Rohit V. Pappu @PappulabWashU Twitter profile

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Rohit V. Pappu

@PappulabWashU

4 years

Today Biophysics and Biochemistry lost a giant. Robert Baldwin, known to many as Buzz has passed away. A true scholar, a man associated with so much we know about protein stability & folding, a wonderful teacher, & possibly the kindest, most generous scientist ever.🙏🏿

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Rohit V. Pappu

@PappulabWashU

2 years

We are launching a new center at WashU. The Center for Biomolecular Condensates, the first of its kind. We have an inaugural symposium. Invited speakers are @HymanLab @brangwynnelab @GladfelterLab Mike Rosen, @LabStrader @KnowlesLabCamb Matt Tirrell, & our own Helen McNeill.

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Rohit V. Pappu

@PappulabWashU

3 years

For those who are interested, here is a link to slides from the Biophysics 101 talk given at #bps2022 . Hope these are useful, at a minimum for catalyzing discussions among yourselves or raising / answering questions.

BPS-101-2022-talk.pdf

drive.google.com

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Rohit V. Pappu

@PappulabWashU

4 years

#QuantitativeAndRigorousPS papers created in response to pings asking that I list papers that represent "quantitative & rigorous work" in the field of intracellular phase transitions. I indicated there were numerous, but challenge seen, challenge accepted 👇🏿

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Rohit V. Pappu

@PappulabWashU

7 months

Out in Cell today, @MattKingLab 's magnum opus work. This work highlights interphase physico-chemical properties generated by condensation - a process that combines phase separation, reversible binding, & percolation. Our target was the nucleolus (1/19)

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Rohit V. Pappu

@PappulabWashU

2 years

26 years later, & the cup continues to runneth over… @wagstl ♥️

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Rohit V. Pappu

@PappulabWashU

2 years

99.999/100 papers conflate ALL phase transitions as LLPS 😢. Phase separation, a segregative density transition, has many forms XYPS; XY could be LL, LS, LLC, etc. Irrespective of the prefix, PS implies separation into 2 phases. 👉🏿👉🏿PS processes ignore specific interactions 1/3

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Rohit V. Pappu

@PappulabWashU

2 years

Season 2 of the Condensate Colloquium Series gets underway in September. We will convene, via zoom, on Tuesdays (see dates) at 16:00 in central Europe, 15:00 in the UK, 10:00 US-ET. More details will follow. We are excited about the lineup & look forward stimulating discussions.

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Rohit V. Pappu

@PappulabWashU

3 years

What Deep Mind (left) says about polyQ vs. what years of experiments and our simulations (right) (one of the representative snapshots from a rather large ensembles) tell us about polyQ.😟 for science.

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Rohit V. Pappu

@PappulabWashU

4 years

Out today.

Ligand effects on phase separation of multivalent macromolecules | PNAS

Biomolecular condensates enable spatial and temporal control over cellular processes by concentrating biomolecules into nonstoichiometric assemblie...

www.pnas.org

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Rohit V. Pappu

@PappulabWashU

3 years

Out today in Nature Chemistry. Our work driven by Anne Bremer, Mina Farag, & Wade Borcherds - collaboration with @TanjaMittag uncovering hidden complexities in "low complexity domains" & anchoring concepts of stickers vs. spacers. Stay tuned for more …

Deciphering how naturally occurring sequence features impact the phase behaviours of disordered...

Nature Chemistry - The complex link between protein sequence and phase behaviour for a family of prion-like low-complexity domains (PLCDs) has now been revealed. The results have uncovered a set of...

www.nature.com

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Rohit V. Pappu

@PappulabWashU

2 years

We are now the Center for Biomolecular Condensates in the McKelvey School of Engineering at WashU. So grateful to @HymanLab , @brangwynnelab , @GladfelterLab , @LabStrader , @KnowlesLabCamb , Mike Rosen, Matt Tirrell for AMAZING talks to launch us. Stay tuned for more from WashU_CBC

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Rohit V. Pappu

@PappulabWashU

3 years

@SPP2191 , @GladfelterLab , Julia Mahamid, Simon Alberti, & @PappulabWashU are thrilled to announce the schedule & lineup of speakers for year 1 of the virtual, bi-weekly Condensate Colloquium Series. We start on July 06, 2021. @SPP2191 will post the zoom link. Please retweet!!!

