Jonathan Eisen
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phylogenomics.bsky.social
Jonathan Eisen
@phylogenomics.bsky.social
32K followers 5.1K following 2.3K posts

Professor at UC Davis

Work: evolution, ecology, function & phylogenomics of host-microbiome systems; #openscience;
Other: #birds; baseball; T1D

Lab phylogenomics.me
Pics jonathaneisen.smugmug.com
Links linktr.ee/jonathaneisen
TED go.ted.com/6WPm .. more

Videos

Jonathan Andrew Eisen is an American evolutionary biologist, currently working at University of California, Davis. His academic research is in the fields of evolutionary biology, genomics and microbiology and he is the academic editor-in-chief of the open access journal PLOS Biology. .. more

Biology 43%
Environmental science 24%
Posts Replies Media Videos
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phylogenomics.bsky.social
Jonathan Eisen @phylogenomics.bsky.social · 4d
Say hello to my little friend #birds
Anna's hummingbird sitting on a crepe myrtle seed pod. Red throat and head are visible. Anna's hummingbird in flight feeding at a lavender flower

Reposted by Jonathan A. Eisen

doyle.boston
Kevin 🍅🥫 @doyle.boston · 10h
Truly one of the more insane things to witness

phylogenomics.bsky.social
Jonathan Eisen @phylogenomics.bsky.social · 10h
Could have climber there - maybe that is Turkey Honnold

phylogenomics.bsky.social
Jonathan Eisen @phylogenomics.bsky.social · 12h
Turkeys can fly? #birds

phylogenomics.bsky.social
Jonathan Eisen @phylogenomics.bsky.social · 21h
Pics from Monday … took 15 or so pics by panning and then stitched with Adobe Lightroom

Reposted by Jonathan A. Eisen

ggronvall.bsky.social
Gigi Gronvall @ggronvall.bsky.social · 21h
This is outrageous, and (though it was completely obvious he should never have held this spot), Vinay Prasad needs to go. This vaccine candidate deserves review, not ideologically motivated rejection. Lives are at stake. www.statnews.com/2026/02/11/m...
Prasad overruled FDA staff to reject Moderna's flu vaccine application
The rejection is the latest instance of Vinay Prasad overruling career FDA scientists to place vaccines under harsher scrutiny.
www.statnews.com

phylogenomics.bsky.social
Jonathan Eisen @phylogenomics.bsky.social · 21h
Panorama of Sacramento from Yolo Bypass #California

Reposted by Jonathan A. Eisen

jaxeducation.bsky.social
JAX Genomic Education @jaxeducation.bsky.social · 1d
JAX Long-Read Sequencing Workshop

Keynotes by @aphillippy.bsky.social & @mydennis.bsky.social

Co-organized by @olgaanczukow.bsky.social, @christinebeck.bsky.social & Mark Adams

✈️ Trainee travel awards
📝 Abstracts due March 3
🥼 Optional wet-lab training session
🔗 www.jax.org/education-an...
Long-Read Sequencing Workshop
The program will involve sessions on Genome Evolution, Genome Regulation, Transcriptomics, Rare Diseases, Common Diseases, and Viral and Microbial Genomes. Committed speakers include Adam Phillipy (NH...
www.jax.org

Reposted by Jonathan A. Eisen

jaxeducation.bsky.social
JAX Genomic Education @jaxeducation.bsky.social · 1d
🧬 WORKSHOP: Explore emerging applications, methodological advances and computational approaches shaping the future of long‑read sequencing: www.jax.org/education-an...

Topics span cancer, rare and common disease, transcriptomics, genome evolution + more

📍 Farmington, CT | 📅 May 11 – 14
Flyer for the Long-Read Sequencing workshop. See event webpage for more information.

Reposted by Jonathan A. Eisen, Scott L. Greer, Smith , and 3 more

enirenberg.bsky.social
Edward Nirenberg @enirenberg.bsky.social · 1d
It is absolutely outrageous that Moderna’s flu vaccine was met with a “refusal-to-file” even after their approved their protocol with FDA and carried out the trial as agreed. This vaccine works better in older adults than the current flu vaccines.

apnews.com/article/mode...
Moderna says FDA refuses its application for new mRNA flu vaccine
The U.S. Food and Drug Administration is refusing to consider Moderna’s application for a new flu vaccine made with mRNA technology.
apnews.com

phylogenomics.bsky.social
Jonathan Eisen @phylogenomics.bsky.social · 1d
I am a huge fan of Lindsey Vonn and have no problem with her racing after the ACL issue. I do think it would be funny if she trolled everyone and said she was hoping to still compete in some events with a fractured leg.

