SRI NATHELLA SAMPATHU CHETTY CLINICAL LABORATORY (UNIT OF MEDICAL RESEARCH FOUNDATION)

Transcription

1 S.No Test code Grams Stain KOH / Calcofluor Stain Collection procedure for tests under scope of NABL for SNSC Clinical Microbiology and Serology laboratory Name of Name of clinical specimen Volume Criteria Turn Test Acceptance of Rejection of around Temperature of Storage clinical specimen Clinical specimen time* Conjunctival Swab One Swab Stick for all Not applicable Not applicable 6-8 stains Sputum 3-5ml Freshly collected Contaminated 6-8 sputum with saliva Throat Swab One Swab Stick for all Not applicable Not applicable 6-8 stains Ocular specimens, non Not applicable Not applicable Not applicable 6-8 ocular specimens and biopsy (as described in page 5) Conjunctival Swab One Swab Stick for all Not applicable Not applicable 6-8 stains Sputum 3-5ml Freshly collected Contaminated 6-8 sputum with saliva Throat Swab One Swab Stick for all Not applicable Not applicable 6-8 stains Stool One teaspoon ful/5ml Not applicable Not applicable 6-8 Ocular specimens, non ocular specimens and biopsy (as described in page 5) Not applicable Not applicable Not applicable 6-8 * Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department Issue No: 03 Issue date: Amend No: 02 Page 1 of 18

2 S.No Test code Name of Test Name of clinical specimen Volume Criteria Giemsa Stain Conjunctival Swab One Swab Stick for all stains Throat Swab One Swab Stick for all stains Acceptance of clinical specimen Rejection of Clinical specimen Turn around time* Temperatur e of Storage Not applicable Not applicable 6-8 Not applicable Not applicable 6-8 Ocular specimens, non ocular specimens and biopsy (as described in page 5) AFB Stain Sputum 3-5ml Freshly collected sputum Not applicable Not applicable Not applicable 6-8 Contaminated with saliva 6-8 Throat Swab One Swab Stick for all Not applicable Not applicable 6-8 stains Stool One teaspoon full /5ml Not applicable Not applicable 6-8 Ocular specimens, non ocular specimens and biopsy (as described in page 5.) Not applicable Not applicable Not applicable 6-8 * Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department Issue No: 03 Issue date: Amend No: 02 Page 2 of 18

3 S.No Test code Name of Test Bacterial culture Name of clinical specimen Conjunctival Swab Volume Criteria One Swab Stick for inoculation to all plates Acceptance of clinical specimen To be collected and transported in HBSS Sputum 3-5ml Freshly collected sputum in a sterile Throat Swab One Swab Stick for inoculation to all plates To be collected in a sterile Stool One teaspoon ful/5ml To be collected in a sterile Urine 5-10ml Mid stream urine to be collected in a sterile Ocular specimens, non ocular specimens and biopsy (as described in page 5) other than blood Rejection of Clinical specimen If collected in a unsterile Contaminated with saliva Turn around time* If collected in a unsterile If collected in a unsterile If collected in a unsterile, if the patient is on antibiotic therapy Not applicable Not applicable Not applicable Temperature of Storage * Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department Issue No: 03 Issue date: Amend No: 02 Page 3 of 18

4 S.No Test code Name of Test Name of clinical specimen Fungal culture Conjunctival Swab Volume Criteria One Swab for inoculation to all plates Acceptance of clinical specimen To be collected in a sterile Rejection of Clinical specimen Turn around time* Temperature of Storage If collected in a unsterile 12 days Sputum Throat Swab 3-5ml for inoculation to all plates One Swab for inoculation to all plates Freshly collected sputum in a sterile To be collected in a sterile Contaminated with saliva If collected in a unsterile 12 days 12 days Acanthamoeba culture Ocular specimens, non ocular specimens and biopsy (as described in page 5) other than blood Corneal scraping, Corneal biopsy, Contact lens solution, Contact Not applicable Not applicable Not applicable 12 days Not applicable Not applicable Not applicable 10 days lens * Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department Issue No: 03 Issue date: Amend No: 02 Page 4 of 18

