🧬6/10 Connecticut #SARSCoV2 variant surveillance
@CovidCT | @jacksonlab | @CTDPH | @YaleSPH | @Yalemed | @YNHH

Alpha (B.1.1.7) = 57% (πŸ“‰11%)
Gamma (P.1) = 10.9% (πŸ“ˆ2.7%)
Delta (B.1.617.2) = 6.5% (πŸ“ˆ3.2%)

short 🧡 | Report πŸ‘‰
covidtrackerct.com/variant-survei…
2/7 Gamma (P.1) and Delta (B.1.617.2) continue rising in Connecticut, while Alpha (B.1.1.7) and others decline, following national trends (see next tweet).
3/7 Data from outbreak.info shows that in the US πŸ‡ΊπŸ‡Έ, Delta (B.1.617.2) is πŸ“ˆ exponentially, while Alpha (B.1.1.7) is on the πŸ“‰. Despite this, COVID-19 cases are still dropping (for now).
4/7 Compare this to the UK πŸ‡¬πŸ‡§, where Delta (B.1.617.2) is dominant and Alpha (B.1.1.7) is approaching (but probably wont reach) extinction. And this is being following by a recent πŸ“ˆ in cases.
5/7 What will happen in CT and the πŸ‡ΊπŸ‡Έ? Delta will likely become dominant. The πŸ‡ΊπŸ‡Έ and πŸ‡¬πŸ‡§ have quite similar πŸ’‰ rates, so we may even see an πŸ“ˆ in cases like the πŸ‡¬πŸ‡§. But full vaxx can still be effective against Delta, so I'm guessing that it would be a large '🌊'.
(data from NYT)
6/7 How we prevent Delta (and other variants) from causing another 🌊 is pretty simple. Get vaccinated πŸ’‰.
7/7 This week I'd like to thank Kaya Bilguvar and our partners at YCGA who stood up COVIDseq and significantly increased our capacity. The entire team has been amazing to work with, and we could not have done this πŸ‘‡ without them πŸ‘πŸ™Œ
medicine.yale.edu/keck/ycga/
**would NOT be a large wave. ugh.

β€’ β€’ β€’

Missing some Tweet in this thread? You can try to force a refresh
γ€€

Keep Current with Nathan Grubaugh

Nathan Grubaugh Profile picture

Stay in touch and get notified when new unrolls are available from this author!

Read all threads

This Thread may be Removed Anytime!

PDF

Twitter may remove this content at anytime! Save it as PDF for later use!

Try unrolling a thread yourself!

how to unroll video
  1. Follow @ThreadReaderApp to mention us!

  2. From a Twitter thread mention us with a keyword "unroll"
@threadreaderapp unroll

Practice here first or read more on our help page!

More from @NathanGrubaugh

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

- Continued πŸ“ˆ of B.1.617.2 (3%) and now B.1.617.1 (2%)
- Sudden πŸ“‰ in % B.1.1.7 (maybe due to small numbers)

short 🧡 | Report πŸ‘‰
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 πŸ‘€
3/6 The πŸ“‰ 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 πŸ‘† 1 is from TaqPath SGTF data, which is a week ahead of the sequencing shown πŸ‘‡, where we don't yet see the sudden πŸ“‰.
Read 6 tweets
20 May
🧬 5/20 Connecticut #SARSCoV2 variant surveillance
@CovidCT | @jacksonlab | @CTDPH | @YaleSPH | @YaleWestCampus | @YNHH

- 2nd case of B.1.617.2 in CT
- B.1.1.7 >75% of all cases, but..
- COVID-19 cases lowest since early October πŸ₯³

short 🧡 | Report πŸ‘‰
covidtrackerct.com/variant-survei…
2/5 The second case of B.1.617.2 was from the same county as the first case (Fairfield), but they are unrelated (see tree πŸ‘‡). Neither cases are known to be linked to international travel.
3/5 B.1.1.7 is still πŸ“ˆ frequency not because the lineage is rapidly expanding, but because it is dying out slower than the non-B.1.1.7 lineages. So the total number of B.1.1.7 cases πŸ“‰ by 87% since late March.
Read 7 tweets
6 May
🧬5/6 Connecticut #SARSCoV2 variant surveillance
@CovidCT | @jacksonlab | @CTDPH | @YaleSPH | @YaleWestCampus | @YNHH

- 1st detection of B.1.617.2 (reported in India) in CT
- P.1 πŸ“ˆ in frequency, following US trends

short 🧡 | Report πŸ‘‡
covidtrackerct.com/variant-survei…
2/7 B.1.617 first reported in India comes in 4 different flavors primarily defined by their spike gene mutations. While the CDC currently recognizes all 4 as VOIs, the B.1.617.2 lineage that we detected importantly does not have the E484Q mutation.

