Table 2 Main features of the different methods used at each lab participating to the external quality assurance total HIV-1 DNA quantification program.
From: External quality assessment of HIV-1 DNA quantification assays used in the clinical setting in Italy
Lab | Extraction method | Method to determine the total DNA concentration | Method to determine the HIV-1 DNA concentration | PCR master mix | Instrument | References | ||
|---|---|---|---|---|---|---|---|---|
Method | Target | Method | Target | |||||
lab01_qPCR | Abbott mSample Preparation System DNA Kit on Abbott m2000sp instrument; Abbott | qPCR | hTERT | qPCR | Integrase | Abbott RealTime HIV-1 Amplification Reagent Kit; Abbott | 7500 Fast Dx RTPCR Instrument; Applied Biosystems | |
lab02_qPCR | QIAamp DNA Blood Mini Kit; Qiagen | qPCR | Albumin | qPCR | pol | PrecisionPLUS qPCR Master Mix; PrimerDesign | RotorGene Q; Qiagen | |
lab03_ddPCR | High pure PCR template preparation kit; Roche | ddPCR | Albumin | ddPCR | LTR | ddPCR™ Supermix for Probes (No dUTP); Biorad | QX200 Droplet Digital PCR System; BioRad | |
lab04_ddPCR | AllPrep DNA/RNA Mini Kit; Qiagen | ddPCR | rpp30 | ddPCR | gag | ddPCR™ Supermix for Probes (No dUTP); Biorad | QX200 Droplet Digital PCR System; BioRad | |
lab05_qPCR | Qiacube, Qiamp DNA mini kit; Qiagen | Spectrophotometry | qPCR | pol | iTaqUniversal probes supermix; Biorad | ABI 7900; Applied Biosystem | ||
lab06_qPCR | High pure PCR template preparation kit; Roche | qPCR | Beta Globin | qPCR | LTR | GoTaq probe qPCR master Mix; Promega | Eco Real-Time PCR system; Illumina | |
lab06_ddPCR | High pure PCR template preparation kit; Roche | ddPCR | Albumin | ddPCR | LTR | ddPCR™ Supermix for Probes (No dUTP); Biorad | QX200 Droplet Digital PCR System; BioRad | |
lab07_qPCR | QIAamp DNA Blood Mini Kit; Qiagen | Spectrophotometry | qPCR | LTR | Generic HIV DNA Cell kit; Biocentric | QuantStudio 5 Dx Real-Time PCR System; Thermo Fisher | ||
lab08_qPCR | QIA Symphony DNA Blood Mini Kit; Qiagen | qPCR | hTERT | qPCR | LTR | GoTaq Probe qPCR Reaction Mix; Promega | LightCycler 2.0; Roche | |
lab08_ddPCR | QIA Symphony DNA Blood Mini Kit; Qiagen | ddPCR | Albumin | ddPCR | LTR | ddPCR™ Supermix for Probes (No dUTP); Biorad | QX200 Droplet Digital PCR System; BioRad | |
lab09_ddPCR | High pure PCR template preparation kit; Roche | ddPCR | Albumin | ddPCR | LTR | ddPCR™ Supermix for Probes (No dUTP); Biorad | QX200 Droplet Digital PCR System; BioRad | |
lab10_qPCR | QIA Symphony DNA Blood Mini Kit; Qiagen | qPCR | Beta Globin | qPCR | LTR | homemade | RotorGene Q; Qiagen | |
lab11_qPCR | QIAamp DNA Blood Mini Kit; Qiagen | qPCR | hTERT | qPCR | LTR | HIV-1 DNA Test PRO; Diatheva | ABI 7500; Applied Biosystem | 39 Commercial Kit |
lab12_qPCR | High pure viral nucleic acid kit; Roche | qPCR | Albumin | qPCR | LTR | PreMix ExTaq; Takara | LightCycler 96; Roche | |
lab12_ddPCR | High pure viral nucleic acid kit; Roche | ddPCR | Albumin | ddPCR | LTR | ddPCR™ Supermix for Probes (No dUTP); Biorad | QX200 Droplet Digital PCR System; BioRad | |