5 Ocular specimens: Conjunctival swab, Conjunctival scraping, Corneal scraping, Corneal button, Aqueous aspirate, Vitreous aspirate, Lens aspirate, Infected Suture, Infected buckle, Donor corneal rim (DCR), Iris tissue, Intra ocular lens (IOL), Contact lens, Capsular bag, Eviscerated material, Canalicular pus and orbital pus and any other ocular biopsy tissue, Sub retinal mass, and Scleral nodule, Lasik flap and Orbital biopsy. Non-ocular and other clinical specimens: Throat swab, Sputum, Pus, Urine, Cerebro spinal fluid (CSF), Biopsy*, Nail clippings, Hair, Scrapings from genital lesions, Amniotic fluid, Bronchial wash, Ascitic fluid, Pleural fluid, Bronchoalveolar Lavage, Tracheal aspirate, Nasopharyngeal aspirate, Vesicle fluid, Synovial fluid, CAPD, Skin scraping, Gastric washing. *Biopsy Bone marrow, Bone, Lymph node, Fine needle aspiration biopsy, FNAB, Sub retinal mass,abscess fluid, Gastric biopsy, Lung biopsy, Liver biopsy, Brain biopsy, Ileo caecal biopsy, Granuloma, Endometrial biopsy, Skin nodule or any other biopsy specimens. Issue No: 03 Issue date: Amend No: 02 Page 5 of 18

6 Collection procedure for serological tests under scope of NABL for SNSC Clinical Microbiology and Serology laboratory S.No Test code Name of Test Sample to be collected ( Vacutainer) Non Treponemal (RPR) and treponemal (TPHA) antibodies Rheumatoid arthritis (RA) Factor (Nephlometry) C - Reactive protein (CRP) (Nephlometry) Brucella Agglutination Test HBs Ag, Antibodies to HCV, Non Treponemal (RPR) and Treponemal (TPHA) antibodies Plain blood/ EDTA, Heparinized/ citrated Blood Volume Acceptance of serum/plasma 2-4 ml Free from RBCs, and Plain blood 2-4 ml Free from RBCs and Plain blood 2-4 ml Free from RBCs and Plain blood 2-4 ml Free from RBCs and Plain blood/ 2- Free from RBCs and EDTA, 4 ml Heparinized/ Citrated Blood Rejection of serum/plasma *: Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department # : Serology days: Tuesday/Thursday/Saturday: Samples received in the Microbiology department till 10.00am on the day of testing will be included and the report will be generated by 5.30 pm on the day of Antibodies to Brucella is tested by tube agglutination test and the report will be ready by 11.00am, of the next working day (i.e. Wednesday/Friday/Monday) Issue No: 03 Issue date: Amend No: 02 Page 6 of 18 Turn around time* Temperature of Storage 2-3 days $

7 S.No Test code Name of Test Sample to be collected ( Vacutainer) Antibodies to HIV 1 and HIV 2 and HIV-1 p24 antigen ( Screening and ELISA) Western Blot for antibodies to HIV 1 and HIV Hepatitis B surface antigen ( HBsAg ) ( Screening and ELISA) Plain blood/ EDTA, Heparinized/ citrated Blood Plain blood/ EDTA, Heparinized/ citrated Blood Plain blood/ EDTA, Heparinized/ citrated Blood Antibodies to HBsAg Plain blood/ EDTA, Heparinized/ Citrated Blood Volume Acceptance of serum/plasma 2-4 ml Free from RBCs and 2-4 ml Free from RBCs and 2-4 ml Free from RBCs and 2-4 ml Free from RBCs and Rejection of serum/plasma Issue No: 03 Issue date: Amend No: 02 Page 7 of 18 Turnaround time* Temperature of Storage $ Three months or three samples positive for HIV1 or HIV2 Abs $ 3 days or two samples which ever is earlier *: Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department #: Serology days: Tuesday/Thursday/Saturday: Samples received in the Microbiology department till 10.00am on the day of testing will be included and the report will be generated by 5.30 pm on the day of testing. $: Serum Samples received in the Microbiology department till 10.00am will be included in that day for testing by ELISA for Antibodies to HIV 1 and HIV2, HBsAg and antibodies to HCV and the report generated by 5.30 pm on the day of testing. Samples received after am will be included in the next working day.