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Rohit V. Pappu

@PappulabWashU

2 years

We have a special panelist event in the condensate colloquium series, Oct. 25th. Each panelist will be given 10 minutes. This will be broken up into 5 minutes to make a presentation of their choosing. The panelist will field questions for 5 minutes from the audience or moderators

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Rohit V. Pappu

@PappulabWashU

4 years

Yamuna Krishnan elected 2020 fellow of AAAS for "the development of DNA-based fluorescent reporters and quantitative imaging of the ionic and chemical contents of sub-cellular organelles in live cells and animals." Congratulations @KrishnanYamuna !!! An honor very well deserved.

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Rohit V. Pappu

@PappulabWashU

2 years

@TanjaMittag & I were given the opportunity by @RLEccles to contribute a peer-reviewed perspective on phase separation to provide conceptual clarity & address specific challenges that have arisen recently. Please see available online in Molecular Cell:

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Rohit V. Pappu

@PappulabWashU

4 years

Happy Diwali to one and all. Light conquers darkness, knowledge bests ignorance. Love is the only answer.

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Rohit V. Pappu

@PappulabWashU

2 years

Congratulations @brangwynnelab & @HymanLab named as recipients as the of 2023 Breakthrough Prize in the Life Sciences for a new mechanism of cellular organization. Wonderful news. 🎉🎉😍

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Rohit V. Pappu

@PappulabWashU

4 years

Numerous papers in the field, written by serious scholars, check every box on quantitative rigor. Might be useful to read the primary literature & avoid stirring up faux debates with words like "sloppy, "shoddy" & "bunk". This is science, not a circus.

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Rohit V. Pappu

@PappulabWashU

4 years

Developmental Cell commissioned a set of reviews on the topic of phase transitions in biology. Julie Sollier recruited young PIs, outside the group of usual suspects. Seven wonderful reviews absolutely worth a read. And here's my take:

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Rohit V. Pappu

@PappulabWashU

3 years

Thrilled to share that we will convene on March 15th as part of the Condensate Colloquium Series. @brangwynnelab will connect viscoelasticity (😍) to function. @DoraTang5 will provide new insights on the design of synthetic coacervates. Join us & tell your friends.

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Rohit V. Pappu

@PappulabWashU

4 years

On this day, 12/07/1996/24 years ago!!!! @wagstl forever!

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Rohit V. Pappu

@PappulabWashU

3 years

One last comment on the AlphaFold topic. Quite a few biologists seem to care about disordered regions in their favorite proteins; so, thinking about disorder isn't a waste of time. Might actually be worth it to build a career around the study of IDPs. 👀 @IDPseminars , @idpsig

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Rohit V. Pappu

@PappulabWashU

3 years

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Rohit V. Pappu

@PappulabWashU

11 months

Out today, our work with @GladfelterLab showing that timing matters in terms of generating compositionally distinct aka "demixed" condensates featuring distinct RNAs & shared proteins.

Dynamical control enables the formation of demixed biomolecular condensates

Nature Communications - In this work, the authors report that protein-RNA condensates with shared proteins and distinct RNAs can form and persist in vitro and in cells as distinct entities if the...

www.nature.com

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Rohit V. Pappu

@PappulabWashU

4 years

Stickers and spacers, more than just disorder. And proteins are polymers. Just sayin!!!

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Rohit V. Pappu

@PappulabWashU

2 years

Just published: our work on phase separation driven by interactions among unfolded proteins (giving rise to "UPODs"). Sticker grammar determines driving forces for UPODs formation & composition. A wonderful collaboration with @DannyHatters

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Rohit V. Pappu

@PappulabWashU

3 years

I've got 4 hours & 55 minutes of Lata Mangeshkar songs to keep my company today as I work on an endless To Do list. Any fond memories of growing up in India are associated with her voice & the melodies she sang with Mohammad Rafi & Kishore Kumar.

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Rohit V. Pappu

@PappulabWashU

3 years

Been a while since I taught a brand new course. Looking forward to this with a combination of excitement, expectation & trepidation. Senior / Graduate Level course entitled: "Physics of Biopolymers".🤞🏿Teaching in person while masked.

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Rohit V. Pappu

@PappulabWashU

3 years

Next up in the condensate colloquium series are two dear friends & serious scholars @TanjaMittag & @alexholehouse . It promises to be a P. Chem. fest!! Tanja & Alex are slated to speak on August 31, 2021. 16:00 CEST, 15:00 +1GMT, 10:00 EDT…Please join us & please share.

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Rohit V. Pappu

@PappulabWashU

2 years

August is almost over, September is upon us, which means the start of season 2 of the condensate colloquium series will get underway soon. Start date is September 09, 2022. Here is the schedule. Note the special event on October 25th. Do join us & do spread the word.

