Chang-Yu Chang 張昌祐
@changyuchang.bsky.social
Penn postdoc in biology | microbes, ecology, evolution | from Taiwan
Pinned
Laboratory of Microbial Symbiosis, Ecology, and Evolution
chang-yu-chang.github.io
Excited to share that I’ll be starting my research group in Nov 2025 at the Biodiversity Research Center, Academia Sinica in Taipei🎉
We study how eco & evo rules govern complex systems layered by hosts🌱& symbionts🦠 & mobile genes🧬
Recruiting soon at all levels!
🔗 chang-yu-chang.github.io/changlab/
We study how eco & evo rules govern complex systems layered by hosts🌱& symbionts🦠 & mobile genes🧬
Recruiting soon at all levels!
🔗 chang-yu-chang.github.io/changlab/
Anyone running their lab on Discord instead of Slack? Asking for a friend whose institute very likely won't approve Slack in a foreseeable future, for... regional reasons 😅
January 16, 2026 at 8:17 AM
Anyone running their lab on Discord instead of Slack? Asking for a friend whose institute very likely won't approve Slack in a foreseeable future, for... regional reasons 😅
We’re hiring! 🌱
Join Chang Lab @ Academia Sinica to study the ecology & evolution of plant–microbe symbiosis.
Open positions:
🔹 Postdoctoral Researcher
🔹 Research Assistant
More info 👇
Postdoc www.sinica.edu.tw/recruitment_...
RA: www.sinica.edu.tw/recruitment_...
Join Chang Lab @ Academia Sinica to study the ecology & evolution of plant–microbe symbiosis.
Open positions:
🔹 Postdoctoral Researcher
🔹 Research Assistant
More info 👇
Postdoc www.sinica.edu.tw/recruitment_...
RA: www.sinica.edu.tw/recruitment_...
December 17, 2025 at 4:16 AM
We’re hiring! 🌱
Join Chang Lab @ Academia Sinica to study the ecology & evolution of plant–microbe symbiosis.
Open positions:
🔹 Postdoctoral Researcher
🔹 Research Assistant
More info 👇
Postdoc www.sinica.edu.tw/recruitment_...
RA: www.sinica.edu.tw/recruitment_...
Join Chang Lab @ Academia Sinica to study the ecology & evolution of plant–microbe symbiosis.
Open positions:
🔹 Postdoctoral Researcher
🔹 Research Assistant
More info 👇
Postdoc www.sinica.edu.tw/recruitment_...
RA: www.sinica.edu.tw/recruitment_...
Reposted by Chang-Yu Chang 張昌祐
So excited to see my PhD work finally being published!!!
It was such a pleasure working with a great team!!!
It was such a pleasure working with a great team!!!
How to keep in step when your (protein) partner speeds up…
Here we investigated the adaptive remodeling of a protein-protein interaction surface essential for telomere protection.
Congrats to whole team!
www.science.org/doi/10.1126/...
Here we investigated the adaptive remodeling of a protein-protein interaction surface essential for telomere protection.
Congrats to whole team!
www.science.org/doi/10.1126/...
Rapid compensatory evolution within a multiprotein complex preserves telomere integrity
Intragenomic conflict with selfish genetic elements spurs adaptive changes in subunits of essential multiprotein complexes. Whether and how these adaptive changes disrupt interactions within such comp...
www.science.org
November 29, 2025 at 5:45 AM
So excited to see my PhD work finally being published!!!
It was such a pleasure working with a great team!!!
It was such a pleasure working with a great team!!!
If you’re interested in working with my amazing colleagues (or with me 👀), the PhD program at Academia Sinica is now recruiting!
November 28, 2025 at 1:10 AM
If you’re interested in working with my amazing colleagues (or with me 👀), the PhD program at Academia Sinica is now recruiting!
Reposted by Chang-Yu Chang 張昌祐
Apply now for EMBO Workshop "Evolving together: From #genomics to biological interactions" in Taipei, Taiwan, 24–27 Apr 2026.
Abstract submission/Registration deadline: 20 Jan/28 Feb 2026
meetings.embo.org/event/26-bio...
#EMBOEvoGenBio #GeneSky #EvoSky #EcoSky #EMBOevents 🧪
Abstract submission/Registration deadline: 20 Jan/28 Feb 2026
meetings.embo.org/event/26-bio...
