Microbiology & Virology Resource Comprehensive

Transcription

1 Abscess, aspirate, drainage culture Actinomyces culture Aerobic Bacterial culture, stain AFB culture & smear (Acid Fast, TB) AFB Blood culture Anaerobic culture Blood culture Body Fluid culture, stain Bordetella by Rapid PCR Bronch culture, stain LAB LAB LAB LAB LAB LAB6553 ESwab 10 or fluid in Port-A-Cul vial 7 or IUD in sterile container 5 ESwab Collection Kit, 10, 11 or 12, or Sterile Screw Capped 5 Sterile Screw Cap, 5, 15ml Sterile Falcon Tube 6, or if body fluid might clot, Sodium Heparin Tube See Aerobic Bacterial culture, stain Identify source. ESwab within 48 hours of collection, other specimens within 24 hours of collection. Specify Source. Not for blood, body fluid, bronch, rectal, semen, spinal fluid, sputum, stool, throat, tissue, urethral, urine, or vaginal. within 48 hrs of collection. Other bacterial swabs are acceptable transported ambient within 24hrs of collection. For MRSA, order MRSA Culture, 6578/ For MRSA & Staph aureus, order Staph aureus Culture (MSSA+MRSA), 12427/LAB12427 For tissue, order Tissue Culture, Stain, 6571/LAB6571 Three consecutive sputum specimens, 8-24hr collection intervals, at least one a first AM deep sputum. Includes Acid Fast stain 7mL Sodium Heparin tube Use blood culture collection technique. Swab or tissue: ESwab Standard or Mini-tip Collection Kit, 10, 11 or 12 Fluid: Port-A-Cul Vial, 7 Aerobic and Anaerobic Blood Culture Bottles, 14 and 15, or Peds Blood Culture Bottle, 16 Sterile Screw Cap, 5, or 15ml Sterile Falcon Tube 6, PLUS Aerobic and Anaerobic Blood Culture Bottles, 14 and 15, or Peds Blood Culture Bottle, 16 Charcoal Swab, Mini Tip 13 ESwab: Port-A-Cul: to AHL within 48hrs of collection. Aerobic, anaerobic and fungus cultures may be performed from the same ESwab or Port-A-Cul vial. Adult 10 ml/anaerobic bottle plus 10mL/aerobic bottle Pediatric 5-10 ml/bottle, or mL if in a Pediatric bottle. to AHL within 48 hours of collection. If sufficient quantity of fluid is obtained, inoculate excess into Blood Culture Bottles: 0.5-5mL Pediatric, 5.1-9mL Aerobic, mL divide between Aerobic & Anaerobic Deliver to AHL within 24 hours of collection. Identify specimen type on the request form. Can be held overnight and transported next day. Calcium alginate/cotton tipped swabs are unacceptable. Sterile Screw Cap, 5 to AHL within 2 hours of collection

2 Brucella blood culture Fungus Isolator Tube 17 Chlamydia psittaci culture M5 21, and 22 or 23 Chlamydia trachomatis Amplified Probe Chlamydia/N. gonorrhoeae Amplified Probe Chlamydia trachomatis culture Chlamydia trachomatis other sources Clostridium difficile Toxin PCR CMV by Rapid PCR CMV DNA PCR, quant, plasma LAB LAB LAB LAB LAB8993 Aptima Unisex Swab Kit, 1 Urine Kit, 2 or Vaginal Swab Kit, 3 Aptima Unisex Swab Kit, 1 Urine Kit, 2 or Vaginal Swab Kit, 3 M5 21, and 22 or 23 Frozen Freeze immediately Aptima Unisex Swab Kit 1 Sterile Screw Cap, 5 15mL Sterile Falcon Tube 6 3mL EDTA plasma Frozen Do not draw with a butterfly. Collect aseptically as for a routine blood culture but collect specimen in Isolator Tube. to AHL within 48 hours of collection. Specify source of specimen. Specimens in M4 Media will be rejected. Appropriate specimen types: Lung/bronchial washings or lung biopsy, node aspirates. Female endocervical, vaginal or urine; male urethral or urine. All other specimens rejected. Blue-shafted swab in unisex transport tube, pink-shafted swab in vaginal transport tube or urine in urine tube filled within Fill Area. swab within 60 days; urine in transport tube within 30 days. Female endocervical, vaginal or urine; male urethral or urine. All other specimens rejected. Blue-shafted swab in unisex transport tube, pink-shafted swab in vaginal transport tube or urine in urine tube filled within Fill Area. All others rejected. swab within 60 days; urine in transport tube within 30 days. This molecular test is for detection of Chlamydia Trachomatis in Ocular, Oral, Mouth and Throat specimens. Specimens sent with no swab, two swabs, or non Gen- Probe swabs will be rejected. only unformed stool of symptomatic patients (3 or more loose stools in 24 hours). Liquid, semi-soft or soft stool only. Refrigerate within 24 hours of collection & transport refrigerated within 5 days. One specimen is sufficient for detection UNACCEPTABLE: formed stool, stool in preservative, and other specimens. Spin down sample and remove plasma within 6 hours of collection. Freeze plasma immediately following separation.

