COVID-19 strain XEC and family, XFL, NB.1.8.1, XFG

[sharon sanders]

For the USA -

Raj Rajnarayanan
@RajlabN


#COVID19 #VariantDashboard - #USA | 08/23/24 #SARSCoV2 #Lineages #30DAYTRENDS

KP.3.1.1 (20.3%)
KP.2.3 (17.4%)
LB.1.7 (5.1%)
KP.2 (4%)
KP.3.3 (3.7%)
LB.1 (3.1%)
KP.3.1 (3.1%)
KP.2.2 (2.9%)
KP.1.1.3 (2.9%)
LB.1.3 (2.8%)

--- XEC (0.3%)​

 

[sharon sanders]

New Covid Variant Xec Spreading Rapidly Across Continents

Wednesday 28 August 2024, 09:07 - Last updated: 17:53
A new Covid variant is spreading rapidly and has caught the attention of the research world: 111 samples have already been reported from 15 countries, across three different continents. A significant spread, which may have originated from Germany.​

more... https://www.ilmessaggero.it/en/new_...dly_across_continents-8320454.html?refresh_ce


​

 

[sharon sanders]

Raj Rajnarayanan
@RajlabN


What the XEC! Recombinant #SARSCoV2 lineage #XEC (recombinant of KS.1.1/KP.3.3) has the potential to outcompete other circulating lineages in #USA (and other countries) More data is needed to provide a reliable growth advantage estimates

Quote

Raj Rajnarayanan
@RajlabN
·
Aug 25
Replying to @RajlabN and @GISAID
Tracking #SARSCoV2 lineage XEC (recombinant of KS.1.1/KP.3.3) - #30DayTrends 5/n

2:29 AM · Sep 1, 2024
·
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Raj Rajnarayanan
@RajlabN
·
16h


#VariantHunters are closely monitoring XEC.1 with signature mutations Spike K182R & ORF1a:L4182F


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Raj Rajnarayanan
@RajlabN
·
16h


XEC.1 was proposed by #VariantHunter
@siamosolocani

XEC + S:K182R (6 , 4 countries) · Issue #1869 · sars-cov-2-variants/lineage-proposals
From github.com


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Raj Rajnarayanan
@RajlabN
·
16h


XEC (the parent lineage) is proposed by Over-There-Is

XEC: Potential KS.1.1/KP.3.3 recombinant (35 sequences, 9 countries) · Issue #2717 · cov-lineages...
From github.com


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Raj Rajnarayanan
@RajlabN
·
15h


#VariantHunter
@wolfeagle1989
is diligently tracking and updating XEC sequences globally on
@X
Quote

Andrew Urquhart
@wolfeagle1989
·
Aug 9
Recently-designated recombinant XEC now leads #Collection42 https://cov-spectrum.org/collections/42. XEC is still small, 26 on CoV-Spectrum and 37 on GISAID, but reported from 10 countries on 3 continents with the largest number of sequences from Germany. This one might or might not fade.


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Raj Rajnarayanan
@RajlabN
·
2h


Spike mutational profile of KP.2 (Vaccine Antigen), KP.3.1.1 (Top circulating lineage - USA) & XEC(KS.1.1/KP.3.3) New booster antigen JN.1 (Novavax) or KP.2 (Pfizer/Moderna) are closely matched to top lineages in circulation compared to XBB.1.5 (last season's antigen)
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[sharon sanders]

Raj Rajnarayanan
@RajlabN
·
2h


Tracking #SARSCoV2 lineage XEC (recombinant of KS.1.1/KP.3.3) over time - Globally Total Sequences: 389 (+10) First XEC reported from mainland #China Tracker: https://public.tableau.com/app/profile/raj.rajnarayanan/viz/TrackingSARSCoV2LineageXEC-Globally/XEC… Updated: 09/10/2024



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Raj Rajnarayanan
@RajlabN
·
2h


Tracking #SARSCoV2 lineage XEC over time - #Asia First XEC (recombinant of KS.1.1/KP.3.3) reported from mainland #China - #Liaoning province Currently XDV.1 lineage is the top circulating lineage in China



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Raj Rajnarayanan
@RajlabN
·
2h


Note: XDV.1 is a recombinant of XDE (GW.5.1/FL.13.4) and JN.1 XEC and XDV.1 share 61 Spike mutations Additional mutations in XEC Spike T22N, F59S, Q493E, V1104L



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[sharon sanders]

