‼️Does the updated XBB.1.5 vaccine protects against the SARS-CoV-2 variant JN.1 ? A short🧵
@EricTopol @kakape @ewencallaway @DrEricDing @PeterHotez @jbloom_lab @BenjMurrell @RajlabN @LongDesertTrain @PeacockFlu @siamosolocani @ACasadevall1 @MarionKoopmans @RobiVil JN.1 is the fittest descendant of BA.2.86*, the “Pirola clan” as named by @TRyanGregory

‼️🚨#IDTwitter : Dec 30 UPDATE (last of 2023🍾) of the tour of #SARSCoV2 loads the world #wastewaters , showing impact of #Pirola descendant JN.1 🧵

@EricTopol @SolidEvidence @LongDesertTrain @trvrb @jbloom_lab @ACasadevall1 @kakape @ewencallaway @angie_rasmussen @TRyanGregory #SARSCoV2 in #wastewaters of
#Slovakia 🇸🇰 and #Hungary 🇭🇺 show increases, while #Austria 🇦🇹 shows signs of decline after peaking

DEC 18 UPDATE ‼️Spike convergent evolution in the skyrocketing #Pirola descendant JN.1* (including XDD and XDK recombinant) + 🧵
@yunlong_cao @RajlabN @PeacockFlu @MarionKoopmans @jbloom_lab @SystemsVirology @SolidEvidence @BarouchLab @sigallab @GuptaR_lab @BenjMurrell @EricTopol DEC 18 UPDATE ‼️ Spike convergent evolution in FLip’s

‼️🚨#IDTwitter : Dec 13 UPDATE of the tour of the world wastewaters, showing impact of #Pirola descendant JN.1 🧵
@EricTopol @SolidEvidence @LongDesertTrain @trvrb @jbloom_lab @ACasadevall1 @yunlong_cao @sigallab @kakape @ewencallaway @JPWeiland SARS-CoV-2 levels in #wastewaters of
#Austria (⬆️), #Slovakia and #Hungary

‼️🚨#IDTwitter : SARS-CoV-2 in wastewater analysis by country showing impact of #Pirola descendant JN.1 (much better than NPS) . A graph 🧵
@EricTopol @SolidEvidence @LongDesertTrain @SystemsVirology @trvrb @jbloom_lab @ACasadevall1 @yunlong_cao @kakape @ewencallaway @JPWeiland Austria and The Netherlands are skyrocketing
@EllingUlrich @JosetteSchoenma @bjarijn @MarionKoopmans

With 4 great studies out so far in #Pirola and it’s 1st sublineage designated, it’s time to summarize findings, crosscheck predictions, solve discrepancies, & exhibit more tools. A🧵
@EricTopol @DrEricDing @TRyanGregory @ewencallaway @kakape @MarionKoopmans @florian_krammer How fast is BA.2.86 spreading? (84 seqs so far). Variant seekers are reporting (@shay_fleishon, @LongDesertTrain, @OliasDave and @JosetteSchoenma paved the way), @RajlabN has a great time trend @HNimanFC has light-fast reporting and maps. @jampei2 has a Re model based on Denmark

‼️SEP 3 UPDATE Spike convergent evolution in XBB.*
New FLip members: HK.8, HK.10, JJ.1.
HS.1.1 joins 456L+478R family
FL.1.5.1 recombined w/ “last of Cerberus” BQ.1.2.2
🧵
@RajlabN @LongDesertTrain @yunlong_cao @jbloom_lab @SystemsVirology @EricTopol @SolidEvidence @BarouchLab This chart shows how common S:K478X acquisition has been so far in XBB* compared to former Omicron lineages… /2

BA.2.86 variant under monitoring (VUM) (formerly BA.X) is now at 5 (totally unrelated) cases since July 24 across 4 countries with high sequencing rates (2 in Denmark and 1 each in Israel, Michigan, & today UK). Higher prevalence is reasonable. 🧵@kakape @ewencallaway @EricTopol @WHO decision (which I totally agree) was timely and based on immune escape & high number of Spike mutations. It mainly serves to rise attention in a moment in which both swabbing and sequencing rates are incredibly low, and many labs have dismissed SGTF-detecting PCRs.

The ACP guidelines on treatment of COVID-19 outpatients out today @AnnalsofIM are a clear example of the total failure of the conventional publishing system to cope with a pandemic and to damage public health. 🧵

acpjournals.org/doi/full/10.73… The cutoff date for reviewing the literature was April 4 and the authors did a follow-up checkup on August 17. The paper comes out on November 29, ie 4 months and a half later

Convergent evolution UPDATE 11/04. New entries: BA.4.6.5, BA.5.11, BA.5.2.39, BE.5/6/7/8, BF.33, BQ.1.24, CA.3.1, CM.7, DB.1, DD.1. But this time PLEASE read the 🧵below: amazing findings on RBD immune escape and ACE2 affinity. @EricTopol @ewencallaway @SolidEvidence @firefoxx66 You now Nextclade has this great chart where you can filter variants according to RBD immune escape and ACE2 binding affinity. Then I tried to move the convergent evolution chart with arrows. Amazing how each mutation added invariably increases immune escape . Here is CZ.1 chart

🔔 REAL TIME COVID19 MONOCLONAL ANTIBODY BY COUNTRY 🔔.
I want to share with you the online freely accessible collection that I have just created here: cov-spectrum.org/collections/75. 🧵@EricTopol @kakape @ewencallaway @mildanalyst @TRyanGregory @DrEricDing #IDTwitter We all trust precision medicine and prescription appropriateness, and rely over in vitro neutralization titers to establish the efficacy of passive immunotherapies. Let’s exploit genomic data at their best

Summary of Omicron sublineages designated so far harboring hypermutated Spike RBD(residues considered : R346, K356, K444, V445, G446, N450, L452, N460, F486, F490, R493, S494, so denominator is 12)🧵 Level 7 (the most immune escaping): CH.1, XBB, XBB.1 (no N450 or L452 here, so room for improvement). More BN.1* lineages upcoming.

Convergent evolution UPDATE 5/10. Bubbles reconciled, mAb resistance legend, and a novel #Baseline4 category: BE.4.1.1. Seems BA.5 has a preference for K444X, while BA.2 and BA.4 do not @CorneliusRoemer @PeacockFlu @SolidEvidence @ewencallaway @EricTopol @RobertoBurioni Please note XBB is also evading bebtelovimab since it also has S:V445P and S:G446S.