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Rohit V. Pappu

@PappulabWashU

3 years

Greetings from the Condensate Colloquium Series organizers & @SPP2191 . We will take a break & restart the series on January 04, 2022. We will kick things off with @LeventalLab & @DimpleNotani . 👇🏿program for the first half of 2022. Lots of young scientists🌱with exciting results.

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Rohit V. Pappu

@PappulabWashU

3 years

Natasha Merchant-Pappu is 60 today!!! @wagstl advocate for justice, writer, thinker, gardener, mother, & wife - all things extraordinaire!!! Happy birthday dearest!!!

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Rohit V. Pappu

@PappulabWashU

3 years

We have two terrific speakers lined up for the CCS talks on Tue, Jan 18th. Learn statistical physics from one of the original masters, Eugene Shakhnovich & all about condensates in stress response from one of the pioneers in the field, Simon Alberti. Spread the word! @SPP2191

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Rohit V. Pappu

@PappulabWashU

3 years

Yale has a new recruit from the family. Our beloved daughter @MinervaPappu will join this summer as a post-graduate fellow in Developmental Neuroscience. Minerva will soon graduate from WashU with degrees in Physics & Neuroscience. Congrats Min!!! @wagstl

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Rohit V. Pappu

@PappulabWashU

2 years

We detailed the concepts of Coupling Of Associative & Segregative phase Transitions (COAST) for multivalent biomacromolecules. We hope this will be seen as rigorous & pedagogically useful. We also responded to critiques of phase separation in cells.

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Rohit V. Pappu

@PappulabWashU

1 year

We are pleased to announce the lineup of speakers for season 3 of the condensate colloquium series. Condensates in plants, fungi, & bacteria will be featured as will mammalian cells & biophysics. To subscribe to the mailing list please visit:

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Rohit V. Pappu

@PappulabWashU

3 years

Totally chuffed that this is now out on bioRxiv. @MrityunjoyK asked if sub-saturated solutions of phase separating proteins follow expectations from classical nucleation theory & pure phase separation described by a single energy scale (the Flory Chi) 1/8

Phase separating RNA binding proteins form heterogeneous distributions of clusters in subsaturated...

Macromolecular phase separation is thought to be one of the processes that drive the formation of membraneless biomolecular condensates in cells. The dynamics of phase separation, especially at low...

www.biorxiv.org

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Rohit V. Pappu

@PappulabWashU

1 year

It is that time of the year, when we formally celebrate the accomplishments of our PhD students. Congratulations Dr. Furqan Dar, PhD in Physics & lead developer of ideas pertaining to the phase transitions of associative polymers. Mubarak baad @FarquadDar

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Rohit V. Pappu

@PappulabWashU

2 years

We are recruiting 2 or more postdocs for the lab; Looking for an experimentalist with a strong record of work in vitro & others who play to our strengths in theory (statistical / polymer physics) & multiscale computations. Join us in a stimulating & collegial environment @ WashU

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Rohit V. Pappu

@PappulabWashU

3 years

The condensate colloquium series gets underway on July 06, 2021. Please join us for exciting presentations & vibrant discussions on the topic of intracellular phase separation & condensates. We kick things off with Julia Mahamid and Amy Gladfelter ( @GladfelterLab )

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Rohit V. Pappu

@PappulabWashU

3 years

Why do reviewers think they are gods? The privilege of anonymity is used to ridicule & launch ad hominem attacks questioning everything from one's scholarship to rigor to intent. Minimize yourself, accept the possibility that you might be wrong, & stop with stentorian lectures.

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Rohit V. Pappu

@PappulabWashU

2 years

No matter how hard I try, I cannot get him to understand what I am saying - or so it seems by all that head scratching 😁 @alexholehouse

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Rohit V. Pappu

@PappulabWashU

5 years

Three back-to-back-to-back papers in Cell, one from @brangwynnelab led by @DavidWSanders2 , one from Paul Taylor's lab , and one from the Alberti lab involving us @PappulabWashU

RNA-Induced Conformational Switching and Clustering of G3BP Drive Stress Granule Assembly by...

Reconstitution of stress granule assembly reveals an autoinhibitory conformation of G3BP that is alleviated by RNA binding, demonstrating how this central node of the stress granule network phase-s...

www.cell.com

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Rohit V. Pappu

@PappulabWashU

2 years

It has been a very long while since we had a group picture taken. Lab has grown a tad since the last picture was taken. Lucky to work with this lovely team of scholars. Physics, ChemE, Biochemistry, Biophysics, CS, & Math all represented in this group. Happy to add newbies!!

