Raj Rajnarayanan Profile picture
Oct 8, 2022 12 tweets 15 min read Read on X
Tracking #SARSCoV2 #Convergent #Lineages ( aka #VariantSoup) over time - Globally | #30DayTrends

BQ.1 (#Typhon)/BQ.1.1(#Cerberus) are currently at the top & BA.2.75.2* (#Chiron) is not far behind!

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

Updated 10/7/2022 Image
Granular details - #VariantSoup with Convergent Mutations #30DayTrends

BQ.1/BQ.1.1 and BA.2.75.2 are heading the charts!

2/n Image
Tracked #Convergent #lineages are predicted to be immune evasive and bind to host ACE2 receptor better than Omicron.BA2

XBB is most immune evasive
Most BA.2.75* binds better to ACE2 receptors

Closely watched lineages - XBB, BM.1.1.1, CA.1, BQ.1.1, BN.1

3/n Image
#Singapore is a #XBB* (aka #Gryphon) hotspot (#30DayTrends)

4/n Image
#UnitedKingdom, #USA, #Denmark, #France, and #Belgium are BQ.1.1* hotspots (#30DayTrends)

5/n Image
#USA, #Singapore, #Denmark, #Austria, #Australia, #Canada are emerging BA.2.3.20* hotspots (#30DayTrends)

6/n Image
#Singapore is an emerging BM.1.1.1 (#Mimas) hotspot (#30DayTrends)

9/n Image
List of "unofficial" variant nicknames for easy social media communication

H/T @TRyanGregory
Why are we watching these lineages?



11/n
Live tracking of convergent lineages with the
@GenSpectrum #Collection54 by @CorneliusRoemer

cov-spectrum.org/collections/54

12/n Image

• • •

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

Keep Current with Raj Rajnarayanan

Raj Rajnarayanan 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 @RajlabN

Jan 6
The Louisiana Department of Health reports the patient who had been hospitalized with the first human case of highly pathogenic avian influenza (HPAI), or H5N1, in Louisiana and the U.S. has died.

katc.com/news/covering-…Image
Note: This is H5N1 Avian Influenza A #WildBird -D1.1 genotype and not #DairyCattle B3.13 genotype related
Read 4 tweets
Jan 1
#H5N1 #AvianInfluenza updates

New @NEJM case report describing severe human illness caused by highly pathogenic avian influenza A -H5N1 in #BritishColumbia (#Canada) teenager with evidence of potential viral adaptation to humans.



1/n nejm.org/doi/full/10.10…Image
A 13-year-old girl with mild asthma and obesity (BMI >35) presented with conjunctivitis, fever, respiratory distress, and multi-organ complications was hospitalized on 11/7/24, and required intensive care, including ECMO and continuous renal therapy

2/n
RT-PCR confirmed A/H5N1 infection, and the virus was linked to wild birds in British Columbia.

Genetic analysis revealed mutations in the HA protein (E186D, Q222H), associated with increased binding to human airway receptors, facilitating viral entry and replication.

3/n
Read 6 tweets
Dec 22, 2024
#H5N1 #AvianInfluenza updates

Quick analysis of the 7 sequences from NIAID experimental study of #Macaques infected w/ H5N1 2.3.4.4b (B3.13 type)

PB2 mutations: T58A, V109I, V139I, E362G, K389R, D441N, V478I, V495I, M631L, V649I, M676A, E677K

Ref: A/Duck/Guangdong/E1/2012

1/n
HA mutations: L120M, L131Q, T211I, V226A, I526V

Ref: A/Astrakhan/3212_cell/2020

2/n
NA mutations: V67I, D259E, L269M, V321I, S339P

Ref: A/AmericanWigeon/SouthCarolina/22-000345-001/2021

3/n
Read 4 tweets
Oct 20, 2024
Tracking #SARSCoV2 #Lineages - Globally |10/19/24

Top lineages -#30DayTrends #G30

KP.3.1.1 (41.9%)
XEC (10.5%)👀
KP.2.3 (3.1%)
MC.13 (3.1%)
MC.16 (2.6%)
MC.1 (2.5%)
KP.3.3 (2.3%)
LB.1.3.1 (1.9%)
MC.10 (1.7%)
MC.11 (1.4%)
XEC.2 (1.3%)👀



1/n public.tableau.com/app/profile/ra…Image
Granular details #Global #30DayTrends

KP.3.1.1* is still the top circulating group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 09/19/2024 (11,851sequences)

2/n Image
@GISAID Thanks to all the countries that are supporting #SARSCoV2 testing and rapidly submitting sequences to @GISAID

Top submitters #Canada #USA #France #UK #Netherlands #Sweden #Spain #Japan #Italy
#Denmark #Australia #Ireland #Singapore
#China #NewZealand #Slovenia #Germany

3/n Image
Read 4 tweets
Sep 27, 2024
#SARSCoV2 #VariantProportions - #USA |09/27/24

@CDCgov #Nowcast 2-Week estimates

KP.3.1.1 (JN.1.11.1.3.1.1) is still the top circulating lineage in the USA

🚨XEC makes an entry @ 5.7%



1/n covid.cdc.gov/covid-data-tra…
Image
Reliable nowcast estimates are available only for HHS regions 2, 3, 4, 5, 7 and 9

Other regions did not sequence enough

2/n Image
KP.3.1.1* group of lineages

In the @CDCgov nowcast chart....
KP.3.1.1* is not further separated in to MC.1-MC.16 sub-lineages

3/n Image
Read 6 tweets
Sep 8, 2024
Tracking #SARSCoV2 #Lineages - Globally |09/07/24

Top lineages -#30DayTrends

KP.3.1.1 (37.1%)
KP.2.3 (9%)
KP.3.3 (5.7%)
KP.3.1 (2.9%)
XDV.1 (2.9%)
KP.1.1.3 (2.7%)
LB.1 (2.3%)
LB.1.3 (2.1%)
KP.2.2 (2%)
---
XEC (1.4%)👀

Track #G30 :

1/n public.tableau.com/app/profile/ra…
Image
Granular details #Global #30DayTrends

KP.3.1.1* is still the top circulating group of lineages in the world.

This analysis includes #SARSCoV2 sequences submitted to @GISAID with sample collection dates on or after 08/08/2024 (12,884 sequences)

2/n Image
@GISAID Thanks to all the countries that are supporting #SARSCoV2 testing and rapidly submitting sequences to @GISAID

Top submitters #USA #Canada #UK #Sweden #Japan
#China #Spain #Australia #Germany #Denmark #SouthKorea #France #Singapore #NewZealand #Ireland #Italy #Netherlands Image
Read 16 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

Don't want to be a Premium member but still want to support us?

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

Donate via Paypal

Or Donate anonymously using crypto!

Ethereum

0xfe58350B80634f60Fa6Dc149a72b4DFbc17D341E copy

Bitcoin

3ATGMxNzCUFzxpMCHL5sWSt4DVtS8UqXpi copy

Thank you for your support!

Follow Us!

:(