Jonathan A. Eisen | Lightnews

Jonathan Eisen

@phylogenomics.bsky.social

32K followers 4.9K following 2.3K posts

Prof at #UCDavis

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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Jonathan Eisen @phylogenomics.bsky.social · Dec 2

On this Giving Tuesday I made a donation to @inaturalist.bsky.social for many reasons including:
* I love using their system
* They have done a remarkable job of engaging the world in Nature observations

And if you donate now your donation can be matched.

giving.inaturalist.org/page/FUNATVA...

2X Giving Tuesday Match: Be a Force for Nature

Support iNaturalist on Giving Tuesday and your gift will be matched, dollar-for-dollar, up to $150,000! Your support helps us connect more people to nature, advance critical science and conservation e...

giving.inaturalist.org

Jonathan Eisen @phylogenomics.bsky.social · 4h

THE Indiana University

Jonathan Eisen @phylogenomics.bsky.social · 5h

Great horned owl at the Woodland Regional Park Preserve today. #birds

Reposted by Jonathan A. Eisen

Alex Hoischen @ahoischen.bsky.social · 1d

1,000 PacBio genomes in a prospectively designed clinical utility study.
This was the biggest and most important study that made us go live in diagnostics.

Long-read genomes as a genetic first tier test across many rare diseases!
www.medrxiv.org/content/10.6...

Clinical long-read genome sequencing for rare disease diagnostics

Background Diagnostic evaluation of rare genetic disorders continues to rely on multiple test modalities, despite the increasing use of short-read exome or genome sequencing as first-tier tests. Long-...

www.medrxiv.org

Reposted by Jonathan A. Eisen

BejaLab @bejalab.bsky.social · 1d

Viral theft of light: A cyanophage protein dismantles cyanobacterial photosynthesis to accelerate infection www.sciencedirect.com/science/arti...

Reposted by Andreas J. Bäumler

Jonathan Eisen @phylogenomics.bsky.social · 2d

Leptospirosis outbreak in Berkeley www.sfgate.com/bayarea/arti...

Dangerous bacterial outbreak in Bay Area city sparks health alert

"People may delay seeking medical care because it doesn't feel serious at first."

www.sfgate.com

Jonathan Eisen @phylogenomics.bsky.social · 2d

Great horned owl at the Woodland Regional Park PReserve yesterday #birds

Reposted by Jonathan A. Eisen, Elena Litchman

Pam Ronald @pcronald.bsky.social · 3d

NSF needs to hear from you. Among other points, I suggested: keep politics out of science; stop using the threat of cancelling scientific grants to try to control universities; increase NSF funding for fundamental research. Pls send around. Deadline is January 27. Thanks
www.nsf.gov/od/updates/n...

NSF seeks public input on its Fiscal Year (FY) 2026–2030 NSF Strategic Plan

www.nsf.gov

Jonathan Eisen @phylogenomics.bsky.social · 4d

Worth a read: The Story behind the Science: Preprints of pandemic potential—how bioRxiv and medRxiv brought preprints to the life sciences | mBio journals.asm.org/doi/10.1128/...

The Story behind the Science: Preprints of pandemic potential—how bioRxiv and medRxiv brought preprints to the life sciences | mBio

When we launched medRxiv in mid-2019, we never could have anticipated that just a few months later, New York would be at the epicenter of a rapidly escalating global pandemic, and we would be handling hundreds of papers about a previously unknown virus every week. Articles about bioRxiv and medRxiv preprints would appear on the New York Times front page, and our team worked every waking hour, seven days a week, making rapid decisions about sometimes controversial work and disseminating results of COVID research to millions of readers around the globe. Along the way, we were called dangerous and irresponsible by some, wimps and censors by others, but most in the biomedical community valued the service, and even Anthony Fauci and the head of the WHO called attention to the importance of preprints.

journals.asm.org

Jonathan Eisen @phylogenomics.bsky.social · 7d

Elephant Seals at Point Reyes

So I went to Pt. Reyes this past weekend. And among many things I got to see elephant seals for the first time in my life. They were mesmerizing. I took a lot of pics. Here are some, all from the Drake's Beach area. For some of the "Scenes" I made gifs from a series…

Elephant Seals at Point Reyes

So I went to Pt. Reyes this past weekend. And among many things I got to see elephant seals for the first time in my life. They were mesmerizing. I took a lot of pics. Here are some, all from the Drake's Beach area. For some of the "Scenes" I made gifs from a series of pics to show some motion ... The Big Male Scene1 Scene 2 Scene3 Scene 5 Scene 6 Scene 7 Scene 8 Scene 9 Scene 10 Scene 11 Scene 12 Scene 13 Scene 14 Scene 15 Scene 16 Scene 17 Scene 18 Scene 19 Chimney Rock Area Scene 1 Scene 2 And one bonus seal ...

phylogenomics.me

Jonathan Eisen @phylogenomics.bsky.social · 7d

A well done overview of #ParsimonyGate -(which happened 10 years ago) - see www.youtube.com/watch?v=HeuV... -- in French but with multiple options for subtitles including English

Le Scandale Scientifique du ParsimonyGate

YouTube video by Évoluscope

www.youtube.com

Reposted by Jonathan A. Eisen, Brendan Nyhan, Michael A. Clemens , and 1 more Jonathan A. Eisen, Brendan Nyhan, Michael A. Clemens, David Darmofal

Kyle Cheney @kyledcheney.bsky.social · 7d

JUST IN: Judge Mehta rules that Trump/Russ Vought's termination of environmental grants during the shutdown — targeted solely at states that voted for Kamala Harris — violated the 5th Amendment's Equal Protection clause and orders them restored.

www.documentcloud.org/documents/26...

