Microbiology

Microbiology

SR NOTESTTEST COMPONENTSMETHODSPECIMEN/TRANSPORTTATCLINICAL APPLICATIONS
1AFBAFBConventional microscopic examination after ZN stainAll specimens except bloodReport Same DayDetection of Mycobacterium spp (AFB) by Microscopy
2AFB CULTUREAFB stain from concentration material. Differentiation of Mycobacterium between MTB and NTM/MOTTLiquid rapid culture on MGIT. Followed by Differentiation between MTB and NTM/MOTT by TBMPT64Ag Card test.All specimens except blood/Pus/Body fluids (Pleural/Pericardial/Ascitic/ Synovial/Ocular) Aspirates /Semen/ BAL Bronchial washings: Submit as much as possible (1 mL min.) in sterile screw capped container. Ship refrigerated.
Tissue: Submit in sterile normal saline in a sterile screw capped container. Ship refrigerated.
Swabs: Submit swabs in 1 mL sterile normal saline in sterile screw capped container. Ship refrigerated.
Priliminary reports at 10 and 20 days and final repot at 42 days or earlier if positive. If smear positive for AFB and culture negative till 42 days then final report at 56 days.Detection of Mycobacterium spp. (MTB or NTM/MOTT) from any clinical specimen
3AFBIFAFB BY FLUORSCENT STAINFluorescent stain and Fluorescent microscopyMiscellaneous specimens ( Urine, Pus, Sputum, Body Fluids like pleural, peritoneal, pericardial, gastric, bronchial, semen etc.) in a sterile, screw capped container OR Tissue in sterile normal saline OR Swabs in sterile normal salineReport Same DayDetection of AFB.
Immunoflourescense increases detection chances by Microscopy (Increased sensitivity of detection as compared to light microscopy)
4ANAEROBIC CULTUREGram stain, ZN stain, KOH, Anaerobic growth if any. Identification of anaerobic organism on MALDI TOFConventional anaerobic culture and automatic identification on MALDI TOF after growthAll sample except blood (Blood anaerobic culture is done by BACTEC method under entry Batctec anaerobic)
Collection and transportation under strict anerobic condition. Dry swab not allowed. Anaerobic transport medium is required.
5 daysIsolation of Anaerobic organism
5BACTEC AEROBIC-Rapid Automated Aerobic Culture on BACTEC FX 200, Identification and SensitivityBLOOD/8-10ML/CULTURE BOTTLE. or FLUID/PUS/TISSUE in CULTURE BOTTLE/STERILE CONTAINER
Collect 8-10 mL blood aseptically in special Plus Aerobic bottle available from SMPL. Mix by gentle swirling. Ship at room temperature.
Aerobic culture which includes enrichment, which increases detection chances as compared to platting method in case of fluid/pus/tissue. Also includes aerobic culture of blood. Long incubation can be done in case of request of recovery of small organisms
6BACTEC ANAEROBIC-Rapid Automated Anaerobic Culture on BACTEC FX 200 and IdentificationBLOOD/8-10ML/CULTURE BOTTLE. or FLUID/PUS/TISSUE in CULTURE BOTTLE/STERILE CONTAINER
Collect 8-10 mL blood aseptically in special Plus Anerobic bottle. Mix by gentle swirling. Ship at room temperature.
Anaerobic culture which includes enrichment, which increases detection chances as compared to platting method in case of fluid/pus/tissue. Also includes anerobic culture of blood
7BACTEC MYCO-Rapid Automated fungal Culture/NTM culture on BACTEC FX 200BLOOD/1-5ML/CULTURE BOTTLE. or FLUID/PUS/TISSUE in CULTURE BOTTLE/STERILE CONTAINER
Collect 8-10 mL whole blood / body fluids aseptically in a Myco / F-Lytic bottle available from ADL. Mix by gentle swirling. Ship at room temperature.
Rapid culture system for detection of yeast/fungus/MOTT/NTM from blood and other body fluid.
8Calcoflour StaininigCALCOFLUOR STAININIGFluorescent microscopyAll specimens except Blood6 hrsHighly sensitive method for detection of Yeast or Fungus by Florescent staining.
9FUNGUS CULTUREGram stain, AFB stain, KOH, Identification of fungus grown, Colony countConventional Fungus Culture and Rapid Culture for Yeast.CSF: 2 mL (1 mL min.) in a Red Top (No Additive) tube or sterile screw capped vial. Do not use SST gel barrier tubes. Ship refrigerated. Bone Marrow: 2 mL (0. 5 mL min.) Bone marrow in 1 Green Top (Sodium Heparin) tube. Ship refrigerated. Pus/Body fluids (Pleural/ Pericardial/ Ascitic/ Synovial/ Ocular/ Bronchial washings/BAL). Aspirates /Semen/ Stool: Submit as much as possible (1 mL/1g min.) in sterile screw capped container. Ship refrigerated. Endometrial curettings/Tissue: Submit in sterile normal saline in a sterile screw capped container. Ship refrigerated. Swabs: Submit swabs in 1 mL sterile normal saline in sterile screw capped container. Ship refrigerated. Sputum/Urine: Submit 2 Spot (random) morning samples, 5–10 mL (1 mL min.) sputum/10 mL (5 mL min.) urine in sterile screw capped container. Ship refrigerated. Skin: Submit 2–3 mm scrapings from periphery of active skin lesion in sterile container or between 2 sterile glass slides. Wrap slides in black paper. Ship refrigerated. Hair: Submit plucked 10–12 infected, lustreless hair including root in a sterile container. Ship refrigerated. Nail: Submit clippings and powdery material from friable and discolored region of affected nail. Ship refrigerated.10 daysDetection of fungal infection by culture method.
10Genexpert-TbMTB detection, Rifampicin susceptibilityRT-PCR by GeneXpertAny specimen except blood/2ml/Sterile container
In case of Bone marrow, sample is to be collected in sterile container containing distilled water in double volume of bone marrow sample
6 hrs. Next day after cut off timeHighly sensitive and specific method for rapid detection of MTB infection and Rif susceptibility, directly from clinical specimen.
11Gram - StainGRAM STAIN EXAMINATION :Light Microscopy after gram stainAny specimen except blood/1ml/Sterile container4 hrsDetection of any microorganism and pus cells by microscopic examination.
12KOH PREPARATIONLight MicroscopySubmit Body fluid, Sputum, Bronchial washings / Tissue in a sterile screw capped container. Ship refrigerated. 4 hrsDetection of Fungal infection in clinical specimen by Microscopy.
13LPA (Line Probe Assay) MTB-MDRLPAMTBMDRPCR followed by Membrane hybridizationAny AFB smear positive sample4 daysDetection of MTB infection by PCR + Hybridization method along with detection of Isonizide and Rifampicin drug susceptibility status directly from specimen.
14MODIFIED ZN STAIN-Light MicroscopySputum, Pus, Tissue, BAL for Nocardia. Slit skin smears for Lepra bacilli.4 hrsFor detection of Nocardia spp in clinical specimen.
15PRIMARY STAINGram stain, AFB stain, KOH, AFB by IF, Calcofluor whiteMicroscopic examination after various stainsAny specimen except blood4 hrsAll primary stains for detection of any infectious agent from clinical specimen.