8 S.No Test code Name of Test Sample to be collected ( Vacutainer) Antibodies to Hepatitis C virus (HCV) ( Screening and ELISA) Anti nuclear antibody (Fluorescent and ELISA) IgG antibodies to canca (Proteinase3) IgG antibodies to panca (Myeloperoxidase) Antibodies to Aquaporin 4 (NMO IgG) - ELISA Plain blood/ EDTA, Heparinized/ citrated Blood Volume Acceptance of serum/plasma 2-4 ml Free from RBCs and Plain blood 2-4 ml Free from RBCs and of required volume Plain blood/ EDTA, Heparinized/ Citrated plasma Plain blood/ EDTA/ Heparin/ Citrated plasma Plain blood/ EDTA, Heparinized/ Citrated Blood 2-4 ml Free from RBCs and 2-4ml Free from RBCs and of required volume 2-4 ml Plain blood to be separated and transported in ice Rejection of serum/plasma Turn around time* $ Tempera ture of Storage 3 days or two samples which ever is earlier -20 C *: Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department $: Serum Samples received in the Microbiology department till 10.00am will be included in that day for testing by ELISA for Antibodies to HIV 1 and HIV2, HBsAg and antibodies to HCV and the report generated by 5.30 pm on the day of testing. Samples received after am will be included in the next working day. Issue No: 03 Issue date: Amend No: 02 Page 8 of 18

9 Collection procedure for tests NOT UNDER SCOPE of NABL for SNSC Clinical Microbiology and Serology laboratory S. No Test code Name of Test Sample to be collected ( Vacutainer) Volume Acceptance of serum/plasma Widal Test Plain blood 2-4 ml Free from RBCs and Anti streptolysin O (ASO) (Latex) Plain blood 2-4 ml Free from RBCs and Rejection of serum/plasma Grossly Haemolysed/ contaminated/ lipemic Grossly Haemolysed/ contaminated/ lipemic Turn around time* Temperature of Storage HLA B27 EDTA blood 2-3 ml Not applicable Not applicable Serum Lysozyme assay Plain blood 2-4ml Free from RBCs and Grossly Haemolysed/ contaminated/ lipemic *: Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department #: Serology days: Tuesday/Thursday/Saturday: Samples received in the Microbiology department till 10.00am on the day of testing will be included and the report will be generated by 5.30 pm on the day of testing. Issue No: 03 Issue date: Amend No: 02 Page 9 of 18

10 S. No Code no. in requisition form Name of Test Name of clinical specimen Volume Acceptance Rejection Turn Around Time* Storage Temper ature Nigrosin stain Cerebro Spinal Fluid (CSF) pp65 antigen assay for CMV ( IF technique) Bacterial culture- Blood culture by BACTEC ( Fungi, Aerobic and Anaerobic bacteria) Mycobacterial culture ( Micro MIGIT Method) Antibiotic ( First line drugs-sirep) sensitivity for Mycobacterium tuberculosis (BACTEC method) Not applicable Not applicable Not applicable Same day EDTA blood 2-3 ml Not applicable Not applicable Blood 10 ml for adults 5 ml for children below 5 yrs Collected and inoculated immediately aseptically Sputum 3-5ml Freshly collected in a sterile Ocular specimens, non Not applicable Collected in a sterile ocular specimens and biopsy (as described in page 5) other than blood Isolate of Mycobacterium tuberculosis Collected in a vacutainer with or without anticoagulant Contaminated with saliva Not collected in a sterile, leaky Issue No: 03 Issue date: Amend No: 02 Page 10 of C -20 C 14 days Not applicable 42 days 42 days Not applicable Not applicable Not applicable 15 days C *: Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department

11 S. No Code no. in requisition form Imm. fluor Stain for ( HSV) Rubella virus isolation HSV isolation Test Name Name of clinical specimen Volume Criteria Acceptance Rejection Turn Around Time* Throat Swab Conjunctival Swab Ocular specimens, non ocular specimens and biopsy (as described in page 5) Amniotic fluid/ whole blood in a plain One Swab Stick for all stains Not applicable Not applicable 6-8 ** One Swab Stick Not applicable Not applicable 6-8 for all stains ** Not applicable Not applicable Not applicable 6-8 ** Issue No: 03 Issue date: Amend No: 02 Page 11 of 18 Storage Temperat ure 1-2 ml Not applicable Not applicable 10 days vacutainer Conjunctival Swab One Swab Stick To be collected in MEM/HBSS Throat Swab One Swab Stick To be collected in MEM/HBSS Corneal button Not applicable Sterile /leak proof Skin scraping Not applicable To be collected in MEM/HBSS Unsterile /leaking Unsterile /leaking Unsterile /leaking Unsterile /leaking 10 days 4 C 10 days 4 C 10 days 10 days 4 C *: Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department **Specimen received after 5pm will be reported on the consecutive working day.

