Euan Arnott
@Nucleocapsoid
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Pinning this to help convert between multiple alternative numbering systems in use for influenza H5N1 hemagluttinin.
In addition, we have made a page to help convert between the many confusing numbering schemes used to name HA mutations: https://t.co/IkizgoNIZ7 (Throughout we use H3 numbering, but other studies use other schemes)
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#H5N1 @CDCgov @USDA ➡️ The potential of H5N1 viruses to adapt to bovine cells varies throughout evolution https://t.co/qnWjK30wGC
nature.com
Nature Communications - H5N1 avian influenza viruses caused an outbreak in dairy cattle. We show that the potential for avian viruses to replicate in cow cells varies across H5N1 evolution,...
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#H5N1 @CDCgov @USDA ➡️ Indiana: Bird flu claims another 31k ducks, 25k egg-laying chickens in northeast Indiana - An additional 15 chickens from a hobby flock in Ohio County, which is located in Indiana's SE corner, also tested positive for bird flu https://t.co/NxCz7wD8MS
nwitimes.com
An additional 15 chickens from a hobby flock in Ohio County, which is located in Indiana's southeastern corner, also tested positive for bird flu, officials said.
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#H5N1 @CDCgov @USDA ➡️🇪🇸 Bird flu kills hundreds of storks near Madrid - agents collected hundreds of dead storks over the past several weeks including more than a hundred in the past 24 hours https://t.co/souNOVxPve
thepoultrysite.com
Four wild bird outbreaks detected as Europe sees record surge
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Taiwan’s CDC says a new COVID-19 surge may come after the Lunar New Year or around May next year. Starting January 1, free LP.8.1/JN.1 vaccination is open to everyone aged six months and older who has not been vaccinated, not only high-risk groups.
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@snpoehlm Looks like @LongDesertTrain may be right that RE.2.2 (N: A173V) isn't magic in Germany & Netherlands, just got established FIRST. & RE.2.1 (N: T296I) got to Ireland 1st. & RE.2* (undesignated N: N126K) got to Scotland 1st. We won't know about actual advantages until later...
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16% of new sequences (5 out of 31) reported today from Ireland 🇮🇪 are RE.2.1 (BA.3.2.2.2.1) 🎃
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Again.
“We kindly ask you not to bring lateral flow tests into the hospital to test your loved ones” Sorry, what?
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Very useful review of Western Australia BA.3.2.2 sequences looking for phylogentic clustering which could suggest nosocomial spread. Indirectly adds data to the on-going discussion of potential altered severity - which has so far shown possible signals in BOTH directions! 🙄
@Nucleocapsoid @CatieZee The problem with the Western Australian samples is that they tend to have a lot of dropouts. This makes the Usher tree somewhat less reliable. But it does not show any obvious clustering. And also from looking at the mutations in Nextclade, I do not think they are clustered much.
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It spreads through the air sooooo…….wash your hands? Are you kidding me @NorthumbriaNHS It’s inhaled from the air we breathe in busy nhs clinic waiting rooms and wards. A well fitted respirator would be effective but sure, as long as you wash your hands you won’t catch it 🙄
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Read this Thread if you have 60s Absolutely bang-on reflects my own experiences in UK. Except that extracting Tamiflu (oseltamivir) from GP for elderly patients is not *always* straightforward - although this year GP's *have* been advised to dish it out more actively...
1. As a result of the current high prevalence of influenza and the accompanying media coverage of the spread of the disease, I've been asked about mitigations by a number of friends who take *no precautions against SARS-CoV-2*. A few observations regarding these conversations:
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There have been claims made of vast impurities in covid vaccines ... but, as far as I could see, all these claims came from dubious methods / interpretations This new analysis now seems to confirm that these claims were (essentially) baseless https://t.co/EOrPT7tKZQ
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AFD Blog `USDA: Wisconsin Becomes 18th State to Detect HPAI #H5N1 in Dairy Cattle'
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BA.3.2.2 arrived in Singapore 🇸🇬. Sample collected December 8. EPI_ISL_20278057 🎃
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@Nucleocapsoid @xz_keg @LongDesertTrain @red_loeb That’s what was I was thinking, looking at the antigenic map from @SystemsVirology. XFG is further away from BA.3.2 than NB.1.8.1. So Australians with recent or even lagging disease-acquired immunity would have better protection? https://t.co/UiLoDWix1T
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Embarrassing typo,.. I meant that I was puzzled as to why ⭐RE..1.1⭐ had failed to spread out of Australia. RD.1.1 is of course the weakling cousin (BA.3.2.1).1.1, whose deficiencies are much clearer!
@LongDesertTrain @Mike_Honey_ @snpoehlm @siamosolocani Founder Effect could certainly be real reason RE.2.2 (N: A173V) currently *appears* faster than RE.2.1 (N: T296I) in Europe. But N: A173V seemed beneficial to XBC.1.6.3 in AU? Without European RE's having *some* advantages, I'm bit baffled why RD.1.1 failed to spread out of AU?
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@ParentMishmash @LongDesertTrain @red_loeb @xz_keg I'm unclear WHEN exactly BA.3.2.2 in Western Australia acquired the mutations to become RE.1, and then RE.1.1. @siamosolocani If Australian BA.3.2.2 only acquired advantageous mutations like Orf1a: K3353R to become RE.1.1 *more recently*, then could understand a speed change!
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@meighanstone I haven't heard of any changes. I would expect day 3 & 4 to be most common day of symptom onset after exposure on Day 0. I think the great majority have symptom onset by end of Day 5. https://t.co/IoJukfoFNF
@Engineer_Wong Good luck! I think days 3 & 4 are most common days for symptom onset after exposure on Day 0. Examples from original & omicron strains. https://t.co/frMquQLZhG
https://t.co/ru4Rdd2csQ
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I am apparently at it again...
@LongDesertTrain @red_loeb @xz_keg You guys may be right that founder effects & immune history are the key factors, but my job here is apparently asking dumb questions for public benefit (see elsewhere). So... "Why is RE.1 still not dominant in Western Australia after ~4 months if it has >30% weekly advantage?"
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