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Raj Rajnarayanan Profile picture
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Dec 27 • 5 tweets • 4 min read
#Omicron family swells to 653+ #sublineages!

Currently, we are watching "Omicron" Great-Great-Great grand kids.. especially the recombinant family members

Expected to outcompete other circulating Omicrons including Omicron-BQ*

XBB.1.5* poised to take over North America soon! Image
BQ* family swells to 73
New members CZ.1, DN.1, DN.1.1, DK.1, DP.1, CW.1, DM.1, among others

Source: @PangoNetwork Image
Recombinant lineage watch list Image
BA.2.75 family swells to 92 Image
Thanks to all global sequencing labs, @GISAID, variant hunters, @GenSpectrum, @PangoNetwork

Special thanks to @siamosolocani, @Asinickle1,
@wolfeagle1989, @rquiroga777 and @CorneliusRoemer for their cov-spectrum collections to keep track of fast lineages/clusters!

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More from @RajlabN

Raj Rajnarayanan Profile picture
Dec 30
#SARSCoV2 #VariantProportions - #USA |12/30/22

Top lineages (per @CDCgov #Nowcast estimates):

40.5% XBB.1.5🚀🚀🚀👀
26.9% BQ.1.1⬇️
18.3% BQ.1⬇️
3.7% BA.5⬇️
3.6% XBB
2.4% BN.1
2.1% BF.7
0.9% BA.2.75
and others

covid.cdc.gov/covid-data-tra…

1/n Image
Overall trend consistent with #VariantDashboard #USA #15DayTrends



2/n
BQ.1, BQ.1.1 hotspots per nowcast estimates

3/n Image
Read 6 tweets
Raj Rajnarayanan Profile picture
Dec 30
Tracking XBB.1.5* lineage over time | 12/30/2022

Total Sequence Count - Global: 2,719
Total Sequence Count - USA: 2,426

Earliest sample collection date: 10/22/22 (NY, USA)*

Tracker: public.tableau.com/app/profile/ra…

* [excluding samples with date errors] Image
Tracking XBB.1.5* in Asia over time | 12/20/2022

3 new XBB.1.5^^ sequences uploaded from #Shanghai, #China [metadata indicates - baseline surveillance]

^^ will closely look at these sequences for some epi clues Image
Tracking XBB.1.5* in North America over time | 12/30/2022

#Ontario, #Canada is an emerging hotspot

New entrant: #PuertoRico Image
Read 4 tweets
Raj Rajnarayanan Profile picture
Dec 30
#COVID19 #VariantDashboard - #UnitedStates

Interesting tug of war between BQ.1.1 & XBB.1.5

TOP lineages (15-DAY TRENDS):

14.7% BQ.1.1
11.4% XBB.1.5👀
10.7% BQ.1
9.2% BQ.1.22
3.1% XBB.1
2.3% BQ.1.1.3

Tracker: tinyurl.com/mryj4uu7

#OmicronUpdates 12/29/22

1/n Image
Sequence count by US State

California, New York and Texas have submitted a huge share of sequences with specimen collection dates in the last 15 days.

[It appears like a tug of war between XBB.1.5 and BQ.1.1 mainly because of no. of sequences uploaded from West and South]

2/n Image
Granular details -#VariantDashboard #USA #15DayTrends

3/n Image
Read 18 tweets
Raj Rajnarayanan Profile picture
Dec 29
#COVID19 #VariantDashboard - #UnitedStates

Interesting tug of war between BQ.1.1 & XBB.1.5

TOP lineages (15-DAY TRENDS):

16.3% BQ.1.1
13.5% XBB.1.5
10.7% BQ.1
6.7% BQ.1.22
3.3% XBB.1
2.6% BQ.1.1.4

Tracker: tinyurl.com/mryj4uu7

#OmicronUpdates 12/28/22
1/n Image
Sequence count by US State

New York, California and Texas have submitted a huge share of sequences with specimen collection dates in the last 15 days.

[It appears like a tug of war between XBB.1.5 and BQ.1.1 mainly because of no. of sequences uploaded from West and South]

2/n Image
Granular details -#VariantDashboard #USA #15DayTrends

3/n Image
Read 18 tweets
Raj Rajnarayanan Profile picture
Dec 28
#COVID19 #VariantDashboard - #UnitedStates

TOP lineages (15-DAY TRENDS):

16.6% XBB.1.5👀
16.5% BQ.1.1
10.4% BQ.1
5.2% BQ.1.22
4.0% XBB.1
2.0% BQ.1.1.4
1.9% BQ.1.1.3
1.8% BQ.1.2
1.8% BQ.1.3

Tracker: tinyurl.com/mryj4uu7

#OmicronUpdates 12/27/22
1/n
Sequence count by US State

New York has submitted a huge share of sequences with specimen collection dates in the last 15 days.

2/n Image
Granular details -#VariantDashboard #USA #15DayTrends

3/n Image
Read 16 tweets
Raj Rajnarayanan Profile picture
Dec 26
#COVID19updates #China 12/25/2022

BF.7 seems to be the top circulating lineage in #China based on #SARSCoV2 sequences uploaded in GISAID
25 sequences were uploaded from #Beijing, #InnerMongolia and #Guangdong
BF.7's from China have a unique mutations Spike:C1243F & ORF1a:V274L
Read 4 tweets

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