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| Michael Desai proslijedio/la je tweet | ||
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Nature
@nature
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20. stu |
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This week on the Nature cover: Waves of mutation. Barcode system images evolutionary dynamics of laboratory yeast. Browse the issue here: go.nature.com/336w2ip pic.twitter.com/pe16RxYmiG
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| Michael Desai proslijedio/la je tweet | ||
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José Ignacio Rojas Echenique
@jireva
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14. stu |
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Over the next couple of days, I'll describe some of the essential components of our technology and how they make long term lineage tracking possible, including:
A novel, hyper-directional, set of Lox sites
Reiterative Cre-Lox cassette exchange
The splicing trap
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| Michael Desai proslijedio/la je tweet | ||
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José Ignacio Rojas Echenique
@jireva
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14. stu |
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@alex_nguyen_ba and I spent years tracking down rebellious cells that refused to acquire new barcodes.
We analyzed how they managed to escape our selections and redesigned our system again and again to try to lead them in the right direction.
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| Michael Desai proslijedio/la je tweet | ||
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José Ignacio Rojas Echenique
@jireva
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14. stu |
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The same argument applies to cells that acquire the ability to circumvent selection during gene stacking.
The minor flaws of technologies in synthetic biology seem to limit our ability to create complex combinations of simpler constructs.
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| Michael Desai proslijedio/la je tweet | ||
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José Ignacio Rojas Echenique
@jireva
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14. stu |
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In a traditional DNA barcoding applications, rare cells that acquire the ability to circumvent barcoding selection are not a big issue.
In our case, these rebellious cells would be fatal, since they would have a huge advantage during the next round of barcode addition.
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| Michael Desai proslijedio/la je tweet | ||
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José Ignacio Rojas Echenique
@jireva
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14. stu |
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This fusion of these technologies allows us to sequentially add random DNA barcodes into an evolving population to create a time-sorted barcode array at a specific locus in each cell. Earlier barcodes on this array identify more distant ancestors.
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| Michael Desai proslijedio/la je tweet | ||
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José Ignacio Rojas Echenique
@jireva
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14. stu |
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Our technique is an attempt to recombine two existing technologies, high resolution DNA barcoding (see nature.com/articles/natur…), and gene stacking (e.g. nature.com/articles/nbt.2…).
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| Michael Desai proslijedio/la je tweet | ||
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José Ignacio Rojas Echenique
@jireva
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14. stu |
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Here's a thread telling the story of our new technique for genetic recording of lineage history during long term evolution experiments.
The work was co-led with @alex_nguyen_ba and @ivana_cvijovic in @MichaelMDesai's lab.
Read the paper here:
nature.com/articles/s4158…
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| Michael Desai proslijedio/la je tweet | ||
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Alex N Nguyen Ba
@alex_nguyen_ba
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13. stu |
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What does evolution look like? We developed a rebarcoding approach to observe the travelling wave of adaptation at extremely high resolution. See short summaries by co-authors @ivana_cvijovic, @jireva in the lab of @MichaelMDesai. Read the paper here: nature.com/articles/s4158…
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| Michael Desai proslijedio/la je tweet | ||
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Ivana Cvijovic
@ivana_cvijovic
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13. stu |
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What do you expect evolution to look like in a microbial population? Check out our new study offering a view of that over 1000 generations in yeast in the lab.
co-led by @alex_nguyen_ba, @jireva, in @MichaelMDesai 's lab nature.com/articles/s4158…
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| Michael Desai proslijedio/la je tweet | ||
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Sergey Kryazhimskiy
@skryazhi
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24. lis |
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Our Tn-Seq paper with @_miloj, Alena Martsul and @MichaelMDesai is out in @sciencemagazine.
science.sciencemag.org/content/366/64…
Accompanied by a nice perspective by Craig Miller with a cool fitness landscape:
science.sciencemag.org/content/366/64…
Here is my original summary:
twitter.com/skryazhi/statu… pic.twitter.com/Lu00tyqYUR
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| Michael Desai proslijedio/la je tweet | ||
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Sergey Kryazhimskiy
@skryazhi
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20. lip |
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Our new preprint “Higher fitness yeast genotypes are less robust to deleterious mutations” is out. @_miloj, an amazing PhD student in @MichaelMDesai lab, led this collaborative work. Alena Martsul from my lab also contributed. Please provide feedback!
biorxiv.org/content/10.110…
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| Michael Desai proslijedio/la je tweet | ||
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Richard Neher
@richardneher
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30. pro 2018. |
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End-of-year rant: Soft sweeps (equivalent adaptations arising independently multiple times) are common in RNA viruses. Stirring up a debate on this non-issue using simplistic models and dubious parameters is a waste of time. More here:
neherlab.org/201812_softswe… pic.twitter.com/KzEEYjwkcI
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Michael Desai
@MichaelMDesai
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6. pro 2018. |
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Yep. At least they’re different summary statistics. Maybe.
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Michael Desai
@MichaelMDesai
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18. stu 2018. |
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Just that when graham says linked sel is another form of stochasticity in allele freqs, he’s right. But people often assume that therefore it’s like drift and can be included in variance term in the diffusion eq, and that’s wrong. It’s nondiffusive, has very different signatures
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Michael Desai
@MichaelMDesai
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14. stu 2018. |
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The fact that stochasticity from linked sel is fundamentally non diffusive is often not appreciated however, leading to wrong interpretations in terms of Ne
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Michael Desai
@MichaelMDesai
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8. stu 2018. |
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Work led by Dan Rice (and in collaboration w/@jnovembre) on signatures of non-Kingman coalescence twitter.com/biorxivpreprin…
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Michael Desai
@MichaelMDesai
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25. kol 2018. |
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Hello!
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| Michael Desai proslijedio/la je tweet | ||
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Ivana Cvijovic
@ivana_cvijovic
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29. svi 2018. |
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How does strong background selection influence the site frequency spectrum? Our paper published today online at @GeneticsGSA explains. With @benjaminhgood and @MichaelMDesai. genetics.org/content/early/… pic.twitter.com/IYjRJnXQ4o
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| Michael Desai proslijedio/la je tweet | ||
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Paul Krugman
@paulkrugman
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31. ožu 2018. |
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Friday night music on Saturday: from a concert last night nytimes.com/2018/03/31/opi…
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