3 Cryptosporidium test Stool C&S Media (Cary-Blair or Para-Pak), 8 Within 1 hour of collection, add stool only until the liquid reaches the line on the vial, recap & mix well. Overfilled vials will be rejected. Refrigerate & return to AHL within 7 days of collection. Ear culture, stain See Aerobic Bacterial Culture, Stain Enteric pathogen culture, stool Enterovirus RNA PCR CSF Enterovirus PCR Non-Blood, Non-CSF Eye culture, s Fungus culture, blood Fungus culture, Skin, hair or nails Fungus culture, other sources (than blood, skin, hair or nails) GC & Chlamydia trachomatis - Eye/Rectal Giardia Antigen Hardware culture, stain Helicobacter pylori Antigen LAB LAB LAB LAB LAB Stool C&S Media (Cary-Blair or Para-Pak), 8 refrigerated 0.5 ml CSF in sterile crew cap vial Dependent upon specimen type 10mL blood in Isolator Tube, 17 Sterile Screw Cap, 5, or 15ml Sterile Falcon Tube 6 Sterile Screw Cap, 5, 15ml Sterile Falcon Tube 6 or ESwab Standard Tip Collection Kit 10 Aptima Unisex Swab Kit, 1 Stool C&S Media (Cary-Blair or Para-Pak), 8 Sterile container, 5 or 6 Sterile Screw Cap, 5 Collect fresh stool and place 1 gram/ 5 ml in container with transport medium within 2 hours of collection. Specimen must reach the testing laboratory within 4 days. Collect conjunctival specimens prior to the application of any topical anesthetics which may inhibit organism growth. See Aerobic Bacterial Culture, Stain Collect using blood culture technique. to AHL within 16 hours of collection Acceptable specimens; Skin scrapings, hair, nail scrapings Identify Source. Sputum Specimens; first morning specimen produce by a deep cough is optimal. within 24 hours This molecular test may be performed on oral/throat, corneal/conjunctive or rectal/anal specimens. Specimens sent with no swab, two swabs, or non Gen- Probe swabs will be rejected. Within 1 hour of collection, add stool only until the liquid reaches the line on the vial, recap & mix well. Overfilled vials will be rejected. Refrigerate & return to AHL within 7 days of collection. One specimen is sufficient for detection. Identify specimen type. Keep specimen moist with sterile saline. to AHL within 24 hours of collection. Refrigerate within 1 hour of collection and transport to AHL within 72 hours. UNACCEPTABLE: Stool in preservative, dried out stool, watery stool with little or no solid matter, stool on swabs.

4 HSV by Rapid PCR HSV & VZV PCR, Dermal Influenza Antigen MRSA Culture Methicillin Resistant Staph aureus MRSA by PCR LAB LAB994 MML Viral Culture Swab, 24 MML Viral Culture Swab, 24 ESwab Flexible Mini-tip 11, ESwab mini-tip, 12 or- NP washing/aspirate in Sterile Screw Cap, 5 or 6 ESwab Collection Kit, 10, 11 or 12 BBL Bacterial Swab Culturette 24 Mycobacterium See AFB culture Mycoplasma pneumoniae DNA 6643 M5 Media 21 or 15mL Sterile Falcon PCR Tube 6 Mycoplasma hominis, Molecular Detection, PCR N. gonorrhoeae Amplified Probe LAB BBL Culture Swab for PCR 24 Sterile 5 or 6, M5 21 Tissue: Sterile 5 or 6 Aptima Unisex Swab Kit, 1 Urine Kit, 2 or Vaginal Swab Kit, 3 (preferred) or Frozen Submit vitreous fluid, CSF or BAL in a sterile container, or tissue specimens in a sterile container with 1-2mL sterile saline. to AHL within 72 hours of collection. Identify source (nose, axilla, groin, misc sources). Nose Specimen: (1 [one] swab for right and left nares) Insert culture swab into nostrils and extend the swab at least 1 cm into the nares. Firmly sample the membrane by rotating the swab and leaving it in place for seconds. Withdraw the swab and insert into culture transport tube. to AHL within 48hrs of collection. Other bacterial swabs are acceptable transported ambient within 24 hrs of collection. ESwabs are not acceptable and will be rejected. ambient within 24hrs of collection, or refrigerated within 5 days of collection. Swab: Cervix, urethra, urogenital or vaginal. Urine (10mL) or kidney stones. Fluid: 1-2mL pelvic, amniotic, prostatic secretion, semen, reproductive drainage, lower respiratory or synovial. Tissue: 5mm placenta, POC or genitourinary Female endocervical, vaginal or urine; male urethral or urine. All other specimens rejected. Blue-shafted swab in unisex transport tube, pink-shafted swab in vaginal transport tube or urine in urine tube filled within Fill Area. All others rejected. swab within 60 days; urine in transport tube within 30 days.

