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Sergey Kryazhimskiy

@skryazhi.bsky.social

Work in progress | Evolution | Ecology | Systems Biology | Experiments | Theory | Running a lab @ucsdbiosciences | http://sklab.science | https://thoughtsforbreakfast.wordpress.com/

301 Posts1636 Follower479 Folgt
Christian Kost@kostchristian.bsky.social · last wk.

Very happy that our paper Obligate cross-feeding of metabolites is common in soil microbial communities just came out in Nature Microbiology. See here 👇 Paywalled version: www.nature.com/articles/s41... Free read-only version: rdcu.be/fBHAb

Obligate cross-feeding of metabolites is common in soil microbial communities - Nature Microbiology

Cultivation-dependent techniques, computational analyses and genome-scale metabolic models show widespread amino acid auxotrophies, suggesting that soil microorganisms exist within integrated ecologic...

nature.com

Erik van Nimwegen@erikvannimwegen.bsky.social · 2w ago

Remember this? bsky.app/profile/did:... Rigorous visualization of the structure in your high-dimensional data. Fantastic work by @dhdegroot.bsky.social With help of the reviewers of Nat Biotech it is now updated, extended an officially published here: www.nature.com/articles/s41... 1/n

Bonsai reconstructs tree representations for distortion-free visualization and exploration of high-dimensional data - Nature Biotechnology

High-dimensional data are visualized through representation on tree structures.

nature.com

Erik van Nimwegen@erikvannimwegen.bsky.social · last yr.

Here it is! Bonsai. Now there is really no more excuse for using t-SNE/UMAP. Bonsai not only makes cool pictures of your data. It actually rigorously preserves its structure. No tunable parameters. Incredible work by @dhdegroot.bsky.social. I'm so excited about this! www.biorxiv.org/content/10.1...

Will Ratcliff@wcratcliff.bsky.social · 4w ago

So, bluesky, where is the discussion of the absolute insane things AI is doing in the realm of mathematics? It seems like we're nearly at the inflection point where the models are as good as human domain experts, and soon may well be better. Is that discourse only happening on twitter?

Megan Behringer@megbehri.bsky.social · 4w ago

New Preprint 🚨: Led by Ph.D student, Ashlynn Bruder, we explore how feast/famine cycles in our LTRS system influence temporal selection on new mutations. Reconstruction of mutations reveals environment-dependent epistasis + increased fitness during both feast and famine conditions. Summary Fig ⬇️

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bioRxiv Evolutionary Biology@biorxiv-evobio.bsky.social · 4w ago

Environment-dependent epistasis shapes adaptation to fluctuating resources. https://www.biorxiv.org/content/10.64898/2026.07.31.742109v1

Elena Litchman@elenalitchman.bsky.social · 4w ago

Interested in doing a postdoc in plankton ecology, on topics of community assembly, trait-based ecological resilience, stressor interactions, harmful algal blooms and others? Contact me to discuss developing a proposal for MSU's EEB Presidential Postdoc Fellowship (Nov 1 application deadline).

Lars Brudvig@lars-brudvig.bsky.social · 4w ago

Join us through the Presidential Postdoctoral Fellowship in EEB! Conduct your own research, mentored by 2+ EEB faculty. $65k salary + research/moving $. All areas of EEB welcome. Apply by 11/1 I co-chair this search and am happy to field questions Spread the word! eeb.msu.edu/initiatives/...

Christian Landry@christianlandry.bsky.social · 4w ago

Our latest contribution on #regulatoryevolution in which we show that the shape of fitness functions and the distribution of mutational effect sizes jointly limit adaptation by regulatory mutations. Led by @simonaube.bsky.social www.nature.com/articles/s41...

The shape of fitness functions and the distribution of mutational effect sizes jointly limit adaptation by regulatory mutations - Nature Ecology & Evolution

Saturation mutagenesis of the FCY1 promoter in budding yeast shows that adaptation to 5-fluorocytosine is not accessible through single cis-regulatory mutations, despite large mutational effects on pr...

nature.com

Chris Adami@chrisadami.bsky.social · 4w ago

Call for Presidential Postdoctoral Fellows in Evolution, Ecology, and Behavior (EEB) is open at Michigan State University. If you are interested in working with me, we can craft a proposal together. careers.msu.edu/jobs/postdoc...

Postdoctoral Scholar-Fixed Term - East Lansing, Michigan, United States

Working/Functional Title Presidential Postdoctoral Fellow Position Summary We encourage applications from candidates in any early career stage, from finishing Ph.D. students to current postdoctoral sc...

careers.msu.edu

Princess Vimentin PhD | Cancer Biologist@princess-vimentin.bsky.social · last mo.

Yaaas! Good news on a Sunday! The senate moves to temporarily ban the OMB proposal that would allow political appointees in charge of approving federal grants, especially #NIH grants. Recall that the OMB rule yielded 500k comments, 95% of them against it. 🧪 www.politico.com/news/2026/08...

Senate finalizes funding patch that would block Trump’s grant overhaul

Language is included to delay the president’s move to put political appointees in charge of grant approval.

politico.com

Carolyn Bertozzi@carolynbertozzi.bskyverified.social · last mo.

