2 Pine Trees, Chertsey Lane, Staines-upon-Thames, TW18 3HR, UK Issue No: 003 Issue date: 22 September 2017 :2012 Scottish Microbial Reference Laboratory 5th Floor New Lister Building Glasgow Royal Infirmary 10-16 Alexandria Parade Glasgow G31 2ER Contact: ProfessorJohn E Coia Tel:-+ 44 (0) 141 201 8633 E-mail: john.coia@ggc.scot.nhs.uk Testing performed at the above address only DETAIL OF ACCREDITATION REFERRED MICROBIOLOGICAL CULTURES clinical diagnosis Salmonella Serotyping Salmonella Phage typing Antibiotic resistance testing ) to: Ampicillin, Cefotaxime, Chloramphenicol, Ciprofloxacin, Furazolidone, Gentamicin, Kanamycin, Naladixic acid, Netilmicin, Spectinomycin, Dtreptomycin, Sulphamethoxazole, Tetracycline Trimethoprim Identification and confirmation of Shigella sp. Identification of Enteropathogens Investigations (SMIs) Agglutination tests against known antisera, using slides, microtitre plates or tubes. (SSSCDRL_SOP_031) Lidwell Applicator (SSRLSOP_044). Using culture media prepared inhouse and a Lidwell Applicator. (SSSCDRL_SOP_046.) Using antisera, and agglutinoscope. (SSRL_SOP_148) Using commercialbiochemical kits(ssscdrl_sop_.030) Assessment Manager: CM Page 1 of 9
REFERRED MICROBIOLOGICAL CULTURES (cont d) Plasmid profiles DNA analysis & subtyping of Salmonella MLVA typing of Salmonella typhimurium strains Ribotyping of C. difficile Determination of antibiotic MIC Investigations (SMIs) Plasmid Profile Analysis using electrophoresis, transilluminator & digital camera (BioRad). (SSRL_SOP_047.) Using PFGE equipment (BioRad), transilluminator & digital camera (BioRad) (SSRL_SOP_098.) Using 3500xL Genetic Analyser (Applied Biosystems). (SSSCDRL_SOP_135) (SSSCDRL_SOP_155) By conventional end-point PCR using GeneAmp 9700 (Applied Biosystems) thermocycler,, gel electrophoresis & Digital Camera (Bio-Rad). (SSSCDRL_SOP_144.) and SSCDRL-SOP-143 Using culture media,and E-Test strips (BioMerieux),. (SSRL_SOP_140) MLVA typing of C. difficile By PCR using GeneAmp 9700 (Applied Biosystems) thermocycler. (SSSCDRL_SOP_147) Antibiograms -Determination of antibiotic resistance patterns for staphylococci Staph. aureus Genotyping Using VITEK 2 (BioMerieux) (SMRSA_LP044.) By spa typing (polymorphic locus sequence based method of strain characterisation & analysis using a a 3500xL Genetic Analyser (Applied Biosystems), & Ridom software). (SMRSA_LP075.) Assessment Manager: CM Page 2 of 9
REFERRED MICROBIOLOGICAL CULTURES (cont d) Referred sera Detection of PVL, TSST, ETA and ETB toxins of S. aureus Detection of meca and mupa genes as markers of Methicillin and murpirocin resistance respectively, in strains of Staphylococci. Determination of antibiotic MIC (MRSA) Parasitology Detection of Toxocaracanis IgG Detection of Schistosoma IgG Detection of Filaria IgG Detection of Cysticercosis IgG By conventional end-point PCR using Primus 4 (Aviso) thermocycler and PFGE equipment (BioRad), gel electrophoresis, transilluminator & digital camera (BioRad). Followed by DNA analysis using Gel Compar software (BioNumerics). (SMRSA_LP.004) By conventional end-point PCR analysis using Primus 4 (Aviso) & GeneAmp 9700 (Applied Biosystems) thermocyclers: electrophoresis, transilluminator & digital camera (BioRad). (SMRSA_LP004.) Using culture media, E-Test (BioMerieux) & M.I.C.E. Evaluator strips (Oxoid), (SMRSARL_LP072.) (Cellabs), manual plate reader (Biotek). (SPDL_SOP-S01a) (DRG), manual plate reader (Biotek). (SPDL_SOP-S05) (Border Affinity Products), incubator, manual plate reader (Biotek). (SPDL_SOP-S06) (Cypress Diagnostics), manual plate reader (Biotek).. (SPDL_SOP-S08) Assessment Manager: CM Page 3 of 9