Jonathan Eisen @phylogenomics.bsky.social · 9d

And here are a few pics

Jonathan Eisen @phylogenomics.bsky.social · 9d

Amazing experience yesterday afternoon at Pt. Reyes where my daughter and I saw three bobcats. I made a gif of a series of pics I took of one of them. More later.

Reposted by Jonathan A. Eisen, Joshua S. Weitz, Jesse D. Berman

Gregg Gonsalves @gregggonsalves.bsky.social · 9d

This is so incredibly heart-breaking. To Jay Bhattacharya and Matthew Memoli at NIH--you have betrayed the entire scientific community. Deeply committed staff are leaving in droves--because you are destroying the institution. Shame on you. www.statnews.com/2026/01/10/n...

The NIH has lost its scientific integrity. So we left

“We can no longer lend our credibility to an organization that has lost its integrity,” write four scientists and administrators who recently resigned from the NIH.

www.statnews.com

Charlotte Clymer @charlotteclymer.bsky.social · 10d

He didn't shoot her in the head at point blank range because he felt like he was in danger. He shot her in the head at point blank range because he was furious that she wasn't afraid of him. He shot her in the head at point blank range because he felt emasculated.

Reposted by Jonathan A. Eisen, Scott L. Greer, Daniel W. Drezner , and 7 more Jonathan A. Eisen, Scott L. Greer, Daniel W. Drezner, W. Andy Knight, Anne Norton, Alfie Kohn, Ian Bruff, Manisha Sinha, Gwénola Ricordeau, Olúfẹ́mi Táíwò

Tim Marchman @timmarchman.bsky.social · 11d

NEW: Jonathan Ross is former National Guard and Border Patrol and has been part of ICE's SWAT equivalent, a team leader overseeing FBI, ATF, and IRS agents, and a firearms instructor, according to testimony obtained by WIRED. This is from @hudsongiles.bsky.social and me:

ICE Agent Who Reportedly Shot Renee Good Was a Firearms Trainer, Per Testimony

Jonathan Ross told a federal court in December about his professional background, including “hundreds” of encounters with drivers during enforcement actions, according to testimony obtained by WIRED.

www.wired.com

Gillian Branstetter @gbbranstetter.bsky.social · 11d

Editorial in the National Catholic Reporter: "The vice president's comments justifying the death of Renee Good are a moral stain on the collective witness of our Catholic faith. His repeated attempts to blame Good for her own death are fundamentally incompatible with the Gospel."

Catholic Vice President Vance takes to social media to justify killing of Renee Good

After the tragic shooting of Renee Good at the hands of ICE, the Catholic vice president of the United States took to social media to justify the killing.

www.ncronline.org

Reposted by Jonathan A. Eisen

Joel Atallah @jatallah.bsky.social · 11d

Eric and Wendy Schmidt will fund the construction of a large exoplanet-hunting space telescope and three highly ambitious ground arrays by 2030. This is the most exciting astronomy news I've heard in my lifetime. www.science.org/content/arti...

Ex–Google CEO funds private space telescope bigger than Hubble

Schmidt Sciences announces investments in orbiting observatory and three ground-based instruments

www.science.org

Reposted by Jonathan A. Eisen, Juliet B. Schor, Magda Teter

Rep. Ted Lieu @reptedlieu.bsky.social · 13d

Today marks 5 years since Trump incited the deadly attack on our Capitol.

Ever since, Trump has tried to downplay January 6, pardoning the rioters who assaulted brave law enforcement officers.

We must continue to defend our democracy and never let this history be erased.

Reposted by Jonathan A. Eisen

petersuber @petersuber.fediscience.org.ap.brid.gy · 13d

"Trump Can’t Cap Overhead Rate on #nih Grants to Research Universities, Appeals Court Rules."
https://www.chronicle.com/blogs/the-trump-agenda/trump-cant-cap-overhead-rate-on-nih-grants-to-research-universities-appeals-court-rules
(#paywalled)

"A federal appeals court on Monday ruled that the […]

Original post on fediscience.org

fediscience.org

Jonathan Eisen @phylogenomics.bsky.social · 14d

Been thinking a lot about the people of Venezuela. I went there in 1989 and it had a major influence on my life in many ways. Here is a pic of me near Pico Bolivar in Mérida. Hoping hoping hoping that things get better for them soon.

Reposted by Jonathan A. Eisen

Tim Straub @timothystraub.com · 14d

It's finally out today in Nature Medicine - a huge shout out to Jess Bryant and the entire Seres team, past and present, on this post hoc analysis of microbiome omics data across all three clinical trials of VOWST (aka SER-109).

Read it here:
www.nature.com/articles/s41...

The impact of an oral purified microbiome therapeutic on the gastrointestinal microbiome - Nature Medicine

An exploratory analysis of the phase 3 ECOSPOR III trial shows that a higher dosage of the oral microbiome therapeutic VOWST led to enhanced pharmacokinetics, increased species engraftment and altered...

www.nature.com

Reposted by Jonathan A. Eisen

Graham Coop @gcbias.bsky.social · 14d

"Record number of 2,100 Chinook salmon have returned to spawn in Putah Creek in Solano County [CA]". Creek that runs through Davis.
www.kcra.com/article/reco...