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Rohit V. Pappu

@PappulabWashU

5 years

Taking down the trope that phase separation is purely an IDP-driven phenomenon. Cool paper, worth a very close read, by Ned Wingreen and colleagues:

Rigidity enhances a magic-number effect in polymer phase separation

Nature Communications - The phase separation of two species of associating polymers is suppressed by a magic-number effect for certain combinations of the numbers of binding sites. Here the authors...

www.nature.com

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Rohit V. Pappu

@PappulabWashU

4 years

The leading labs in single molecular FRET have gotten together to establish common standards for measuring and interpreting smFRET data. Likely to become a must read for all labs.

The FRET-based structural dynamics challenge -- community...

Single-molecule Förster resonance energy transfer (smFRET) has become a mainstream technique for probing biomolecular structural dynamics. The rapid and wide adoption of the technique by an...

arxiv.org

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Rohit V. Pappu

@PappulabWashU

3 years

Come one, come all! Julia Mahamid, @GladfelterLab , Simon Alberti & I are thrilled to co-organize a one-of-a-kind Condensate Colloquium Series (CCS). We will get underway on July 06, 2021. The program to be posted shortly will feature a fantastic lineup across the spectrum

SPP2191 - Mol. Mech. of Funct. Phase Separation

@SPP2191

3 years

Happy to announce that a new virtual Condensate Colloquium Series (CCS) will get underway as of Tuesday July 06, 2021 - be invited to join! Visit to find more info soon.

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Rohit V. Pappu

@PappulabWashU

3 years

Are Gly-rich tracts always spacers? And why are there so few long poly-Gly tracts? FUS has three of bona fide poly-Gly tracts. Why might this be relevant? This collaborative work driven by @MrityunjoyK in the @HymanLab & our lab helps shed some light.

Glycine-Rich Peptides from FUS Have an Intrinsic Ability to Self-Assemble into Fibers and Networked...

Glycine-rich regions feature prominently in intrinsically disordered regions (IDRs) of proteins that drive phase separation and the regulated formation of membraneless biomolecular condensates....

pubs.acs.org

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Rohit V. Pappu

@PappulabWashU

2 years

Published today in PNAS. @min_shinn 's work on the molecular basis of autoregulation enabled by the disordered C-terminal tail of the bacterial protein FtsZ. Initiated by @megcoh_bio , this work in collaboration with @PetraLevin is an evolutionary first:

Connecting sequence features within the disordered C-terminal linker of Bacillus subtilis FtsZ to...

Intrinsically disordered regions (IDRs) can function as autoregulators of folded enzymes to which they are tethered. One example is the bacterial c...

www.pnas.org

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Rohit V. Pappu

@PappulabWashU

4 years

This is a beauty!!! One by one, the oft-quoted pronouncements regarding intrinsically disordered proteins take a tumble. I am loving this nuance, complexity, and the dizzying array of possibilities. Congratulations Hoi Sung.

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Rohit V. Pappu

@PappulabWashU

2 years

And October 14, 2022 is here! Happening today, the launch of our new center. The symposium will be recorded and made available once the event is done. Excited to hear from THE leaders in / of the field. If you are within driving distance, come on over. No registration needed.

Rohit V. Pappu

@PappulabWashU

2 years

We are launching a new center at WashU. The Center for Biomolecular Condensates, the first of its kind. We have an inaugural symposium. Invited speakers are @HymanLab @brangwynnelab @GladfelterLab Mike Rosen, @LabStrader @KnowlesLabCamb Matt Tirrell, & our own Helen McNeill.

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Rohit V. Pappu

@PappulabWashU

3 years

Happy New Year Everyone!!! Let's hope for a better tomorrow & let's continue to adapt, together, to adapt & take on sustained challenges on all fronts. We are still kicking, & that is an enormous gift during these trying times. Best wishes to all!!!

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Rohit V. Pappu

@PappulabWashU

3 years

The following "crash course" might be of interest to people. Note that registration (free) is required to participate. Speakers include @brangwynnelab , @GladfelterLab , @TanjaMittag , @PappulabWashU & Ned Wingreen. Should be interesting.