REFERRED MICROBIOLOGICAL CULTURES (cont d) Referred sera (cont d) Parasitology (cont d) Detection of Trypanosomacruzi IgG Detection of Echinococcus (Hydatid) IgG Detection of Trypanosoma brucei IgG Detection of Strongyloides IgG Detection of Toxoplasma IgG Detection of Toxoplasma IgM Detection of Fasciola IgG Detection of Leishmania IgG Investigations (SMIs) (Cellabs), manual plate reader (Biotek). (SPDL_SOP-S01) (ELITech), manual plate reader (Biotek). (SPDL_SOP-S16.) Using latex agglutination (Institute of Tropical Medicine Prins Leopold). (SPDL_SOP-S19) (Border Affinity Products), manual plate reader (Biotek). (SPDL_SOP-S17) (Zeus Scientific), manual plate reader (Biotek). (SPDL_SOP-S04) (Zeus Scientific), manual plate reader (Biotek). (SPDL_SOP-S04) (DRG), manual plate reader (Biotek) (SPDL_SOP-S05) Rapid dipstick immunoassaykit reagents (Apacor Rapydtest). (SPDL_SOP-S13) Assessment Manager: CM Page 4 of 9
HUMAN BODY FLUIDS AND TISSUES EDTA-whole blood. EDTA-whole blood Detection of Giardia duodenalis (synoms: Giardia. Lamblia, Giardia intestinalis) antigen Identification of Entamoeba histolytica and Entamoeba.dispar. Malaria antigen detection P. falciparum, P. ovale, P. vivax, P. malariae Identification of Faecal parasites (except Cryptosporidium oocysts). Identification of Cryptosporidium oocysts Identification of blood parasites Malaria P. falciparum P. ovale P. vivax P. malariae Investigations (SMIs) ELISA reagents (I.V.D. Research Inc.), manual plate reader (Biotek). (SPDL_SOP-F12) Using Adhesin ELISA kit reagents (Techlab), manual plate reader (biotek). (SPDL_SOP-F13) Using the Binax-NOW malaria kit. (SPDL_SOP-B12) Using the Optimal-IT malaria kit. (SPDL_SOP-B12) Using Concentration, light microscope & centrifuge. (SPDL_SOP-F223) Using Concentration centrifugation, auramine-phenol staining and fluorescent microscopy. ( SPDRL- MI01) Using Thick & thin films ( Giemsa and Fields stain)&light microscopy ( SPDRL-SOP-B12) Assessment Manager: CM Page 5 of 9
HUMAN BODY FLUIDS AND TISSUES (cont d) Investigations (SMIs) urine Identification of Schistosome ova Using centrifugation and light microscopy microscope(unstained) ( ( SPDRL-MI01 Referred EDTA-whole blood Malaria speciation P. falciparum, P. ovale, P. vivax, P. malariae Detection of C.hominis and C.parvum DNA Detection of non C. hominis and C. parvum. DNA DNA GP60 Subtyping of C.hominis and/or C.parvum Using Manual DNA extraction kit reagents (Mini-prep kit,,qiagen), inhouse PCR reagents Real-Time PCR, using LightCycler 480 (Roche) Real-Time PCR system SPDRL- -SOP-P001 Manual DNA extraction kit reagents (Mini-prep kit, Qiagen), centrifuge, real-time PCR. using LightCycler 480 (Roche) Real-Time PCR system. (SPDRL-SOP-P001 Manual DNA extraction kit reagents (Mini-prep kit, Qiagen), centrifuge, PCR using GeneAmp 9700 (Applied Biosystems) thermocycler, gel electrophoresis, Sequenced using a 3500xL Genetic Analyser (Applied Biosystems), (SPDRL-SOP-P002) Manual DNA extraction kit reagents (Mini-prep kit, Qiagen), conventional PCR using GeneAmp 9700 (Applied Biosystems) thermocycler, gel electrophoresis. Then sequenced using a 3500xL Genetic Analyser (Applied Biosystems), (SPDRL-SOP-P002) Assessment Manager: CM Page 6 of 9
