iiinova — where your digital self keeps evolving

Solid Evidence @solidevidence.bsky.social · 21/09/2026

Every week I get a metagenomic readout of the most elevated viruses from wastewater collected the week before (44 sites). COVID was on the list today for the first time since last winter, along with D68 and a bunch of rhinoviruses.

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Solid Evidence @solidevidence.bsky.social · 16/09/2026

PJ.3.2 seems to be hitting the accelerator. These are the wastewater samples deposited in just the last week where it was present (based on 439K marker).

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Solid Evidence @solidevidence.bsky.social · 16/09/2026

WTH, I think I found a BA.3.2 cryptic (I hope it isn't circulating anyway). Standard RBD + A435F, S438F, P463F. Wonder if that improves ACE2 binding? It was 100% of the sequence from one sewershed. @ryanhisner.bsky.social

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Solid Evidence @solidevidence.bsky.social · 10/09/2026

I picked up a carton of milk from the store this week that had H5N1 influenza in it. >150 million copies/liter! Thankfully, it was safe to drink because the milk was pasteurized, so I’m not saying what brand. Takehome: DON’T DRINK RAW MILK.

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Solid Evidence @solidevidence.bsky.social · 22/08/2026

Cryptic (gain-of-function) lineage update. There are currently 7 cryptic lineages in the US that I consider ‘active’. This is a rundown. Warning, I’m going into the weeds. Nerds only. 1/ bsky.app/profile/soli...

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Solid Evidence @solidevidence.bsky.social · 22/08/2026

Update. I was wrong, the sequence was normal. They just got a one-off really high sample (a hot turd). It happens.

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Solid Evidence @solidevidence.bsky.social · 20/08/2026

I'm off on the next metagenomic curiosity. Can we recover viral sequences from wine? And if so, will they be mostly plant, yeast, or insect viruses? Is there a 'viral terroir'? We shall see; I started with bottles of cheap MO and CA wine. Any predictions?

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Solid Evidence @solidevidence.bsky.social · 20/08/2026

I can finally reveal the rest of our World Cup surveillance. While we were working away on wastewater metagenomics, the other side of lung.fish was on the ground doing air sampling with team Canada. Preprint just out. www.medrxiv.org/content/10.6...

lung.fish

Lungfish

Dedicated to improving environmental surveillance and tackling viruses through innovative detection strategies.

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Solid Evidence @solidevidence.bsky.social · 19/08/2026

Another appearance of the Charlotte variant. A minor branch from last time is dominant this time with the addition of [483A-484V-485S-486A]. bsky.app/profile/soli...

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Solid Evidence @solidevidence.bsky.social · 19/08/2026

Stupid SC2 lineage. SV.2 is surging and it is clogging up one of my cryptic lineage screens.

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Solid Evidence @solidevidence.bsky.social · 18/08/2026

There have been hints of a cryptic lineage from Anchorage for years. Who thinks they finally popped? bsky.app/profile/soli...

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Solid Evidence @solidevidence.bsky.social · 17/08/2026

Someone explain this to me. We detect deer from wastewater throughout the Midwest mostly around November, which is deer hunting season. Except in Madison, where it peaks throughout January. Why?

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Solid Evidence @solidevidence.bsky.social · 14/08/2026

Wastewater update. Warning, I’m going to reveal information about an INDIVIDUAL from wastewater surveillance, and I’m even going to reveal their name without their permission. This is usually frowned upon. 1/

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Solid Evidence @solidevidence.bsky.social · 13/08/2026

The most elevated viruses by wastewater remain parechovirus 6 and coxsackievirus A9, but even those numbers are coming down. What will be the back to school virus this year?

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Solid Evidence @solidevidence.bsky.social · 11/08/2026

We ran a biosecurity drill last week without knowing it. I love solving riddles. 1/ 🧵

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Solid Evidence @solidevidence.bsky.social · 07/08/2026

The Charlotte Gain-of-function lineage is back, last seen in Dec, 2025. It’s from a different sewershed, but same city. Although this is clearly the same lineage as ‘NC-2’, I decided to designation this as ‘NC-3’ on my dashboard so you can see ‘how much it’s grown’. 1/

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Solid Evidence @solidevidence.bsky.social · 06/08/2026

FYI, the most elevated viruses in the US last week were once again Parechovirus 6 and Coxsackievirus A9. Both are elevated nationwide.