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Rohit V. Pappu

@PappulabWashU

3 years

Condensates at #bps2022 Biophysics 101: Liquid-Liquid Phase Separation: Biophysical Fundamentals to Cellular Function The session will start with Rohit Pappu, Next, Alexsandra Zidovska, Finally, Gary Karpen

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Rohit V. Pappu

@PappulabWashU

7 months

A lovely opportunity to catch up & brainstorm with friends & colleagues including @brangwynnelab @TanjaMittag @BanerjeeLab_UB & Bryan Gibson at the meeting of St. Jude collaboratives. Thank you @StJude . New paths paved & old ideas revised & rebooted.

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Rohit V. Pappu

@PappulabWashU

2 years

In Cambridge (my favorite place of them all) with the amazing young condensate brigade ( @rcollepardo , Ritwick Sawarkar, Alex Brodavka) & established minds, the peerless @KnowlesLabCamb & @LauraItzhaki . Learning so much from each of these amazing scientists.

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Rohit V. Pappu

@PappulabWashU

3 years

Condensate Colloquium Series - See you tomorrow. We kick things off with talks by Amy Gladfelter & Julia Mahamid. Meeting ID: 890 2371 1846 Passcode: 208622 @SPP2191

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Rohit V. Pappu

@PappulabWashU

4 years

bioRxiv is invaluable and continues to transform the publishing landscape. Scientists fully support bioRxiv; it is now time for this effort to be supported by tax-payer funded scientific agencies around the world so it can sever connections with Zuckerberg.

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Rohit V. Pappu

@PappulabWashU

1 year

With the spotlight shining brightly on mRNA, & rightly so, this paper that appeared in Cell last week is both timely & a must-read. Condensates provide a way to buffer against increased mRNA levels. Fascinating findings!

Self-demixing of mRNA copies buffers mRNA:mRNA and mRNA:regulator stoichiometries

The compaction of same-sequence repressed mRNAs into homotypic nanoclusters within heterotypic macro-condensates enables dynamic and selective storage, in which individual mRNAs respond to changing...

www.cell.com

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Rohit V. Pappu

@PappulabWashU

4 years

How do ligands affect phase separation? Revisiting polyphasic linkage, uncovering some surprises, especially with regard to partition coefficients. The work of Kiersten Ruff and Furqan Dar, now on bioRxiv.

Ligand Effects on Phase Separation of Multivalent Macromolecules

Biomolecular condensates are thought to form via phase transitions of multivalent macromolecules. Components of condensates have been classified as scaffolds and clients . In this classification,...

www.biorxiv.org

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Rohit V. Pappu

@PappulabWashU

3 years

I enjoy learning about scholarly work. I tweet to celebrate the accomplishments & discoveries of young scholars, the unseen, & the unheard. I highlight what tickles my scientific imagination. My tweets, my rules! For rigorous scientific debates email me or ask for a zoom call 🙂

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Rohit V. Pappu

@PappulabWashU

3 years

@TanjaMittag scientist extraordinaire, a good friend and wonderful collaborator has been promoted to the status of full Member at @StJudeStructBio . Congratulations Tanja!!!

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Rohit V. Pappu

@PappulabWashU

6 months

Out today, our work with @kriwacki , where @FarquadDar & Sam Cohen show that nucleolar GCs have structural & dynamical properties of network fluids formed by complexing of NPM1-like molecules with rPeptides. Provides a structural basis for viscoelasticity.

Biomolecular condensates form spatially inhomogeneous network fluids

Nature Communications - Here, the authors use small angle neutron scattering and coarse-grained molecular dynamics simulations to demonstrate that condensates based on the granular components of...

www.nature.com

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Rohit V. Pappu

@PappulabWashU

3 years

@janhjensen Sorry, this is reviewer autocracy. It is an abuse of the privilege to be a reviewer. Make a recommendation to the authors. Offer input to the editor. This type of outright rejection is unjustified, & I am sorry to note, abusive.

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Rohit V. Pappu

@PappulabWashU

3 years

The condensate colloquium series resumes on Tue, March 29, 2022. Our speakers who will present exciting new stories are @dallandrummond & @Castaneda_lab . Please join us & spread the word. No time zone snafus this time around. 🙂. For more info see:

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Rohit V. Pappu

@PappulabWashU

1 year

Out today, @MinaFaragSci 's beautiful work showing the consequences of the interplay between homotypic & heterotypic interactions on the phase behaviors of mixtures of prion-like low complexity domains. Some very nice heuristics & even rules emerge.

Phase separation of protein mixtures is driven by the interplay of homotypic and heterotypic...

