Laboratory

Laboratory protocols, standard operating procedures, and related documentation from the CDC Influenza Division.

Extraction & Purification

Automated RNA Extraction using QIAcube HT

Standard operating procedure for automated RNA extraction using the QIAcube HT instrument for influenza and respiratory virus sample processing.

MRT-PCR Purification using Exonuclease

Procedure for purifying MRT-PCR products using exonuclease treatment to remove residual primers and single-stranded DNA prior to library preparation.

Sequencing & QC

DNA Quantification with Qubit dsDNA High Sensitivity Kit

Procedure for quantifying double-stranded DNA using the Qubit fluorometer and the dsDNA High Sensitivity assay kit for quality control of sequencing libraries.

Performing a MiSeq Next Generation Sequencing Run

Standard operating procedure for setting up and performing a next generation sequencing run on the Illumina MiSeq platform.

QIAxcel Sample Preparation and Quality Control Procedure

Procedure for preparing samples and performing quality control analysis using the QIAxcel capillary electrophoresis system for PCR product verification.

PCR & Amplification

MRT-PCR of Influenza A Viruses for Sequencing

Multi-segment reverse transcription PCR protocol for amplifying influenza A virus genome segments for sequencing. Current revision.

MRT-PCR of Influenza A Viruses for Sequencing (Rev01D)

Multi-segment reverse transcription PCR protocol for amplifying influenza A virus genome segments for sequencing. Superseded by Rev02D.

Multi-segment Reverse Transcription-PCR (M-RTPCR) of Influenza A and B

Protocol for multi-segment reverse transcription PCR of both influenza A and influenza B viruses, generating full-genome amplicons for sequencing.

RT-PCR of the SARS-CoV-2 S-gene for Sequencing

Reverse transcription PCR protocol targeting the SARS-CoV-2 S-gene to generate amplicons for downstream sequencing applications.