Pablo Cárdenas R.Sep 29, 2023

Hello interwebz!

Back for #Evoluncheons after a week of travel and drowning in a sea of papers. This took all day again -_-

Actually organizing by #evolution 🦠 🧬 🧪 themes from now on, hopefully easier to digest.

https://evoluncheons.blogspot.com/2023/09/28-sep-2023.html

We have 🧵:

28 Sep 2023

Hello interwebz!   Back for #Evoluncheons after a week of travel and drowning in a sea of papers. This took all day again -_-    Actually or...

Show threadPablo Cárdenas R.

Fundamental evolution:

1. Switching barcoded yeast mutants between carbon sources leads to results that are different from what we would expect based on their fitness in each carbon source without switching. https://doi.org/10.1101/2023.09.14.557739

Sep 29, 2023 at 12:32pmWeb
Show threadPablo Cárdenas R.Sep 29, 2023
Mutants with greater differences in fitness between static environments show the greatest deviations from expectation. Tweetorial from the great Clare Abreu: https://twitter.com/clabreu/status/1706324819631862158
Clare Abreu (she/her) on X

How do environmental fluctuations alter fitness? We find that fluctuations generate surprising and dramatic changes in our new pre-print, with @MathurShaili and @PetrovADmitri. https://t.co/CpUWtFNgeR

X (formerly Twitter)
Show threadPablo Cárdenas R.Sep 29, 2023
2. Susumu Ohno proposed gene duplications should facilitate evolution of proteins with novel functions. FACS-powered experimental evolution of fluorescent protein libraries confirms duplications increase mutational robustness and genetic diversity… https://doi.org/10.1101/2023.09.25.559237
Show threadPablo Cárdenas R.Sep 29, 2023
…but not speed of phenotypic evolution due to inactivation of one copy (though this is for increases in original trait? I thought this should be most evident in new trait, blue fluorescence...).
Show threadPablo Cárdenas R.Sep 29, 2023
Natural history:
3. Self-assembling viral histones unravel early nucleosome evolution. Fascinating approach where authors shows that viruses can be used as a window into the evolutionary past, here used to study histone evolution in early eukaryotes. https://doi.org/10.1101/2023.09.20.558576
Show threadPablo Cárdenas R.Sep 29, 2023
Author's tweetorial: https://twitter.com/dinokaryon/status/1705202911532159293
Nick Irwin on X

Excited to share our manuscript about how we studied the function and evolution of giant viral histones to understand the origin of the nucleosome https://t.co/Bjdbs6kuoJ (1/10)

X (formerly Twitter)
Show threadPablo Cárdenas R.Sep 29, 2023
Host-pathogen interactions:
4. Theory and experiments show what influences the balance between selected vs. acquired resistance evolution in a phage-bacteria system. https://doi.org/10.1371/journal.pbio.3002122
Transient eco-evolutionary dynamics early in a phage epidemic have strong and lasting impact on the long-term evolution of bacterial defences

Organisms use a range of defence systems to protect against their parasites. Using a bacteria-phage model system, we investigate what drives the transient evolution of different systems, which has important implications for host ecology and pathogenicity.

Show threadPablo Cárdenas R.Sep 29, 2023
High host growth favors selection of resistant mutants, high pathogen transmission favors acquired CRISPR immunity.
Show threadPablo Cárdenas R.Sep 29, 2023

Engineering:

5. Genetic variation derived from adaptive laboratory evolution of E. coli to specific conditions and standing variation in wild strains are largely non-overlapping evolutionary spaces that be combined in directed evolution and strain design.
https://doi.org/10.1101/2023.09.17.558058

Show threadPablo Cárdenas R.Sep 29, 2023
Cancer:
6. Single-cell phylogenies reveal changes in the evolutionary rate within cancer and healthy tissues. A new statistical test detects changes in mutation rate across a variety of cancer and healthy somatic tissues using scDNA-seq data.
https://doi.org/10.1016/j.xgen.2023.100380
Show threadPablo Cárdenas R.Sep 29, 2023
Author's tweetorial: https://twitter.com/dposada_/status/1701977917599703117
David Posada on X

