Testing and Sequencing at Michigan's Bureau of Laboratories
Amy Dedoyard - Virology Fellow, Michigan Department of Health and Human Services Bureau of Laboratories
Throughout this pandemic we have seen many changes to our regular day-to-day routine. From mask wearing to social distancing to vaccines, we have integrated the best practices possible in order to stay healthy. A large part of the COVID-19 pandemic has included testing for SARS-CoV-2 as well as sequencing for coronavirus variants. The Michigan Department of Health and Human Services – Bureau of Laboratories (MDHHS-BOL) is a primary center for testing and sequencing in Michigan.
When the novel coronavirus emerged and began spreading in the U.S., the Centers for Disease Control and Prevention (CDC) and other public health laboratories, like MDHHS-BOL, teamed up to begin testing for this novel virus as no FDA-approved testing methods were available. In February 2020, MDHHS-BOL participated in the initial verification studies for the CDC’s 2019 Novel Coronavirus (2019-nCOV) Real-Time Reverse Transcriptase (RT)-PCR Diagnostic Panel. MDHHS-BOL began testing for SARS-CoV-2 on February 29th, 2020 and identified their first positive case on March 10th, 2020. Since then, MDHHS-BOL has completed 139,350 COVID-19 tests spanning from February 29th, 2020- August 20th, 2021, including testing of the Michigan National Guard, long term care facilities, psychiatric hospitals, and corrections facilities.
In addition to bringing on clinical testing at the beginning of the pandemic, MDHHS-BOL scientists also created Whole Genome Sequencing (WGS) protocols and data analysis pipelines early on in the pandemic response. The first Michigan COVID-19 WGS was published on March 20th, 2020. Having real-time sequencing capabilities allows for the detection and tracking of COVID variants as they emerge and spread within the state as seen by the emergence of the Alpha variant followed by the Delta variant.
Of the 11,264 SARS-CoV-2 positive cases sequenced, 892 have already been recorded as the delta variant; specifically, the most prevalent variant B.1.617.2. This switch from the highly contagious Alpha variant to the even more contagious Delta variant occurred during July of 2021. This data is imperative to public health departments across the nation.
Real-time data is provided by public health laboratories to local and national epidemiologists in order to collaborate with their community; this data includes positive cases, variant prevalence, and surge locations. MDHHS’ robust surveillance allows for specific, accurate data that supports public health measures aimed at protecting the health of Michigan residents. Overall, this pandemic has shown us that testing, sequencing, and surveillance are key to implementing safety measures for everyone in our community, especially with emerging variants.
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