We already do this and companies who want them are happy to pay for PhD student interns. Why do precious and limited NSF funds need to be deployed for this? Most PhD student pursue industry jobs anyways - that has always been true. Use NSF funds to support basic science that industry wont support!

Jonathan Wosen@jonathanwosen.bsky.social · last mo.

With academic jobs few and far between, the NSF is testing a new approach to graduate education: Giving Ph.D. students industry experience — and dollars — as part of their training. For more, see my latest for @statnews.com. www.statnews.com/2026/07/29/h...

Arseny Khakhalin@khakhalin.bsky.social · last mo.

Anecdotally Putin's Russia went for a new sweeping wave of repressions. Friends of friends and distant relatives are getting arrested, or warned that they will get arrested within a week, unless they flee abroad. Savings and real estate confiscated. Not sure why, but suddenly cracking down some more

Mediazona English@en.zona.media · last mo.

A Moscow court sentenced science journalist Darya Shipacheva to 12 years for treason. Nobody outside the courtroom knows what she is supposed to have done: the 90-minute trial was closed, and the charges have never been made public. Here’s our report: en.zona.media/article/2026...

Revolving Door Project@revolvingdoordc.bsky.social · last mo.

🚨 The Department of Energy admitted that Russell Vought cancelled hundreds of grants in October 2025 "based solely on the political identity of the grant recipient's state." It is long overdue—Democrats MUST move to impeach Vought, and Blue State Republicans need to answer for their complicity.

Trump Administration Admits Canceling Grants to States That Did Not Vote for Him

Federal officials said in court documents that they halted billions of dollars in funding for energy projects to states “based solely” on whether they backed President Trump in the 2024 election.

nytimes.com

Jenna Norton@jenna-m-norton.bsky.social · last mo.

Another damning admission on the Trump administration’s weaponization of government: the administration terminated grants of perceived political enemies. We all knew this was happening, but the admission and documentation in court is validating. www.nytimes.com/2026/07/24/b...

Trump Administration Admits Canceling Grants to States That Did Not Vote for Him (Gift Article)

Federal officials said in court documents that they halted billions of dollars in funding for energy projects to states “based solely” on whether they backed President Trump in the 2024 election.

nytimes.com

Justin Hendrix@justinhendrix.bsky.social · last mo.

A ‘golden age’ for whom? Cole Donovan argues that White House Office of Science and Technology Policy director Michael Kratsios' new report on the future of American science is cover for reallocating funding to the administration's friends—the big AI firms and hyperscalers.

OSTP Vision for Science is a ‘Golden Age’ for Corporations

"Science: A New Golden Age" tries to reframe the conversation away from the ongoing destruction of American science, writes Cole Donovan.

techpolicy.press

Christopher Webb@cwebbonline.com · 2mo ago

PURE EVIL Stephen Miller’s worldview in one video clip. "I think the ideal solution would be to cut off their fingers. I don't think it's necessary to kill them entirely. We're not a barbaric people. We respect life. Therefore, torture is the way to go. Because tortured people can live.”

Glen Dsouza@nonresidentdesi.bsky.social · 2mo ago

Excited to share that I've been awarded a 5-year NIH MIRA (R35) from the National Institute of General Medical Sciences! The lab is growing! We're recruiting postdocs and research techs interested in microbial ecology, quantitative microscopy, microfluidics, and molecular biology. Please share!

Sergey Kryazhimskiy@skryazhi.bsky.social · 2mo ago

Working on my comment now. This tool is useful, but there is a mistake with at least one paragraph citation. It is §200.461 that refers to publication costs not §200.405.

Maureen Barr@barrlab.bsky.social · 2mo ago

Posted my comments opposing OMBs proposed rule. It was so easy, using this great letter writing tool of @faseborg.bsky.social www.faseb.org/science-poli... Did you submit yours yet? The deadline is soon - July 13. This is essential to save science and research in the US.

I write in my personal capacity as a research-active faculty member, not on behalf of my institution. I am a distinguished professor at a leading state R1 university. I am also a Senior Principal Investigator whose research laboratory is NIH. I submit these comments in strong opposition to OMB's proposed rule revising 2 C.F.R. Part 200 (Docket OMB-2026-0034). I am requesting that OMB withdraw this rule entirely because of the devasting consequences it will have on biomedical research, human health, the economy, and the nation. The proposed pre-issuance review requirement (§ 200.205) eliminates that independence by giving political appointees – who may have no experience or training in the biomedical research field - veto power over peer-reviewed funding decisions. As a Senior PI / Lab director whose research is supported by NIH, I am deeply concerned that the best science will not be funded, instead politicians will decide not based on merit and research quality, but rather ideology. Peer-review is critical for gold-standard science. This proposed discretionary termination provision (§ 200.340) jeopardizes the future and well-being of the researchers in my laboratory, my department, my university, my state, and the United States. My research program has been continuously funded by the NIH for over two decades. My laboratory is like a small business – with NIH funding, I employ eight full-time personnel. These scientists are at all stages of their careers – newly minted bachelors who are working as research technicians or graduate students; postdoctoral researchers who are completing additional training in order to go onto careers in academia, biotech, industry, governments; senior scientists who have devoted their entire careers to biomedical research and training the next generation of scientists, physicians, dentists, teachers, etc. The proposed international collaboration restrictions (§§ 200.202(e), 200.220) will isolate US scientists and lead to the demise…