's disease", "Pedroso's disease", "Phaeosporotrichosis", "Verrucous dermatitis")

Superficial Infection

Clostridium difficile

CMV (Cytomegalovirus Infection)

Coccidioidomycosis (Culture, Serology)

Colitis (Hemorrhagic, Dysenteria)

Congenital Infection

Congo – Crimean Hemorrhagic Fever (Viral Hemorrhagic Fever)

Conjunctivitis (Eye Infection)

Chlamydia trachomatis

Neisseria gonorrhoeae

Coronavirus Infection (Viral Respiratory Infection)

Corynebacterium diphtheriae Infection (Diphtheria)

Cowpox (Poxvirus Infection)

Coxiella burnetii infection (Rickettsial Infection)

Coxsackie Virus Infection (Enterovirus Infection)

Creutzfeldt-Jakob Disease (CJD) - Contact the Laboratory

Croup (Infant Bronchiolitis)

Cryptococcal Antigen Detection (CRAG)

Cryptococcus (Fungal Infection)

CRAG (Cryptococcal antigen)

Cryptosporidiosis

Cyclosporidiosis (Cyclospora species)

Cysticercosis (Taenia solium)

Cytomegalovirus Infection (CMV)

Delta Hepatitis (HDV)

Dengue Fever (Arborvirus Infection)

Dermatophytosis

Diarrhea (Antibiotic-associated)

Diarrhea (Bacterial)

Diarrhea (Parasitic)

Diarrhea (Viral)

Diphyllobothriasis (Fish tapeworm infection)

Dirofilaria immitis (Filariasis)

DNAse B (Streptococcal Infection)

Dracunculiasis (Guinea worm infection) - Clinical Diagnosis

Dysentery (Amoebic)

Dysentery (Bacillary, Bacterial) – Indicate on requisition

Eastern Equine Encephalitis (Arbovirus Infection)

Ebola Virus (Viral Hemorrhagic Fever)

EBV (Epstein-Barr Virus) Infection

EBNA Serology (Pre-transplant)

EBV IgM Serology

Molecular (Transplant Patients)

Echinococcosis (E. granulosus, multilocularis, oligarthrus, vogeli)

Echovirus (Enterovirus Infection

E. coli O157:H7 (Bacterial Diarrhea)

Ehrlichia (Rickettsial Infection)

Encephalitis (Viral)

Endocarditis, Infective

Entamoebae (Parasitic diarrhea)

Enteric Fever (Typhoid Fever)

Blood Culture

Enterobiasis (Pinworms)

Enterovirus Infection

Epiglottitis (Acute) - Contact Laboratory

Epstein-Barr Virus Infection

EBNA Serology (Pre-transplant)

EBV IgM Serology

Molecular (Transplant Patients)

Erlichiosis (Rickettsial Infection)

Erysipelas (Streptococcal Infection)

Eye Infection

Bacterial/ Fungal

Neisseria gonorrhoeae

Trachoma (Chlamydia trachomatis)

Fasciolopsiasis

Favus (Dermatophytosis)

Fifth Disease (Parvovirus Infection)

Filariasis

Fluconazole Levels (Antifungal Levels)

Fluorocytosine Levels (Antifungal Levels)

Food Poisoning (Bacterial)

Food-borne Bacterial Disease

Francisella Species Infection (Tularemia)

Fungal Infection

Dermatophytosis

Fungal Serology

Galactomannan (Aspergillus Antigen Detection)

Gas Gangrene (Anaerobic Infection)

Gastritis (Helicobacter pylori)

Gastroenteritis (Food-borne)

Genital Infection - Bacterial Vaginosis

Genital Infection - Candidiasis

Genital Infection - Chancroid (soft chancre by Haemophilus ducreyi)

Genital Infection - Chlamydia

Chlamydia trachomatis Culture

Male Genital Culture

Molecular Testing (NAAT) – Urine, Swabs (Endocervical, urethral, rectal, nasopharyngeal or eye swabs)

Genital Infection – Gonorrhoeae

Anorectal Culture

Female Genital Culture

Male Urethral Culture

Molecular Testing (NAAT) – Urine, Swabs (Endocervical, urethral, rectal, nasopharyngeal or eye swabs)