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Solid Evidence @solidevidence.bsky.social · 05/08/2026

20 more PJ.2.1 wastewater detections. It's now in all 14 NYC sewersheds plus CA, RI, FL, NC, and 2 Hawaiian islands (Maui and Oahu)

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Solid Evidence @solidevidence.bsky.social · 01/08/2026

11 more PJ.2.1 patient sequences from NYC (shocking, I know). It's like the opposite of BA.3.2; 6 of them are over 75 years old. I wonder if it was an outbreak in nursing home.

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Solid Evidence @solidevidence.bsky.social · 30/07/2026

Coxsackievirus A9 is currently the most highly elevated virus in the US right now. It's elevated in almost every one of our 43 sites. wwwnc.cdc.gov/eid/article/...

wwwnc.cdc.gov

Cardiomyopathy Caused by Coxsackievirus Strain A9 in Previously Healthy Child, Northeastern France, 2024

Cardiomyopathy Caused by Coxsackievirus Strain A9

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Solid Evidence @solidevidence.bsky.social · 30/07/2026

Speaking of gain of function, the Nebraska lineage appeared 3 more times in the last month. The SARS-CoV-2 Spike RBD looks more like a bat Sarbecovirus (RaTG13) than the Nebraska lineage. Think our immune systems would recognize it?

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Solid Evidence @solidevidence.bsky.social · 30/07/2026

Maybe I should call cryptic lineages by a more descriptive name. They are 'Gain of Function lineages', and they are far more dangerous than anything going on in any lab. Do you hear any of these disingenuous blow hards worry about them? I don't think so.

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Solid Evidence @solidevidence.bsky.social · 29/07/2026

COVID lineages are kind of chaos right now. 5 different groups that diverged from each other 1-4 years ago are still in circulation, but nothing shows signs of dominating. This hasn't happened before. XFG* NB.1.8.1* LF.7* BA.3.2* PJ.2.1*

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Solid Evidence @solidevidence.bsky.social · 29/07/2026

Fourteen more PJ.2.1 wastewater detections. It is dominant in many sites. NYC (8), Maui (2). Maine, Virginia, Florida and DC. No obvious uptick in cases in any of these places that I could find though.

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Solid Evidence @solidevidence.bsky.social · 28/07/2026

National Wastewater summary from last week. COVID is low and steady. Rhinoviruses and Parainfluenza 3 are fading. coxsackievirus A9 is most elevated (HFMD?) Paraechovirus 6 is still elevated.

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Solid Evidence @solidevidence.bsky.social · 27/07/2026

Where things stand with COVID. If you look at the normalized numbers for all of our metagenomic sites, the highs were Dec-Jan. Numbers reached all time lows this Spring. Currently the 3-week average is 79% below the all-time average and 96% below winter highs.

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Solid Evidence @solidevidence.bsky.social · 23/07/2026

I just realized something. This week I flew from Missouri to Texas to California to Chicago and now back to Missouri, and every single bathroom along the way was part of our wastewater metagenomics network. I'll have to check in a few days what all I was exposed to.

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Solid Evidence @solidevidence.bsky.social · 23/07/2026

Hah, I thought we just couldn't detect the Cyclospora cayetanensis very well because we hadn't really seen it. But then it showed up in 10 of our metagenomic sites last week. I guess we can detect it. My bad. Keep pooping.

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Solid Evidence @solidevidence.bsky.social · 22/07/2026

10 more PJ.2.1 wastewater detections. Mostly NYC, but also single detections in VT, CT, and FL.

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Solid Evidence @solidevidence.bsky.social · 20/07/2026

Nationwide, COVID wastewater levels are near all-time lows, but the numbers are rising. Does not seem to be driven by any particular lineage. Just FYI.

