Thread by @RajlabN

#COVID19 #VariantDashboard - #UnitedStates

Interesting tug or war between BQ.1.1 vs XBB.1.5

TOP lineages (#15DAYTRENDS):

19.4% BQ.1.1
17.0% XBB.1.5
10.8% BQ.1
3.3% XBB.1
2.8% BQ.1.1.4
2.4% BQ.1.1.3

Tracker: tinyurl.com/mryj4uu7
#OmicronUpdates 01/05/2023

1/n

Note: Thanks to Emily Smith (tweet below), misassigned BQ.1.22s were reassigned now to BQ.1.1 or BQ.1.x.y (will check them again and update if there are any additional changes)

https://twitter.com/EmilyAnne_Smith/status/1610851356071313409

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Sequence count by US State

Large share of sequences from outside NE States with specimen collection dates in the last 15 days. The proportion of BQ.1*/BQ.1.1* >> XBB.1.5 outside NE states. XBB.1.5 is expected to outcompete all other circulating lineages soon.

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Granular details -#VariantDashboard #USA #15DayTrends

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.@CDCgov updated variant proportions estimates on 12/30/2022 (updated every Friday)

Several BQ* are circulating at >1% --- good candidates to be included in CDC's Nowcast estimates tomorrow!

https://twitter.com/RajlabN/status/1608877190632071168

4/n

#Global #VariantSoup 01/05/2023

Top lineages with at least 5 key convergent #Spike mutations (#30DayTrends):

BQ.1.1 (28.94%)
BQ.1 (8.32%)
XBB.1 (4.02%)
CH.1.1 (3.06%)
XBB.1.5 (2.99%)
BN.1.3 (2.12%)
BQ.1.1.20 (2.07%)
BQ.1.2 (2.07%)
BQ.1.1.4 (1.97%)
BQ.1.1.18 (1.67%)

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Predicted Immune Escape and ACE2 binding of top lineages in USA (relative to BA.2)

Bivalent boosters (OG/Omicron.BA.5) will potentially protect the boosted from getting severe disease/hospitalizations.

Please get #boosted ASAP!

public.tableau.com/app/profile/ra…

6/n

#Hospital #Capacity - (by State/Division)

All hospitalizations not just COVID-19

public.tableau.com/app/profile/ra…

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#COVID19 #Hospitalizations in the #UnitedStates

Please get #boosted (especially > 50 yr old and immune compromised) and #MaskUP!

Hospital Tracker (by States, by age group): public.tableau.com/app/profile/ra…

8/n

Status of the latest #COVID19 Wave in #NewYork #BellwetherState

XBB.1.5 is the dominant #SARSCoV2 lineage in NY

Top Lineages (#15DAYTrends):

XBB.1.5 (56.9%)👀🚀
BQ.1.1 (11.5%)
XBB.1 (6.0%)
BQ.1.1.4 (2.3%)
CQ.2 (2.3%)
BQ.1.1.18 (1.8%)
XBB.2 (1.8%)
BQ.1 (1.4%)

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Rise of highly immune evasive XBB* family of lineages especially XBB.1.5 (Key mutation: Spike F486P) in NY is concerning

fortune.com/well/2022/11/0…

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Recombinant lineage hotspots - #USA #15DayTrends

uptick of XBB.1.5 in several states outside NE USA

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Why the new COVID variant XBB.1.5 is taking over the U.S. so quickly

salon.com/2023/01/04/why…

14/n

Tracking the current #COVID19 wave, variant soup and #Hospitalizations 👀 in #Massachusetts

2 sequences with sample collection dates in the last 15 days (1 each of CK.1 & XBB.1.5).

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more on #Massachusetts's XBB.1.5 wave

bostonglobe.com/2022/12/28/met…

16/n

Tracking the current #COVID19 wave, variant soup and #Hospitalizations 👀 in #Connecticut

XBB.1.5 is the top circulating lineage in CT

16/n

Tracking the current #COVID19 wave, variant soup and #Hospitalizations in #NewJersey

XBB.1.5 is the top circulating lineage in NJ

17/n

XBB.1.5* still maintains a strong growth advantage over BQ.1*/BQ.1.1* lineages in USA

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Note (2): Some states have two bubbles for BQ.1.X* (one originally designated and the second reassigned from BQ.1.22.. kept them separate till I check it again and merge the bubbles).