​​​​​​​​​​​​Thank you for your participation to help establish the US national SARS-CoV-2 genomic surveillance system. There are multiple potential applications for routinely sequencing SARS-CoV-2 clinical isolates as part of the public health response to the COVID-19 pandemic, including population-level molecular epidemiology, outbreak investigation and virus characterization. Below please find links to download specimen submission guidance and the specimen submission form.

Guidance Docum​​ents

CDC requests that state public health laboratories provide, on a weekly basis, confirmed, deidenf​ied, diagnostic specimens to CDC to support the NS3 program. CDC prefers specimens with Ct values < 28 that have not already been sequenced.​ Specimens will ideally represent a variety of demographic and clinical characteristics and geographic locations. Selection of a diverse set of specimens will help ensure a representative set of sequences are generated for national monitoring.

Please see the documents below for additional details for submission guidance and shipping instructions:​


For technical guidance on submission, interpretation or other technical sequencing related questions for SARS-CoV-2, please contact sarsseqshipping@cdc.gov.  

For shipping account information or general questions on the national sequence-based surveillance strategy for SARS-CoV-2, please contact eoc@aphl.org.​