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Solid Evidence @solidevidence.bsky.social · 18/07/2026

Time for a new episode of wastewater surveillance, Animal edition. We added some sites and made some needed updates to our species dashboard. There are now more than 800 vertebrate species detected. 1/ dholab.github.io/public_viz/0...

dholab.github.io

Composition of Genetic Material in Wastewater

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Solid Evidence @solidevidence.bsky.social · 16/07/2026

New cryptic. I don't see a lot of s2m fixes these days, but one just popped up in Colorado. A very obvious BA.1-derivative, so a 4 year old infection.

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Solid Evidence @solidevidence.bsky.social · 16/07/2026

We passed 3,000 metagenomic samples this week. I need a few hundred more hard drives.

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Solid Evidence @solidevidence.bsky.social · 16/07/2026

6 more sightings this week. 4 from NYC, 1 from Florida and 1 from Alabama. Not explosive, but it has legs. Needs a name.

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Solid Evidence @solidevidence.bsky.social · 10/07/2026

We performed a metagenomic sprint this week. Samples that arrived on Tues were prepped overnight, loaded on a 10B plate Wed (25 h run), and output today. The same summer viruses continue to surge: Parechovirus 6, Rhinovirus A54, Parainfluenzavirus 3 and Coxsackievirus A9.

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Solid Evidence @solidevidence.bsky.social · 08/07/2026

Three more detections of the MC.10.1.7 outlier in NYC sewersheds. Does this have a designation yet? @ryanhisner.bsky.social

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Solid Evidence @solidevidence.bsky.social · 06/07/2026

@ryanhisner.bsky.social I did some scavenging to see if it was in any other sewersheds in the last month. Found 3 more, 2 more from NYC (different sewersheds) and 1 from Utah. I can't say it's taking off, but it moving around pretty quickly.

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Solid Evidence @solidevidence.bsky.social · 05/07/2026

World Cup virus wastewater update. While I wait ‘patiently’ for the sequences from this week (which was supposed to be done already), here is a summary of the 4 lineages that have been on the rise since the games began across our 43 sampling sites. 1/

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Reposted by Solid Evidence

Ryan Hisner @ryanhisner.bsky.social · 04/07/2026

A mysterious, unusually diverse saltation lineage descended from KP.3.1.1 (last seen early 2025) has circulated at a low level for ~8 months in Ontario (see 🧵 on next post). Seemed a local anomaly, but @solidevidence.bsky.social just spied a weird spike in NYC wastewater—& it's the same one! 1/14

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Solid Evidence @solidevidence.bsky.social · 04/07/2026

I was wrong. What I thought was a cryptic lineage from NYC was actually a new highly divergent JN.1 (branched off about a year ago). Probably derived from a persistent infection. BTW, it was in 2 different sewersheds, and the most recent one was 40% of the signal.

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Solid Evidence @solidevidence.bsky.social · 03/07/2026

This is kind of weird. A new cryptic showed up in two different NYC sewersheds this month. Low coverage. RBD piece is: 403K-405N-408S-417N-435S-439N-445P-446T-450D-452K-455S-456L. Also a deletion at 621-622. 1/

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Solid Evidence @solidevidence.bsky.social · 24/06/2026

This is so awesome. Here's a different view of the last 6 months of wastewater metagenomics from 41 sites (color coded by site). We were able to predict the sewershed each sample came from based solely on the virome present with 99% accuracy.

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Solid Evidence @solidevidence.bsky.social · 19/06/2026

First World Cup wastewater metagenomics had nothing out of the ordinary. Parainfluenzavirus 3 and a couple enteric viruses are high (typical for early summer). The most exotic virus we saw was a Largemouth Bass Bunyavirus. Waiting 'patiently' for data from the second plate.

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Solid Evidence @solidevidence.bsky.social · 15/06/2026

Here is the first round of games by host city. Which match will have the most exotic viral pathogen? And what viral family will it be from?

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Solid Evidence @solidevidence.bsky.social · 13/06/2026

Let the games begin. First World Cup wastewater metagenomic plate will be done tomorrow. 43 samples (23 from WC host cities).

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Solid Evidence @solidevidence.bsky.social · 11/06/2026

The good news going into the games is that COVID levels are the lowest they've been since the shutdown in 2020 (at least in Missouri).

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Solid Evidence @solidevidence.bsky.social · 10/06/2026

cryptic lineage aficionados, who can tell me what this means? (collected last month)

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