Raj Rajnarayanan
@RajlabN
·
7m


Tracking #SARSCoV2 lineage XEC (recombinant of KS.1.1/KP.3.3) over time - Globally Total Sequences: 657 (+75) Tracker: https://public.tableau.com/app/profile/raj.rajnarayanan/viz/TrackingSARSCoV2LineageXEC-Globally/XEC… Note: Data from recent epi-weeks are incomplete Updated: 09/17/2024





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[sharon sanders]

Raj Rajnarayanan
@RajlabN




Tracking #SARSCoV2 #Lineages - Globally |04/05/25 Top lineages -#30DayTrends #G30
LP.8.1.1 (22%)
XEC (15.3%)
LP.8.1 (12%)
XEC.4 (6%)
MC.10.1 (4.2%)
LF.7 (3.4%)
XEC.2 (2.8%)
LF.7.2.1 (2.6%)
XEC.8 (1.8%)​​

 

[sharon sanders]

hat tip @RajlabN


XFL: XEU/XEC.18 recombinant with 2-nuc Orf1a:Q1757L (29, 7 countries) #2528


New issue

Closed
Description

Walde1nsamkeit
opened 4 days ago · edited by Walde1nsamkeit
Edits

Query: C5534T, A5535T, G24193T

Mutations based on XEU:
C5534T(Orf1a:Q1757L), A5535T(Orf1a:Q1757L) / C27995Trev, C28291A(Orf9b3H), G28378T(Orf9b:R32L)

Breakpoint: 24193~27995
C5534T and A5535T are private.

Earliest sequence: 08-26 Republic of Korea EPI_ISL_19659060
Latest sequence: 03-13 Valdecilla, Santander, Cantabria, Spain EPI_ISL_19793483
Regions detected: Spain 15, Japan 6, France 3, Luxembourg 2, Germany 1, Korea 1, US 1
​

more.... https://github.com/sars-cov-2-variants/lineage-proposals/issues/2528

 

[sharon sanders]

Mike Honey
@Mike_Honey_
·
13h




This could be driven by the NB.1.8.1 variant, which has been dominant in Hong Kong and China, and has been growing in countries across Asia including Australia.​

 

[sharon sanders]

Raj Rajnarayanan
@RajlabN
·
Apr 29




#COVID19 #VariantDashboard - #USA| 04/29/25 #SARSCoV2 #Lineages #30DAYTRENDS
LP.8.1.1 (39.3%)
LP.8.1 (18.4%)
LF.7 (13.3%)
XEC (4.1%)
LF.7.2.1 (2.2%)
MC.10.1 (2.2%)
NB.1.8.1 (2%)
LP.8.1.2 (1.8%)
--
XFJ (1%)

Tracker: http://tinyurl.com/mryj4uu7​

 

[sharon sanders]

Raj Rajnarayanan
@RajlabN




#COVID19 #VariantDashboard - #USA| 05/17/25 #SARSCoV2 #Lineages #30DAYTRENDS

LP.8.1.1 (29.8%)

LP.8.1 (8.1%)

XFG.2 (6.6%)

NB.1.8.1 (6.4%)

XFG (4.4%)

XFJ (3.6%)

LF.7.7.2 (3.3%)

XFC (2.3%)

XEC (2.1%)

LF.7.9 (1.6%)

LP.8.1.4 (1.6%)

Tracker: http://tinyurl.com/mryj4uu7​

 

[sharon sanders]

Raj Rajnarayanan
@RajlabN
·
May 26

#COVID19 #VariantDashboard - #USA| 05/26/25 #SARSCoV2 #Lineages #30DAYTRENDS

LP.8.1.1 (25.8%)

XFG.2 (8%)

NB.1.8.1 (7.5%)

XFG (5.6%)

XEC.4.1 (4.5%)

XFJ (4.5%)

LP.8.1 (3.5%)

LF.7.9 (3%)

LF.7.7.2 (2.6%)

PQ.2 (2.2%)

Tracker: http://tinyurl.com/mryj4uu7​

 

[sharon sanders]

Raj Rajnarayanan
@RajlabN
·
1h




NB.1.8.1* #Nimbus hotspots




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Raj Rajnarayanan
@RajlabN
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1h




XFG* hotspots






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[sharon sanders]

Raj Rajnarayanan
@RajlabN
·
8h




#SARSCoV2 Updates XFG (Nick name: #Stratus) is now the top circulating lineage in the world
@WHO
lists XFG as one of the SARSCoV2 Variant Under Monitoring (#VUM) https://cdn.who.int/media/docs/default-source/documents/epp/tracking-sars-cov-2/25062025_xfg_ire.pdf?sfvrsn=260a9981_4&download=tr ue​