12 S. No Code no. in requisition form Name of Test Adenovirus Isolation Chlamydia trachomatis culture ( CT) Name of clinical specimen Conjunctival Swab Throat Swab Nasopharyngeal aspirate Conjunctival Swab Corneal scraping, Conjunctival scraping, genital swab Nasopharyngeal aspirate Volume Criteria One Swab Stick One Swab Stick 1-2ml One Swab Stick Not applicable 1-2ml Acceptance Rejection Turn Around Time* To be collected in MEM/HBSS To be collected in MEM/HBSS Collected in a sterile and transported in ice with in 1-2 To be collected in MEM/HBSS without antibiotics To be collected in MEM/HBSS without antibiotics Collected in a sterile and transported in ice with in1-2 Unsterile /leaking Unsterile /leaking Collected in a unsterile and transported after 2 of collection If transported the swab at room temperature and If collected in MEM containing antibiotics If transported the swab at room temperature and If collected in MEM containing antibiotics Collected in un sterile and transported after 2 of collection Issue No: 03 Issue date: Amend No: 02 Page 12 of 18 Storage Temperat ure 10 days 4 C 10 days 4 C 10 days 10 days 10 days 10 days *: Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department

13 S. No Code no. in requisition form Name of Test Antibodies to Toxoplasma gondii ( IgG and IgM) Antibodies to Rubella virus ( IgG and IgM) Antibodies to CMV ( IgG and IgM) Antibodies to HSV ( IgG and IgM) Antibodies to EBVviral capsid antigen ( VCA) (IgG and IgM) Sample to be collected ( Vacutainer) Plain blood/ EDTA/ Heparin/ Citrated plasma Volume 2-4ml Acceptance of serum/plasma Free from RBCs and Plain blood 2-4 ml Free from RBCs and Plain blood 2-4 ml Free from RBCs and Plain blood 2-4 ml Free from RBCs and Plain blood 2-4 ml Free from RBCs and Rejection of serum/plasma Grossly Haemolysed/ contaminated/ lipemic Grossly Haemolysed/ contaminated/ lipemic Grossly Haemolysed/ contaminated/ lipemic Grossly Haemolysed/ contaminated/ lipemic Grossly Haemolysed/ contaminated/ Turn around time* Temperat ure of Storage lipemic *: Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department #: Serology days: Tuesday/Thursday/Saturday: Samples received in the Microbiology department till 10.00am on the day of testing will be included and the report will be generated by 5.30 pm on the day of testing. Issue No: 03 Issue date: Amend No: 02 Page 13 of 18

14 S. No Code no. in requisition form Name of Test QuantiFERON TB test Platinum IGRA test PCR for Mycobacterium tuberclosis (M. tb) PCR for Cytomegalo virus (CMV) PCR for Herpes Simplex Virus (HSV) PCR for Varicella Zoster Virus (VZV) Sample to be collected ( Vacutainer) Blood Use only BD vacutainer heparin tubes provided with the kit. Volume Acceptance 2 ml Collected in only BD vacutainer heparin tubes provided with the kit Rejection Collected in ordinary anticoagulated vacutainer Issue No: 03 Issue date: Amend No: 02 Page 14 of 18 Turn Around Time After 8 samples are collected. Report will be generated within days Storage Temper ature C EDTA blood 2-3 ml Not applicable Not applicable C Ocular specimens, non ocular specimens and biopsy (as described in page 5) other than blood Not applicable Collected in a sterile Not collected in a sterile, leaky 42 days -20 C EDTA blood 2-3 ml Not applicable Not applicable C EDTA blood/ CSF 2-3 ml Not applicable Not applicable C EDTA blood 2-3 ml Not applicable Not applicable C *: Time taken from the receipt of specimen(s) in the Microbiology and Serology department to the time, soft copy of the reports will be available in the HMS format of the department #: Serology days: Tuesday/Thursday/Saturday: Samples received in the Microbiology department till 10.00am on the day of testing will be included and the report will be generated by 5.30 pm on the day of testing.