5 Nasal culture Neisseria gonorrhoeae culture Neisseria gonorrhoeae, miscellaneous sites Nocardia culture, stain Ova & Parasites (O&P) Pinworm Prep Rectal Strep culture Rotavirus Antigen Semen culture 8949 LAB LAB LAB ESwab Mini-tip Collection Kit, 12 Aptima Unisex Swab Kit, 1 Sterile Screw Capped, 5 or 6 ECOFIX Stool Media, 9 See MRSA Culture, Staph aureus Culture (MSSA + MRSA) or Aerobic Bacterial Culture, Stain Specimen must arrive at AHL within 24 hours of collection. Identify source. For female endocervical, vaginal, or urine or male urethral or urine, collect and order the more sensitive GC probe. Alternate acceptable container: inoculated MTM plate in CO2 bag. This molecular test is for detection of Neisseria gonorrhoeae in ocular, oral, mouth, rectal or throat specimens. Specimens sent with no swab, two swabs, or non Gen- Probe swabs will be rejected. This test can also be used for peritoneal fluid (pelvic wash, cul-de-sac fluid). Place 1 ml fluid in the transfer tube of the APTIMA swab collection system; write source on the tube. Identify specimen type. to AHL within 24 hours of collection. Within 1 hour of collection, add stool only until the liquid reaches the line on the vial, recap & mix well. Overfilled vials will be rejected. There is no time limit for return to AHL. Collect only one specimen per day. Note: 3 specimens collected 2 days apart, in separate vials, are recommended. Pinworm Paddle, 19 Collect specimen in AM before patient bathes or defecates. ESwab Standard Tip Collection Kit 10 Sterile Screw Cap, 5 Sterile Screw Cap Vial 5 or 6, -or- ESwab Standard Tip Tube 10 Specimen must be received at AHL within 48 hours of collection. Other bacterial swabs are acceptable, transported ambient within 24 hours of collection. Refrigerate within 1 hour of collection and transport to AHL within 72 hours of collection. Rectal swabs & meconium are unacceptable Sterile container: within 2hrs ESwab transport tube/liquid: within 48 hours ESwab: within 48 hours Other culture swab: within 24 hours

6 Sinus Culture, Stain See Aerobic Bacterial Culture, Stain Spinal Fluid culture, stain 6557 LAB6557 Sterile screw cap vial DO NOT REFRIGERATE. immediately Sputum culture, stain 6561 LAB6561 Sterile Screw Cap, 5 Should arrive at AHL within 24 hours ESwab: refrigerated Staph aureus culture (MSSA + MRSA) Methicillin Susceptible (MSSA) and Methicillin Resistant (MRSA) Staphylococcus aureus Stool pathogen multiplex PCR panel LAB LAB12795 ESwab collection kit, 10, 11 or 12 or Sterile container 5 or 6 Stool C&S Media (Cary-Blair or Para-Pak), 8 Sterile container: Identify source. Nose specimen (one swab for right and left nares) Insert culture swab at least 1 cm into the nares. Firmly sample the membrane by rotating the swab and leaving in place for seconds. Withdraw the swab and insert into culture transport tube. ESwab within 48 hours and other specimens within 24 hours. Collect specimen in clean container and transfer specimen to a ParaPak C&S or Cary-Blair preservative vial within 2 hours of collection. Use the spoon in vial and fill to the "fill line" - DO NOT OVERFILL. Mix well and refrigerate. Sample must reach AHL within 48 hours of collection. Streptococcus pneumoniae 7764 to AHL within 14 days Sterile, 5 Antigen Acceptable: transport ambient within 24 hours Synovial Fluid culture See Body Fluid culture TB See AFB Culture or AFB Blood culture Throat, Rapid Strep A 6599 Negatives reflex to a Throat Strep A culture within 48 hours of collection Throat, Strep A culture to AHL within 48 hours of collection. Throat culture to AHL within 48 hours of collection. Tissue culture, stain Trichomonas Amplified Probe 6571 LAB LAB8940 Sterile Screw Cap, 5 or 15mL Sterile Falcon Tube 6 If for anaerobic culture, place in ESwab Standard Tip, 10 Aptima Unisex Swab Kit, 1 Urine Kit, 2 or Vaginal Swab Kit, 3 For small sample, add several drops of non-bacteriostatic saline to keep tissue moist in the container and transport to AHL within 24 hours of collection. ESwab: refrigerated within 48 hours Female endocervical, vaginal or urine. Blue-shafted swab in unisex transport tube, pink-shafted swab in vaginal transport tube or urine in urine tube filled with the Fill Area. All others specimens will be rejected. swab within 60 days; urine in transport tube within 30 days.