Nature Communications - Mixtures of prion-like low complexity domains (PLCDs) are found in condensates such as stress granules. In this work, the authors report how the interplay between homotypic...

www.nature.com

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Rohit V. Pappu

@PappulabWashU

3 years

Some articles are so far ahead of their time!!! Urge a re-read of this classic from Görlich. Phase separation AND percolation (not just chi-based LLPS) is the right framework for associative polymers. Frey et al., even touch upon stickers & spacers. 😍

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Rohit V. Pappu

@PappulabWashU

2 years

Out today, collaborative work spearheaded by Yifan Dai from the labs of Lingchong You & Tosh Chilkoti at Duke. Distinct synthetic circuits were designed using condensates in bacterial & mammalian cells. @AFOSR funded collaboration.

Programmable synthetic biomolecular condensates for cellular control

Nature Chemical Biology - Dai et al. present a streamlined approach for the design and engineering of synthetic biomolecular condensates for controlling different cellular processes, such as gene...

www.nature.com

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Rohit V. Pappu

@PappulabWashU

3 years

We are thrilled to resume the Condensate Colloquium Series with talks by two savants @KnowlesLabCamb & @weber_lab . Please join us on Tuesday, March 1, 2022 to hear the latest insights on phase transition kinetics & about condensates in bacteria. Spread the word!! @SPP2191

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Rohit V. Pappu

@PappulabWashU

2 years

Our work describing the internal structure & interfacial properties of condensates formed by prion-like low complexity domains has just been published. Beautiful work by @MinaFaragSci , Sam Cohen, & a continuing collaboration with @TanjaMittag

Condensates formed by prion-like low-complexity domains have small-world network structures and...

Nature Communications - The authors provide a physical description for condensates as complex fluids defined by small-world network structures for their interiors, and of interfaces featuring a...

www.nature.com

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Rohit V. Pappu

@PappulabWashU

10 months

Happy New Year to Everyone! The condensate colloquium series returns on January 9th with two talks, one by @LindsayCase19 & the other by Ben Schuler. You won't want to miss these talks. Details on how to join us may be found at: . @SPP2191 @WashUengineers

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Rohit V. Pappu

@PappulabWashU

4 years

Congratulations to my dear friends Tony Hyman @HymanLab and Mike Rosen on their election to the US National Academy of Sciences. A wonderful honor to two very deserving gentlemen. And of course, Lewis Kay and Rob Tycko. Class of 2020 is smashing!

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Rohit V. Pappu

@PappulabWashU

3 years

Can a drug that essentially acts as a cross-linker to enhance hardening of a condensate be a useful anti-viral? This work demonstrates the importance of material properties of condensates & ways to alter these properties. The target is IBs formed by RSV.

A condensate-hardening drug blocks RSV replication in vivo

Nature - Cyclopamine and its chemical analogue A3E inhibit replication of human respiratory syncytial virus (RSV) by hardening the liquid–liquid phase-separated inclusion bodies, resulting in...

www.nature.com

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Rohit V. Pappu

@PappulabWashU

4 years

Congratulations @brangwynnelab , @HymanLab and Mike!!! An important recognition of transformative contributions from each of you.

Current Protocols

@Curr_Protocols

4 years

Join us tomorrow for the 19th Wiley Prize in Biomedical Sciences, to learn about "Intracellular compartmentalization through phase-separated condensates" from awardees @brangwynnelab , @HymanLab , & Michael Rosen. Register here:

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Rohit V. Pappu

@PappulabWashU

4 years

In one word, WOW! 😍 Was spellbound when I first saw Anatol present these data almost two years ago. The story has only gotten better. Thermodynamics - alive and well, even in living cells. Stat mech, thermo, & cricket, the true joys of life.

Local thermodynamics governs the formation and dissolution of protein condensates in living cells

Membraneless compartments, also known as condensates, provide chemically distinct environments and thus spatially organize the cell. A well-studied example of condensates is P granules in the...

www.biorxiv.org

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Rohit V. Pappu

@PappulabWashU

2 years

Look who I ran into in my office today! Was great fun hosting Jitu Mayor @jitumayor_lab for an intense & all too short visit. Learned so much about active emulsions & methods to make sense of non-equilibrium phase transitions in live cells. The board got filled with ideas

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Rohit V. Pappu

@PappulabWashU

3 years

“Is your glass half empty or half full?” asked the mole “I think I am grateful to have a glass” said the boy - From "The Boy, the Mole, the Fox and the Horse" By Charlie Mackesy Feeling like the boy as I think about all that's happening around us, especially in India.