Pre-pubescent Vaginal Culture

Genital Infection - Herpes Simplex Virus

Genital Infection - Mycoplasma & Ureaplasma Infection

Genital Infection - Trichomoniasis (by Trichomonas vaginalis)

German Measles (Rubella)

Glanders (Burkholderia mallei)

Gonorrhoeae (See ‘Genital Infection – Gonorrhoeae’)

Granuloma Inguinale (venereum; Klebsiella granulomatis)

Guinea-Worm Disease (Dracunculiasis by Dracunculus medinensis)

Haemolytic Uremic Syndrome (HUS)

Haemophilus ducreyii (Chancroid)

Haemophilus influenzae

BAL/BW (no fixatives)

Epiglottitis - Throat (indicate on requisition)

Middle/Inner Ear

Hand-foot-and-mouth Disease (Enterovirus Infection)

Helicobacter pylori (Gastritis)

Hepatitis A Virus

Hepatitis B Virus

Anti-HBs antibody

Anti-HBs antigen

Hepatitis C Virus

Anti-HCV antibody

Anti-HCV-RNA-PCR

Hepatitis D Virus (Delta Hepatitis)

Hepatitis E Virus

Herpangina (Coxsackie A viruses)

Herpes Simiae Virus Infection (B Virus Infection)

Herpes Simplex Virus Infection (HSV)

Herpes Zoster Virus (Varicella Zoster Virus Infection)

Heterophyiasis (Heterophyes heterophyes)

Histoplasma Antigen Detection

Histoplasmosis (Histoplasma capsulatum)

HIV (Human Immunodeficiency Virus)

Hookworm Disease

HSV (Herpes Simplex Virus Infection)

HTLV I/II (Human T-Cell Leukemia/Lymphoma Virus)

HTLV III (Human Immunodeficiency Virus)

Human Herpesvirus Type 6 (HHV6)

Human Immunodeficiency Virus HIV 1 and 2 (i.e. HTLV III, LAV, AIDS, ARC)

Human Metapneumovirus infection (hmPv)

Human Papillomavirus

Human T cell Leukaemia/Lymphoma Virus Type II HTLV II

Human T Cell Leukemia/Lymphoma Virus Type I HTLV I

Hydatid Disease (Echinococcosis)

Hymenolepiasis (Hymenolepis nana & diminuta)

Infectious Mononucleosis

EBV IgM Serology

Cytomegalovirus infections (CMV)

Infective Endocarditis

Tropheryma whipplei (Whipple's disease)

Itraconazole Levels (Antifungal Levels)

Kala Azar (Leishmaniasis)

Kaposi’s Varicelliform Eruption/Dermatosis (Viral)

Keratitis

Acanthamoeba Culture

Chlamydia trachomatis

Neisseria gonorrhoeae

Keratomycosis (Fungal Infection)

Laryngitis, Viral

Lassa Fever (Viral Hemorrhagic Fever)

Legionnaires Disease

Leishmaniasis (Cutaneous, Mucocutaneous, Visceral/Kala Azar)

Leprosy (Mycobacterium leprae)

Listeriosis (Listeria monocytogenes)

Loiasis (Filariasis)

Lymphocytic Choriomeningitis, (LCM)

Lymphogranuloma venereum (LGV) (Chlamydia trachomatis serovars L1, L2, L3)

Maduromycosis (Fungal Infection) / Madura foot

Mansonella species (Filariasis)

Marburg Virus Disease (Viral Hemorrhagic Fever)

Measles

Melioidosis (Burkholderia pseudomallei)

Meningitis (Viral or Aseptic)

Metapneumovirus, Human (hmPv)

Methicillin Resistant Staphylococcus aureus Screening

Microsporidia (Indicate on requisition)

Molluscum Contagiosum (Poxvirus Infection)

Mononucleosis, Infectious

EBV IgM Serology

Cytomegalovirus infections (CMV)

Monospot (Epstein-Barr Virus Infection)

Mucormycosis (Fungal Infection)

Murine Typhus (Rickettsial Infection)

Mycetoma (Fungal Infection)

Mycobacterial infection

Mycoplasma & Ureaplasma Infection, Genital and Non-Respiratory Sites

Mycoplasma Infection

Mycosis (Fungal Infection)