HUMAN BODY FLUIDS AND TISSUES (cont d) Eye samples (swabs, corneal scrapes, contact lens, contact lens solution) Referred microbiological cultures samples Acanthamoeba DNA detection Identification and confirmation of Legionella pneumophila - Sero Group 1 Investigations (SMIs) Manual DNA extraction kit reagents (Mini-prep kit, Qiagen), centrifuge, real-time PCR using LightCycler 480 (Roche) Real-Time PCR system thermocycler. (SPDRL-SOP-P001) Indirect fluorescent antibody test using microscope slides, antigen, centrifuge, UV fluorescence microscope. (SHLMPRL_SOP_008) Legionella spp. urinary Ag. Legionella spp. from respiratory secretions Identification of: Legionella. pneumophila Sg1, Sg2-14 ; Legionella longbeachae 1&2, Legionella bozemanii 1&2, Legionella dumoffi, Legionella gormanii, Legionella jordanis, Legionella micdadei Legionella anise. Antimicrobial susceptibility and MIC for Neisseria.meningitidis & Strep..pneumoniae. Legionella urinary antigen detection using ELISA, spectrophotometer, pipettes, microtitre plate washer. (SHLMPRL_SOP_012 and (SHLMPRL_SOP_014) Culture of Legionella spp using culture media, water bath, moist chamber. (SHLMPRL_SOP_010) Using culture media, latex agglutination (Oxoid)., and U/V lamp. (SHLMPRL_SOP_011) Using of culture media, E-Test (BioMerieux) & M.I.C.E. Evaluator strips (Oxoid) (SHLMPRL_SOP_058) Assessment Manager: CM Page 7 of 9
HUMAN BODY FLUIDS AND TISSUES (cont d) Referred microbiological cultures Confirmation of N.meningitidis (B, ACY,W1350, S. pneumoniae H. influenzae. Subtyping of N. meningitidis, H. influenzae, Legionella. species Invasive Group A Streptococci S. pneumoniae. Detection of N. meningitidis, S. pneumoniae H.influenzae. Genotyping of Neisseria spp Haemophilus spp Strep. pneumococci Investigations (SMIs) Using culture media and, agglutination: N.meningitidis B/ (Wellcogen- Oxoid- Latex ), N. meningitides ACY W135 (Wellcogen-Oxoid Latex ) (SHLMPRL-SOP-61) S. pneuminiae co-agglutinating reagents using certified antisera from Statens Serum Institute (SHLMPRL_SOP_065, Haemophilus influenzae agglutinating sera (Remel-Oxoid) (SHLMPRL_MED_033) (SHLMPRL_SOP_056, 060 and 055) Using extracted DNA, extracted inhouse as per SOP SHLMPRL_SOP_160 (isolates) and SHLMPRL_SOP_083 (clinical samples), by PCR performed using ABi 2720 (Applied Bisystems) thermocylcer MLST performed using a 3500xL Genetic Analyser (Applied Biosystems), (SHLMPRL_SOP_100) By Multiplex PCR, using LightCycler 480 (Roche) Real-Time PCR system to detect bacterial DNA in clinical samples of whole blood, serum and CSF. (SHLMPRL_SOP_161) DNA sequencing using 3500xL sequencer (Applied Biosystems) & CLC software. (SHLMPRL_SOP_158 and 109) Assessment Manager: CM Page 8 of 9
Serum Serology examinations for the purpose of clinical diagnosis Serology: Detection of Bordetella pertussis IgG SOP 015 using Virion Serion ELISA and DS2 automated system END Assessment Manager: CM Page 9 of 9