Check our new paper on changes in the evolutionary rate among somatic lineages! https://t.co/fxuyZtLBNl A nice collaboration with Nico BorgsmĂĽller, @linkmonica, Jack Kuipers, and Niko Beerenwinkle

X (formerly Twitter)
Show threadPablo Cárdenas R.Sep 29, 2023

Behavior:

7. Simulations of agents engaging in pairwise fights and status signaling show that honest and dishonest-signaling individuals can coexist if costs of signaling are not proportional to quality and individuals can learn from experience. https://doi.org/10.1101/2023.09.19.558427

Show threadPablo Cárdenas R.Sep 29, 2023
…feels great to add old colleagues and professors to this newsletter. Author post (and link to great spanish-language breakdown on igram): https://twitter.com/cdanielcadena/status/1705213834653249547
daniel cadena on X

our latest, led by @AtiQuinones - theory and models inspired by one of the systems we study in nature leads to insights that make us think about our empirical work in novel ways. #cienciacriolla

X (formerly Twitter)
Show threadPablo Cárdenas R.Sep 29, 2023
8. Bottlenecks affect different cooperative traits in different ways in the social bacterium Myxococcus xanthus, selecting for some and against others. https://doi.org/10.1101/2023.09.20.558552
Show threadPablo Cárdenas R.Sep 29, 2023
Exhaustive author’s thread: https://twitter.com/iamsamayp/status/1706100974816006606
Samay Pande on X

1/n Preprint alert📢: Happy to present insanely cool work led by super talented PhD student @JyoKalathera , and superbly supported by Vishwa who was a research fellow in the lab. Here is the thread to tell you a bit about this manuscript. https://t.co/Dvbk13hvHA

X (formerly Twitter)
Show threadPablo Cárdenas R.Sep 29, 2023

Zoonoses:

9. Host traits shape virome composition and virus transmission in wild small mammals. 534 new viruses found in bats, shrews, and rodents; inter-species transmission events identified. https://doi.org/10.1016/j.cell.2023.08.029

Show threadPablo Cárdenas R.Sep 29, 2023
10. Looking beyond land-use and land-cover change: Zoonoses emerge in the agricultural matrix. Complex, diverse sociocultural-economic agricultural systems are more ecologically robust against zoonoses. https://doi.org/10.1016/j.oneear.2023.08.010
Show threadPablo Cárdenas R.Sep 29, 2023
Author’s thread: https://twitter.com/kinparaluchav/status/1703796029668065778
Luis Fernando Chaves on X

In 2022 with @ivette_perfecto and a group at the University of Michigan we discussed the ecology behind zoonoses. Keeping a broad perspective and a careful examination of the evidence and narratives we came up with this piece. (1/10) https://t.co/WpWhOyum8S

X (formerly Twitter)
Show threadPablo Cárdenas R.Sep 29, 2023

COVID-19:

11. All-star cast of pandemic heroes definitely shows we are playing with fire with mutation inducing drugs. https://doi.org/10.1038/s41586-023-06649-6

Show threadPablo Cárdenas R.Sep 29, 2023
Author's thread: https://bsky.app/profile/theo.io/post/3kaal5baspc2x
Theo Sanderson (@theo.io)

Our molnupiravir work is now out after peer-review! We definitively demonstrate that molnupiravir has resulted in viable SARS-CoV-2 viruses with significant numbers of mutations, in some cases with onwards transmission of mutated viruses. www.nature.com/articles/s41...

Bluesky Social
Show threadPablo Cárdenas R.Sep 29, 2023
12. Massive effort to characterize convergent evolution in SARS-CoV-2 VOC mechanisms that suppress host immune responses. https://doi.org/10.1016/j.cell.2023.08.026