Myocarditis, Viral

Nasopharyngeal Aspirate (Viral)

Neisseria

N. gonorrhoeae infection (See ‘Genital Infection – Gonorrhoeae’)

N. meningitidis infection

Nocardiosis (Indicate on requisition)

BAL/BW (no fixatives)

Non-gonococcal urethritis

Norovirus (Viral Diarrhea)

Onychomycosis (Fungal Infection)

Orchitis (Mumps)

Orf (Poxvirus Infection)

Ornithosis (a.k.a. Psittacosis or Chlamydia psittaci Infection)

Osteomyelitis, Acute

Otomycosis (Fungal Infection)

Middle/Inner Ear

Ova and Parasites

Panencephalitis, subacute sclerosing (SSPE) (Measles)

Papillomavirus infection (Human Papillomavirus)

Papovavirus Infection (Human Papillomavirus & Polyomavirus)

Paracoccidiomycosis (Fungal Infection)

Paragonimiasis (Paragonimus westermani and other species)

Sputum (Indicate on requisition)

Parainfluenza Virus Infection

Paralytic Illnesses (Viral)

Paralytic Shellfish Poisoning (Shellfish Poisoning)

Paratyphoid Fever (Typhoid Fever)

Parvovirus Infection

PCP (Pneumocystis carinii) pneumonia

Pediculosis (Pediculus humanus humanus & capitis)

Pemphigus (Staphylococcus aureus)

Pericarditis (Viral)

Pertussis (Bordetella pertussis)

Phaeohyphomycosis (Fungal Infection)

BAL/BW (no fixatives)

Brain Abscess (Stereotactic aspiration or Surgically-acquired)

Deep Wound/Tissues /Subcutaneous Biopsy

Superficial Wound

Pharyngitis (Bacterial)

Pharyngitis (Viral)

Phycomycosis (Zygomycosis Fungal Infection)

Deep Wound/Tissues /Subcutaneous Biopsy

Superficial Wound

Picornavirus Infection (Enterovirus Infection, Rhinovirus Infection, and Hepatitis A Virus)

Piedra (Fungal Infection)

Pinta (Treponema carateum) - Same testing as for Syhilis

Pinworm Disease (Enterobiasis)

Pityriasis versicolor (Dermatomycosis)

Plesiomonas shigelloides infection (Bacterial Diarrhea)

Pneumocystis carinii

Pneumonia (Atypical)

Pneumonia (Bacterial)

BAL/BW (no fixatives)

Pneumonia (Viral and Atypical Bacteria)

Poliomyelitis (Enterovirus Infection)

Pontiac Fever (Legionnaires Disease)

Poxvirus Infection

Progressive Multifocal Leukoencephalopathy (PMLe by JC virus)

Pseudallescheriasis (Fungal Infection; Asexual form: Scedosporium apiospermum)

BAL/BW (no fixatives)

Brain Abscess (Stereotactic aspiration or Surgically-obtained)

Deep Wound/Tissues /Subcutaneous Biopsy

Middle/Inner Ear

Superficial Wound

Pseudomembranous Colitis (Antibiotic Associated Diarrhea)

Psittacosis (Chlamydial psittaci Infection)

Puerperal Fever

Throat swabs from mother

Umbilical swab from baby

Q Fever (Rickettsial Infection)

Rat-bite Fever (Haverhill Fever)

Rat-bite Fever (Sodoku)

Red Measles (Measles)

Reiter’s Syndrome (Mycoplasma Infection)

Relapsing Fever, Louse or Tick-borne

Respiratory Infection (Acute Bacterial)

BAL/BW (no fixatives)

Respiratory Infection, Viral and Atypical bacteria

Respiratory Syncytial Virus Infection, (RSV)

Rheumatic Fever

Rhinovirus Infection

Rickettsial Infection

Ringworm (Dermatomycosis)

Roseola Infection (Human Herpesvirus Type 6, HHV-6)

Rotavirus Infection

RSV (Respiratory Syncytial Virus)

Rubella

Rubeola (Measles)

Salmonellosis (Bacterial Diarrhea)

Salpingitis (Genital Infection)

Culture (Laparoscopically obtained)

Chlamydia trachomatis (See ‘Genital Infection – Chlamydia’ above)