πŸ‘‡from outbreak.info
3/7 The B.1.617.2 case was not associated with travel, suggesting that there is some level of local transmission. Though the presence of other highly transmissible variants in CT - like B.1.1.7 - may limit its ability to become established.

nextstrain.org/community/grub…
Read 7 tweets
22 Apr
🧬4/22 Connecticut #SARSCoV2 variant surveillance
@CovidCT | @jacksonlab | @CTDPH | @YaleSPH | @YaleWestCampus | @YNHH

- B.1.1.7 >60%
- Detected 2 B.1.1.7 + E484K (3 total)
- New CDC VOI list: B.1.526 + B.1.526.1, but not B.1.526.2

short 🧡 | Report πŸ‘‡
covidtrackerct.com/variant-survei…
2/8 Last week we saw a dip in the probably B.1.1.7 cases determined by TaqPath SGTF results. I showed how the sequencing tracked with the SGTF data, and that the dip was probably a blip...

3/8 That "blip" was confirmed: B.1.1.7 πŸ“ˆ this week in both the sequencing and TaqPath SGTF data (shown πŸ‘‡). While we expect B.1.1.7 to continue this trend until it dominates (like in the UK), the good news is that we are seeing a reduction in both B.1.1.7 and non-B.1.1.7 cases.
Read 8 tweets
15 Apr
⚑️4/15 Connecticut #SARSCoV2 variant surveillance report 🧬
@CovidCT | @jacksonlab | @CTDPH | @YaleSPH

- B.1.1.7 πŸ“ˆ
- B.1.526 πŸ“‰
- Still not much P.1 & B.1.351

short 🧡 | Report πŸ‘‡
covidtrackerct.com/variant-survei… Image
2/9 While we continue to see the rapid decline of non-VOCs/VOIs, the competition between B.1.1.7 & B.1.526 is quite interesting, and could have significant public health importance. Currently B.1.1.7 is "winning", though things could rapidly change as more people get vaccinated. Image
3/9 For the first time we saw B.1.1.7 πŸ“‰ from TaqPath data, which could mean that it is slowing down (it has to at some point). Below I also plotted the B.1.1.7 frequency estimates from our sequencing data, which has tracked with TaqPath and importantly still shows B.1.1.7 πŸ“ˆ Image
Read 9 tweets
8 Apr
⚑️4/8 Connecticut #SARSCoV2 variant surveillance report
@CovidCT | @jacksonlab | @CTDPH | @YaleSPH

Primary news is that B.1.1.7 πŸ“ˆ, and we now predict it to be the dominant lineage in CT based on TaqPath SGTF data from Yale + JAX

Short 🧡 | Report πŸ‘‡
covidtrackerct.com/variant-survei…
2/6 This news follows @CDCDirector Rochelle Walensky saying that B.1.1.7 is "now the most common lineage circulating in the United States".

npr.org/sections/coron…
3/6 We predicted that B.1.1.7 would become dominant in CT in our recent paper led by @tdalpert, @AndersonBrito_, & co. However, we thought that this would have happened earlier in March. The slowdown of B.1.1.7 was likely due to the rapid rise of B.1.526.

cell.com/cell/fulltext/…
Read 6 tweets

Did Thread Reader help you today?

Support us! We are indie developers!


This site is made by just two indie developers on a laptop doing marketing, support and development! Read more about the story.

Become a Premium Member ($3/month or $30/year) and get exclusive features!

Become Premium

Too expensive? Make a small donation by buying us coffee ($5) or help with server cost ($10)

Donate via Paypal Become our Patreon

Thank you for your support!

Follow Us on Twitter!

:(