7 Ureaplasma species, Molecular Detection, PCR Urethral culture, stain Urine culture Urine culture, Additional workup Vaginal Non-OB Strep culture Vaginal Trich, Gardnerella, Candida DNA Probe Vaginal/Cervical culture, smear Vaginal/Rectal OB Strep culture LAB LAB LAB LAB LAB BBL Culture Swab for PCR, 24 Sterile 5 or 6, or M5 21 Tissue: Sterile 5 or 6 ESwab Mini-tip Collection Kit, 12 Urine C&S Tube, 19 Urine C&S Tube, 19 ESwab Standard Collection kit 10 BD Affirm VPIII Temperature Tube, 4 (preferred) or Frozen refrigerated SWAB: Cervix, urethra, urogenital or vaginal. URINE (10 ml) or kidney stones. FLUID: 1-2mL pelvic, amniotic, prostatic secretion, semen, reproductive drainage/fluid or lower respiratory. TISSUE: 5mm placenta, products of conception (POC) or genitourinary to AHL within 24 hours of collection. Other bacterial swabs are acceptable transported ambient. Specify void, cath or foley. Must be received at AHL within 48 hours of collection. If <4mL specimen, transport refrigerated in sterile container 4. tube must be received at AHL within 48 hours of collection. If <4mL specimen, transport refrigerated in sterile container within 24 hours of collection 4. ESwab within 48 hours. other specimens ambient within 24 hours of collection. to AHL within 72 hours of collection to AHL within 24 hours of collection. Other bacterial swabs are acceptable transported ambient. to AHL within 48 hours of collection. IF ONE SWAB IS USED, swab vagina first, then rectum. IF TWO SWABS ARE NEEDED, use a sterile non-culture swab to collect the rectal specimen. Mix the rectal swab in the ESwab transport liquid & discard the swab. Use the ESwab to collect the vaginal specimen and place it in the inoculated transport liquid. A double bacterial culture swab is also acceptable. List source as "Vaginal/Rectal". For group B Strep screening of OB patients. UNACCEPTABLE: Vaginal only or rectal only; must be combined vaginal/rectal collection. Other bacterial swabs are acceptable transported ambient within 24 hours of collection

8 Viral Culture Respiratory Viral Culture Non-Respiratory VRE culture Vancomycin Resistant Enterococcus VZ Virus by Rapid PCR 4724 LAB LAB Sterile container, 5 MML Viral Culture Swab, 24. Return swab to cylinder or place in M5, 21 MML Viral Culture Swab, 24 or Sterile Screw Capped, 5 or 6 for liquid specimens 1mL of lower respiratory specimen such as; bronchoalveolar lavage (BAL), bronchial washing or aspirate, tracheal secretions or sputum. within 48 hours of collection. Other bacterial swabs are acceptable transported ambient within 24 hours of collection as soon as possible. Wet Prep, Genital Acceptable: received within 24 hours of collection. Wound culture, stain See Aerobic Culture, Stain 6548 Sterile 5, or to AHL within 48 hours of collection. Indicate Yeast culture source

9 1. Aptima Unisex Swab Kit 2. Aptima Urine Kit 3. Aptima Vaginal Swab Kit 4. Affirm VPIII Tube 5. Sterile Screw Capped 6. 15ml Sterile Falcon Tube 7. Port-A-Cul Anaerobic Vial 8. Stool C&S vial (Cary Blair or Para-Pak) 9. Ecofix Stool Media 10. ESwab Standard Tip Collection Kit 11. ESwab Flexible Mini-Tip 12. ESwab Mini-Tip 13. Charcoal Swab, Mini Tip 14. Blood Culture, Aerobic 15. Blood Culture, Anaerobic 16. Blood Culture, Pediatric 17. Fungal Isolator Tube 18. Urine C&S Tube 19. Pinworm Paddle 20. M4 (Room Temp) 21. M5 () 22. Viral Culture Swab, Std Tip 23. Viral Culture Swab, Mini Tip 24. Mayo BBL Culture Swab for PCR Note: Colors of caps/containers may vary due to manufacturer s backorder. It is very important that you review the label on the supply to make sure that you have the correct container.