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Rohit V. Pappu

@PappulabWashU

3 years

Are protein charge states fixed in solution? No. Using potentiometry we can measure net charge as a function of pH, & now we can infer the ensemble of charge states using the q-canonical ensemble developed by Martin Fossat. Do read, & give us your critique

Quantifying charge state heterogeneity for proteins with multiple ionizable residues

For proteins with multiple ionizable residues, the canonical assumption is that ionization states of residues are fixed by their intrinsic pKa values. However, several studies have shown that...

www.biorxiv.org

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Rohit V. Pappu

@PappulabWashU

2 years

The condensate colloquium series resumes on Tuesday, Apr 26th. Our speakers will be Jim Shorter @ShorterLab & Huaiying Zhang @lab_zhang . The focus will be on phase separation in ALS & cancer. Join us & spread the word!!! Friends don't let friends miss CCS talks!!!

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Rohit V. Pappu

@PappulabWashU

3 years

Happy Diwali Everyone 🪔 The condensate colloquium series resumes on Tue, Nov 09 featuring Christoph Weber & Geraldine Seydoux ( @Seydouxlab ). Theory at the cutting edge followed by deep observations regarding P-granules. You won't want to miss this - do tell your friends 🙂

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Rohit V. Pappu

@PappulabWashU

3 years

The next talks as part of the Condensate Colloquium Series are scheduled for Tue, Sep 14, 2021. We are super chuffed to lead off with "the man" himself Tony Hyman ( @HymanLab ) followed by Arnaud Hubstenberger. Come one, come all, & please share this info. @SPP2191 .

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Rohit V. Pappu

@PappulabWashU

3 years

Important paper from M. Muthukumar, doyen of Polymer Physics . Das & Muthu show that alpha-synuclein-like molecules do not undergo macroscopic phase separation. Instead, they form micro-phases that are cross-linked into percolated networks. PS++ anyone!!

Microstructural Organization in α-Synuclein Solutions

We have investigated the structural evolution in solutions of the intrinsically disordered protein, α-synuclein, as a function of protein concentration and added salt concentration. Accounting for...

pubs.acs.org

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Rohit V. Pappu

@PappulabWashU

3 years

What happens to unfolded states of globular proteins? Unfolded protein deposits (UPODs) form via phase separation. Driving forces are combination of protein destabilization AND sticker valence. Chaperones dissolve UPODs via polyphasic linkage.

Sequence grammar underlying unfolding and phase separation of globular proteins

Protein homeostasis involves regulation of the concentrations of unfolded states of globular proteins. Dysregulation can cause phase separation leading to protein-rich deposits. Here, we uncover the...

www.biorxiv.org

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Rohit V. Pappu

@PappulabWashU

2 years

We ( @MinaFaragSci ) show that condensates of disordered PLCDs have inhomogeneous network structures. Conformations are most expanded at the "fat" interface & most compact in the dilute phase. Highlights how viscoelasticity originates from network structure

Condensates of disordered proteins have small-world network structures and interfaces defined by...

The formation of membraneless biomolecular condensates is driven by macromolecules with sticker- and-spacer architectures that undergo phase separation coupled to percolation (PSCP). Driving forces...

www.biorxiv.org

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Rohit V. Pappu

@PappulabWashU

3 years

An update regarding the condensate colloquium series. We have decided to record talks if the speaker gives us consent to do so. The recorded talks will be available via a server (details TBA) a week after the talk, for a period of 6 months. We hope this increases the reach of CCS

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Rohit V. Pappu

@PappulabWashU

4 years

To all my desi and non-desi academic sisters, brothers, friends, and family @wagstl , @MinervaPappu @frettinglab , @Shoba_Bio @madamscientist , @arthijayaraman , @RangamaniUCSD , @KrishnanYamuna , @TanjaMittag , @KayTrue , @alexholehouse time to celebrate with a south Indian feast!

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Rohit V. Pappu

@PappulabWashU

1 year

A privilege to catch up with my good friend & scientific mentor Jane Clarke @ProfJaneClarke . Congratulations Jane on your election to the NAS & so lovely to see you in person.

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Rohit V. Pappu

@PappulabWashU

4 years

My dear friends Doug Barrick and @TanjaMittag are recipients of the Emily Gray and Baranay awards, respectively. Overjoyed and HUGE congratulations!!! The peerless Greg Voth receives the innovator award. Congrats to the awesome awardees - well done BPS!!!