Reposted by Jonathan A. Eisen

jeremymberg.bsky.social
Jeremy Berg @jeremymberg.bsky.social · 1d
Not to make light of a tragic situation, but I have started to refer to the HHS staff who are so obsessed with the pandemic as the “Branch Covidians”…

Reposted by Jonathan A. Eisen

davidenrich.bsky.social
David Enrich @davidenrich.bsky.social · 1d
Jeffrey Epstein directed an aide to procure hidden video cameras in 2014. “I’m installing them into Kleenex boxes now,” the aide replied.
www.nytimes.com/2026/02/10/u...
Epstein Directed Aide to Obtain Hidden Video Cameras
www.nytimes.com

Reposted by Jonathan A. Eisen, Brendan Nyhan, Mark D. White , and 7 more

patdeklotz.bsky.social
Patrick De Klotz @patdeklotz.bsky.social · 2d
We are murdering people and it is basically just background noise at this point. www.nytimes.com/2026/02/09/u...
U.S. Boat Strike Kills 2 in Pacific, With One Survivor
www.nytimes.com

Reposted by Jonathan A. Eisen, Jos Akkermans, James Connelly , and 1 more

cwebbonline.com
Christopher Webb @cwebbonline.com · 2d
🚨BREAKING: Puerto Rico has been part of the United States since 1898, and people still act confused that Puerto Ricans are American.

States that joined after Puerto Rico:
• Oklahoma — 1907
• New Mexico — 1912
• Arizona — 1912
• Alaska — 1959
• Hawaii — 1959

Yet somehow this is still news to folks.

Reposted by Jonathan A. Eisen

marspidermonkey.bsky.social
Michelle A. Rodrigues 🐒 @marspidermonkey.bsky.social · 2d
We already did it for chimpanzees. And it was long overdue. We should have immediately moved the conversation to retiring other primates, but there’s been major hindrances to those efforts.

Reposted by Jonathan A. Eisen

marspidermonkey.bsky.social
Michelle A. Rodrigues 🐒 @marspidermonkey.bsky.social · 2d
I don’t have the energy to read the details about plans to convert the Oregon Primate Center to a sanctuary, but I will say this: we are far overdue for retiring primates used in biomedical research to sanctuaries or other similar retirement care.

phylogenomics.bsky.social
Jonathan Eisen @phylogenomics.bsky.social · 2d
Cool - I will send you a DM in a bit

Reposted by Jonathan A. Eisen

tesspeterson.bsky.social
Tess Peterson @tesspeterson.bsky.social · 2d
We were in no rush and had blocked out the whole day for it, but I think it could easily be done in 3 hours with some pre-planning and streamlined setup. It's nice to be able to have pre-sequenced data on hand so they can see the end product as soon as they 'ship' their samples/finish the protocol.

Reposted by Jonathan A. Eisen

tesspeterson.bsky.social
Tess Peterson @tesspeterson.bsky.social · 2d
I recently took my undergrads through the process of DNA extraction, PCR, and sample prep for metagenomics. (from soil for fungal metagenomics)

It took them 2 hours to extract the DNA, about 30 minutes to start the PCR, and another hour to purify and QC the product (using previous days run).

Reposted by Anna O. Law, Jonathan A. Eisen, Rosemary A. Joyce , and 10 more

schumer.senate.gov
Chuck Schumer @schumer.senate.gov · 2d
Our DHS reform demands are exceedingly reasonable.

We're asking ICE to do nothing more than follow the standards that the vast majority of law enforcement agencies already follow.

