Thread by @NathanGrubaugh

🧬5/27 Connecticut #SARSCoV2 variant surveillance
@CovidCT | @jacksonlab | @CTDPH | @YaleSPH | @YaleWestCampus | @YNHH

- Continued 📈 of B.1.617.2 (3%) and now B.1.617.1 (2%)
- Sudden 📉 in % B.1.1.7 (maybe due to small numbers)

short 🧵 | Report 👉
covidtrackerct.com/variant-survei…

2/6 We now have 8 cases of B.1.617.2 (5 shown in the 🌲) and 2 of B.1.617.1. To my knowledge, none of these are associated with ✈️. Our phylo 🌲 shows that there are at least 4 independent transmission chains of these viruses, spanning at least 3 counties. Definately one to 👀

3/6 The 📉 in B.1.1.7 shown in tweet 1 is probably a combination of noisy data with few cases and the emergence of other lineages. The figure 👆 1 is from TaqPath SGTF data, which is a week ahead of the sequencing shown 👇, where we don't yet see the sudden 📉.

4/6 Interesting that the "Non-VOC/VOI" cases (shown as grey 👆) passed B.1.526 this week (11% vs 10%). Looking at the Non-VOC/VOIs closer, its mostly due to an increase in R.1, a lineage that has E484K and that we have detected at low levels for a long time.

5/6 P.1 continues to fluctuate and remain at relatively low frequencies. We haven't sequenced a B.1.351 in a couple of weeks.

6/6 This week I'd like to thank our funders 👏🙏. We received a contract from the @CDC_AMD in Sep to get things started, then a boost from fastgrants.org in Dec to respond to the variants. Now we have a contract with the @CTDPH to keep the program going 💪.