15 S. No Code no. in requisition form Name of Test PCR for Adeno Virus PCR for Chlamydia trachomatis PCR for Chlamydophila pneumoniae PCR for Eubacterial genome PCR for Pan fungal genome Name of clinical specimen Volume Acceptance Rejection Turn Around Time EDTA blood 2-3 ml Not applicable Not applicable EDTA blood 2-3 ml Not applicable Not applicable EDTA blood 2-3 ml Not applicable Not applicable Ac tap, Vitreous aspirate Ac tap, Vitreous aspirate ml ml ml ml Collected in a sterile Collected in a sterile Not collected in a sterile, leaky Not collected in a sterile, leaky Storage Temper ature -20 C -20 C -20 C -20 C -20 C PCR for Propionibacter ium acnes PCR for Toxoplasma gondii Ac tap/ Vitreous aspirate EDTA blood/ Ac tap / Vitreous aspirate/ CSF ml ml 2-3 ml ml ml 0.5-1ml Collected in a sterile Collected in a sterile Not collected in a sterile, leaky Not collected in a sterile, leaky C -20 C Issue No: 03 Issue date: Amend No: 02 Page 15 of 18

16 S. No Code no. in requisition form Name of Test RT - PCR for Rubella Virus Name of clinical specimen Blood /DEPC treated vial Real-time PCR for HIV-1 EDTA blood or plain blood/ DEPC treated vial Real Time - PCR for Chickungunya virus Blood /DEPC treated vial Volume Acceptance 2-3 ml DEPC treated vial Rejection Issue No: 03 Issue date: Amend No: 02 Page 16 of ml DEPC treated vial 2-3 ml DEPC treated vial Anticoagulated sample and s without DEPC Sample and s without DEPC treatment Containers without DEPC treatment Real-time PCR for CMV EDTA blood 2-3 ml Not applicable Blood collected in unsterile / leaking vial Real-time PCR for HSV EDTA blood 2-3 ml Not applicable Blood collected in unsterile / leaking vial Real-time PCR for M.tuberculosis Real-time PCR for Hepatitis B Virus Real time PCR for Hepatitis C virus PCR for Leptospira interrogans EDTA blood/ac tap/vitreous aspirate 2-3 ml / ul Not applicable Blood collected in unsterile / leaking vial Turn Around Time Storage Tempera ture C C C C C C EDTA blood 2-3 ml Not applicable Not applicable C EDTA blood/depc treated vial EDTA blood/ Ac tap/ Vitreous aspirate 2-3 ml Not applicable Not applicable C 2-3 ml ml ml Collected in a sterile Not collected in a sterile, leaky C

17 S. No Code no. in requisition form Name of Test Specimen Volume PCR for Salmonella typhi EDTA blood PCR for Pneumocystis jirovecii Imm. Fluor. Stain for pemphigus PCR based DNA Sequencing Broncho alveolar lavage / Respiratory secretions Fresh tissue frozen sections Any unidentifiable bacterial/fungal isolate for the identification of species level Acceptance Collected in a 2-3ml sterile 2-3 ml Collected in a sterile Rejection Not collected in a sterile, leaky Not collected in a sterile, leaky Turn Around Time Storage Tempera ture C C Not applicable Not applicable Not applicable Not applicable Not applicable Not applicable Collected in a Not collected in a C sterile sterile, leaky PCR for M.fortuitum EDTA blood 2-3 ml Not applicable Not applicable C Ocular specimens, non ocular specimens and biopsy (as described in page 5) other than blood Not applicable Collected in a sterile Not collected in a sterile, leaky 42 days -20 C Issue No: 03 Issue date: Amend No: 02 Page 17 of 18

18 S. No Code no. in requisition form Name of Test Specimen Volume Acceptance Rejection Turn Around Time Storage Tempera ture PCR for M.chelonae EDTA blood 2-3 ml Not applicable Not applicable C Reverse transcriptase PCR for M.tb Ocular specimens, non ocular specimens and biopsy (as described in page 5) other than blood EDTA blood/ac tap/vitreous aspirate Not applicable 2-3 ml / ul Collected in a sterile Not applicable Not collected in a sterile, leaky Blood collected in unsterile / leaking vial 42 days -20 C C Issue No: 03 Issue date: Amend No: 02 Page 18 of 18