Republicans, the ball is in your court. The clock is ticking.

phylogenomics.bsky.social
Jonathan Eisen @phylogenomics.bsky.social · 2d
Do you know if that discusses a lab that could be done in 2-3 hours?

phylogenomics.bsky.social
Jonathan Eisen @phylogenomics.bsky.social · 2d
I am looking for examples of a 2-3 hour lab activity for a course that would allow college students to get some experience connected to environmental DNA studies (e.g., e-DNA, rRNA/ITS PCR, metagenomics, etc). Ideally this would have some DNA extraction and some follow up processing / analysis.

Reposted by Jonathan A. Eisen, Stacie B. Dusetzina, Jean Burgess , and 9 more

runwithskizzers.bsky.social
Preeti Chhibber @runwithskizzers.bsky.social · 2d
omg everybody go draw a horse this is what the internet was made for

gradient.horse
gradient.horse
Draw a horse, watch it run!
gradient.horse

Reposted by Jonathan A. Eisen

thetransmitter.bsky.social
The Transmitter @thetransmitter.bsky.social · 2d
BREAKING: The Oregon Health & Science University board of directors has voted to begin negotiations with the NIH about potentially transitioning the university’s primate research center to a sanctuary for the animals.

By @callimcflurry.bsky.social

#neuroskyence

bit.ly/4a6mycK
Oregon primate center to negotiate transition to sanctuary
The board of directors at Oregon Health & Science University, which runs the primate center, voted unanimously for the move.
bit.ly

Reposted by Jonathan A. Eisen

us.theguardian.com
Guardian US @us.theguardian.com · 2d
Exclusive: Site takes a cut of subscriptions to content that promotes far-right ideology, white supremacy and antisemitism
Revealed: How Substack makes money from hosting Nazi newsletters
www.theguardian.com

Reposted by Jonathan A. Eisen, Richard McElreath, Rafael Candido‐Ribeiro

jrossibarra.bsky.social
Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 2d
Fun news! @gcbias.bsky.social and I are teaching a 2-week online population genetics workshop this summer to raise money for the Center for Population Biology at UC Davis. We're trying to gauge interest -- please fill this out if you might be interested! And please share broadly!
Davis Summer Population Genomics Program
Want to learn population genetics? Please fill out this form to indicate your potential interest in a 2-week intensive online summer population genetics course taught by Jeffrey Ross-Ibarra and Graham...
docs.google.com

Reposted by Jonathan A. Eisen

rabbiariel.bsky.social
Rabbi Ariel Stone @rabbiariel.bsky.social · 2d
I don’t understand. He’s actually a very good bunny.

Reposted by Jonathan A. Eisen, Jesse M. Shapiro

zaminiqbal.bsky.social
Zamin Iqbal @zaminiqbal.bsky.social · 2d
A long time ago in a galaxy far away, there was a SARS-CoV-2 pandemic. Our paper, led by @martibartfast.bsky.social
a) correcting errors in 4.5 million genomes & their phylogeny
b) improving representation of the Global South in public data
www.nature.com/articles/s41...
(thread 1/n)
Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny - Nature Methods
This Resource paper presents a global SARS-CoV-2 phylogenetic tree of 4,471,579 high-quality genomes consistently constructed by Viridian, an efficient amplicon-aware assembler.
www.nature.com

Reposted by Jonathan A. Eisen, Martin Paul Eve, Alan Richardson , and 3 more

npr.org
NPR @npr.org · 3d
For most people, the pandemic days of masking are behind us. In certain corners of the Winter Olympics, though, things still look a lot like they did in Covid times. Some athletes are taking extreme measures to stay healthy. n.pr/4akK70l
Olympic Covid restrictions are gone, but some athletes still self-quarantining
For most people, the pandemic days of masking are behind us. In certain corners of the Winter Olympics, though, things still look a lot like they did in Covid times. Some athletes are taking extreme measures to stay healthy.
n.pr

Reposted by Jonathan A. Eisen, Jesse M. Shapiro, Alan McNally

johnlees.bacpop.org
John Lees @johnlees.bacpop.org · 3d
How do bacterial pangenomes evolve, what controls their dynamics, why do they exist?
Fitting a mechanistic model to 450 species from allthebacteria.org suggesting fast vs slow gene exchange (i.e. amount of MGEs) is a major differentiating factor, correlated with phylogeny rather than lifestyle
Proportion of fast genes, as a trait mapped on the bacteria-wide phylogeny