Biophysical Society Bulletin | October 2020

Animated publication

biophysics.cld.bz

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Rohit V. Pappu

@PappulabWashU

3 years

We read about the triumphs & failures of "Indian / Chinese / European / British /American … science". Good science is driven by data, discovery, reproducibility, & critical thinking. It does not carry a passport & should not be associated with a nation state or particular group.

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Rohit V. Pappu

@PappulabWashU

1 year

We are pleased to announce that season 3 of the condensate colloquium series will get underway on Sep 19th. Please join us to hear Yaniv Elkouby & @LeeBioPhysics . For details of the zoom link & to join the CCS mailing list, please visit:

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Rohit V. Pappu

@PappulabWashU

2 years

We reconvene for the condensate colloquium series talks on Tuesday May 24th. Our speakers are Arup Chakraborty from MIT who will tell us about transcriptional condensates & @ArosioLab_ETH from ETH who will tell us about condensates & amyloids. Please join us!!! @SPP2191

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Rohit V. Pappu

@PappulabWashU

4 years

Check out our latest collaborative effort with @TanjaMittag . We uncover hidden complexities in phase transitions encoded by prion-like low complexity domains. Insights from synergies among experiment, theory, computation, & informatics. Lots of surprises!

Deciphering how naturally occurring sequence features impact the phase behaviors of disordered...

Phase separation of intrinsically disordered prion-like low-complexity domains (PLCDs) derived from RNA-binding proteins enable the formation of biomolecular condensates in cells. PLCDs have distinct...

www.biorxiv.org

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Rohit V. Pappu

@PappulabWashU

2 years

Reviewers' comments & decisions can feel like the product of an unknown agenda, limited scholarship, & abuse of power. Accepting this without dwelling on the hurt helps one get back up after each knock. Being the change we want to see in reviewers is the only healthy response.

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Rohit V. Pappu

@PappulabWashU

4 years

Arg & Lys are non-equivalent drivers of phase separation & as modulators of IDP conformations ( @ProteinMagnus ). Acidic tracts aren't mirrors of basic tracts in IDPs. Lots of interesting hypotheses and speculations offered. Is there a simple explanation?

Uncovering Differences in Hydration Free Energies for Model Compound Mimics of Charged Sidechains...

Free energies of hydration are fundamental quantities that are relevant for modeling and understanding sequence-specific conformational and phase equilibria of intrinsically disordered proteins...

www.biorxiv.org

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Rohit V. Pappu

@PappulabWashU

2 years

Join us for the next pair of talks in the Condensate Colloquium Series. Our speakers will be @ZwickerGroup & @PappulabWashU . The focus of both talks will be the physics & chemistry of multicomponent systems. @SPP2191 @WashUengineers

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Rohit V. Pappu

@PappulabWashU

2 years

New work, which we are very truly excited about!!! Collaborative effort of three labs, @BanerjeeLab_UB , @TanjaMittag & us. Work of @I_Alshareedah @BorcherdsWade & Sam Cohen. Material properties of PLCD condensates are governed by sequence grammars

Sequence-encoded grammars determine material properties and physical aging of protein condensates

We demonstrate that nascent versus aged condensates formed by prion-like low complexity domains (PLCDs) are distinct types of viscoelastic materials. Nascent PLCD condensates are terminally viscous...

www.biorxiv.org

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Rohit V. Pappu

@PappulabWashU

2 years

Our collaboration with @Lew_Lab driven by @Tingting_Wu_ , @MattKingLab & @MinaFaragSci peers into condensates using single-fluorogen imaging. Internal environment is more hydrophobic than outside. Inside dotted by inhomogeneities of hydrophobic hubs.

Single fluorogen imaging reveals spatial inhomogeneities within biomolecular condensates

Recent investigations have suggested that biomolecular condensates are viscoelastic materials. This implies that material properties of condensates are governed by internal microstructures. Further...

www.biorxiv.org

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Rohit V. Pappu

@PappulabWashU

4 years

Received by first dose of vaccination today, a couple of hours before the inauguration. Immunized and protected is how I feel.

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Rohit V. Pappu

@PappulabWashU

3 years

More from the lab on the topic of polyphasic linkage & ligand modulated phase separation. This is a review, but it also has new insights pertaining to ligand effects on phase transitions mediated by heterotypic interactions. Please see:

Polyphasic linkage and the impact of ligand binding on the regulation of biomolecular condensates

Cellular matter can be spatially and temporally organized into membraneless biomolecular condensates. The current thinking is that these condensates form and di

pubs.aip.org

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