Xiaozhou Ye

PhD candidate @cratzke1; B.S. Biology & Physics @PKU1898
Systems biology, Ecology and Evolution

[Ratzke Lab 🦠⇄🦠 @cratzke1]

New paper out in @ISMEJ!
Microbes can "remember" their past by modifying their environment. This externalized memory can impact future interactions and community assemblies.
https://t.co/4wcFLALwnQ
@gajrani_shubham @xiaozhou_ye

[Or Shalev Skriptchak @orshalevsk]

How invasion is resisted by microbial communities? Hint - it is cooler than you think.

Check out our new paper ! With @xiaozhou_ye and @cratzke1 (Nature Communications):
https://t.co/WjZ2tKP6Yi
🧐

[Xiaozhou Ye @xiaozhou_ye]

As for the pickles? Salt and sealing didn't work long-term. In the end I tried adding more sugar, hoping Lactobacillus would turn it into acid and resist others with the low pH. Result: the contamination never comes back - first application of our work! 9/9

[Xiaozhou Ye @xiaozhou_ye]

Invading microbes bother us in many ways: bacterial infection, cross-contamination in the lab, spoiled food... Our new paper with @cratzke1 @orshalevsk in @NatureComms (https://t.co/szrYRX06r4) can help us fight microbial invasion more efficiently 1/9

[Xiaozhou Ye @xiaozhou_ye]

allowing us to leverage the resistance of native microbes to fight/utilize invasion, and even guide rational design of microbial communities to block harmful microbes or to help beneficial ones to settle in. 8/9

[Ratzke Lab 🦠⇄🦠 @cratzke1]

New paper out in Nature Communications
Microbial communities shape invasion dynamics in complex but predictable ways. This highlights the need to consider microbial interactions for controlling invasions.
Read here: https://t.co/bAYfMqmjWd
#MicrobialEcology #SystemBiology

[Ratzke Lab 🦠⇄🦠 @cratzke1]

We got a preprint out on biorxiv: “Environment-mediated interactions cause an externalized and collective memory in microbes”.
https://t.co/ChfGDJGBMl
1/5

[Chenlei Hu @HuChenlei]

We developed an imaging-free spatial genomics technology where DNA barcodes diffuse to connect locally. Using UMAP, we reconstructed the physical locations of these barcodes, transforming spatial transcriptomics into purely molecular biology.

https://t.co/BIPlyibPXa

[0000-0003-2104-5964 @0000_2104]

New in @ScienceMagazine with @jaegc. A combinatorially complete fitness landscape with >260.000 E.coli genotypes shows unexpected 🤯 properties. Despite ~500 fitness peaks in this landscape, adaptive evolution can easily navigate to highest fitness peaks https://t.co/tpgvVrGDd1

[Xiaozhou Ye @xiaozhou_ye]

Find this quite cool, screening random genes for function. Turns out like many other things, a quick fix is relatively easy, a specific fix much harder - only 1 in 1e8! Also showed the mechanism by impressive experiments.

[NatureEcoEvo @NatureEcoEvo]

Selection of a de novo gene that can promote survival of Escherichia coli by modulating protein homeostasis pathways https://t.co/56F3MtYGCp

[Xiaozhou Ye @xiaozhou_ye]

https://t.co/7o50aR8IF1

[Xiaozhou Ye @xiaozhou_ye]

Can we witness evolution’s unit shifting from individual to collective, in real-time?
@ozan_g_b @wc_ratcliff @YunkerLab evolved large multicellular yeast and said YES!
Great fun to spotlight this cool project & its first findings with @orshalevsk @cratzke1. @Trends_Ecol_Evo

[Alvaro Sanchez @asanchez_lab]

A new paper from our lab is out today after peer review: https://t.co/0ajuD1FrxV