Neisseria gonorrhoeae (See ‘Genital Infection – Gonorrhoeae’ above)

SARS (Severe Acute Respiratory Syndrome)

Scabies (Sarcoptes scabiei)

Scarlet Fever, Scarlatina (Streptococcal Infection)

Schistosomal Dermatitis (Swimmer's Itch, Cercarial Dermatitis, and Clam Digger's Itch) - Clinical Diagnosis

Schistosomiasis (Bilharziasis )(S. mansoni, japonicum, mekongi and intercalatum, haematobium)

Septicaemia / Sepsis

Shellfish Poisoning

Shigellosis (Bacterial Diarrhea)

Shingles (Varicella Zoster Virus Infection)

Sinusitis

Middle Meatal Culture (Endoscopic collection)

Sinus Puncture Culture (gold standard) - Qualitative only

Smallpox (Poxvirus Infection)

Soft Tissue Infection

Superficial Wound

Deep Wound/Tissues/Subcutaneous Biopsy (Bacterial)

Deep Wound/Tissues /Subcutaneous Biopsy (Fungal)

South American Blastomycosis

Sporotrichosis (Fungal Infection)

Extracutaneous Sites

St. Louis Encephalitis (Arbovirus Infection)

Staphylococcus aureus (MRSA) Screening

Staphylococcus aureus (MSSA) Screening

Sterilization Test

Strongyloidiasis (Strongyloides stercoralis)
Extraintestinal Sites

Subacute Sclerosing Panencephalitis (SSPE) (Measles)

Swimmer’s Itch (Schistosomal Dermatitis, Cercarial Dermatitis, and Clam Digger's Itch) - Clinical Diagnosis

Taeniasis [Taenia saginata, solium (cystocercosis) and other species]

Extraintestinal Sites

Tape Worm (See 'Taeniasis')

Tetanus (Clostridium tetani)

Anti-toxin test

Deep Wound/Tissues

Thrush (Fungal Infection) - Clinical Diagnosis

Throat Infection

Bacterial Culture for Beta-hemolytic Streptococcus & Archanobacterium haemolyticum

Neisseria gonorrhoeae

Mycoplasma pneumonia

Tinea infection (Fungal infection)

TORCH (Congenital Infection)

Toxic Shock Syndrome (TSS)

Toxic Shock-like Syndrome (TSLS)

Toxocariasis (Ocular or Visceral larva migrans)

Toxoplasmosis (Toxoplasma gondii)

Trace Metal Testing, Water

Trachoma (Chlamydial Infection)

Treponematoses (Bejel, Pinta, Yaws and Syphilis)

Trichinosis (Trichinellosis)

Trichomoniasis (Genital Infection)

Trichostrongyliasis

Trypanosmiasis (T. brucei gambiense, brucei rhodesiense, cruzi)

Buffy Coat Examination of Blood (Request ‘Buffy Coat for Trypanosomes’ on requisition)

Thick & Thin Smear (Indicate ‘R/O Trypanosomes’)

Tuberculosis (Mycobacteria)

Tuberculosis, Latent Infection

Tularemia (Francisella species)

Typhoid Fever, Paratyphoid Fever, Enteric Fever

Blood Culture

Typhus Fever (Rickettsial Infection)

Tzank Smear (HSV, VZV, CMV Infections and Pemphigus vulgaris)

Undulant Fever (Brucellosis)

Ureaplasma (Mycoplasma/Ureaplasma Infection)

Urethritis (Genital Infection)

Urinary Tract Infection (UTI)

Cathether (In & Out, Intermittent, Indwelling)

Cystoscopy, Suprapubic/bladder aspirate, Nephrostomy, Ureterostomy

Midstream Urine (MSU), Pedibag, Ileal Conduit

Prostatic Massage Specimens

Mycoplasma hominis

Ureaplasma urealyticum

Vancomycin Resistant Enterococcus (VRE) Screening

Varicella Zoster Virus Infection (Herpes Zoster Virus)

Whipple's disease (Tropheryma whipplei)

Whitmore's disease (Melioidosis by Burkholderia pseudomallei)

Yersinia infection

Stool (Y. enterocolitica) – Specify on requisition

Plague (Y. pestis)

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