#EMBOEvoGenBio #GeneSky #EvoSky #EcoSky #EMBOevents 🧪
Evolving together: from genomics to biological interactions
Genomic and evolutionary research has transformed our understanding of how biological interactions shape life’s diversity. From symbiosis and host–pathogen relationships to competition, cooperation, …
meetings.embo.org
November 14, 2025 at 10:39 AM
Apply now for EMBO Workshop "Evolving together: From #genomics to biological interactions" in Taipei, Taiwan, 24–27 Apr 2026.
Abstract submission/Registration deadline: 20 Jan/28 Feb 2026
meetings.embo.org/event/26-bio...
#EMBOEvoGenBio #GeneSky #EvoSky #EcoSky #EMBOevents 🧪
Abstract submission/Registration deadline: 20 Jan/28 Feb 2026
meetings.embo.org/event/26-bio...
#EMBOEvoGenBio #GeneSky #EvoSky #EcoSky #EMBOevents 🧪
Reposted by Chang-Yu Chang 張昌祐
Hot off the press! Our latest paper led by @fernpizza.bsky.social, understanding how plasmids evolve inside cells. These small, self-replicating DNA circles live inside bacteria and carry antibiotic resistance genes, but also compete with one another to replicate. 1/
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Intracellular competition shapes plasmid population dynamics
From populations of multicellular organisms to selfish genetic elements, conflicts between levels of biological organization are central to evolution. Plasmids are extrachromosomal, self-replicating g...
www.science.org
November 20, 2025 at 9:42 PM
Hot off the press! Our latest paper led by @fernpizza.bsky.social, understanding how plasmids evolve inside cells. These small, self-replicating DNA circles live inside bacteria and carry antibiotic resistance genes, but also compete with one another to replicate. 1/
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted by Chang-Yu Chang 張昌祐
To “my students and to anyone who might listen, I say: Don’t surrender to AI your ability to read, write and think when others once risked their lives and died for the freedom to do so.”
www.huffpost.com/entry/histor...
www.huffpost.com/entry/histor...
I Set A Trap To Catch My Students Cheating With AI. The Results Were Shocking.
"Students are not just undermining their ability to learn, but to someday lead."
www.huffpost.com
November 21, 2025 at 12:22 AM
To “my students and to anyone who might listen, I say: Don’t surrender to AI your ability to read, write and think when others once risked their lives and died for the freedom to do so.”
www.huffpost.com/entry/histor...
www.huffpost.com/entry/histor...
Reposted by Chang-Yu Chang 張昌祐
Glad to see our phoronid genome study featured on the cover of @currentbiology.bsky.social! It shows how genome structure can be used to test competing hypotheses of nested topology and how derived structural changes provide evidence for monophyly.
www.cell.com/current-biol...
www.cell.com/current-biol...
November 17, 2025 at 4:25 PM
Glad to see our phoronid genome study featured on the cover of @currentbiology.bsky.social! It shows how genome structure can be used to test competing hypotheses of nested topology and how derived structural changes provide evidence for monophyly.
www.cell.com/current-biol...
www.cell.com/current-biol...
Reposted by Chang-Yu Chang 張昌祐
Very happy to share that I will be starting as an Assistant Professor in the department of Biological Sciences at the University of South Carolina in January! My group will be working on environmental phage ecology and evolution, and I am recruiting for the upcoming year (more info below).
October 8, 2025 at 4:34 PM
Very happy to share that I will be starting as an Assistant Professor in the department of Biological Sciences at the University of South Carolina in January! My group will be working on environmental phage ecology and evolution, and I am recruiting for the upcoming year (more info below).
Excited to share that I’ll be starting my research group in Nov 2025 at the Biodiversity Research Center, Academia Sinica in Taipei🎉
We study how eco & evo rules govern complex systems layered by hosts🌱& symbionts🦠 & mobile genes🧬
Recruiting soon at all levels!
🔗 chang-yu-chang.github.io/changlab/
We study how eco & evo rules govern complex systems layered by hosts🌱& symbionts🦠 & mobile genes🧬
Recruiting soon at all levels!
🔗 chang-yu-chang.github.io/changlab/
Laboratory of Microbial Symbiosis, Ecology, and Evolution
chang-yu-chang.github.io
October 7, 2025 at 6:02 AM
Excited to share that I’ll be starting my research group in Nov 2025 at the Biodiversity Research Center, Academia Sinica in Taipei🎉
We study how eco & evo rules govern complex systems layered by hosts🌱& symbionts🦠 & mobile genes🧬
Recruiting soon at all levels!
🔗 chang-yu-chang.github.io/changlab/
We study how eco & evo rules govern complex systems layered by hosts🌱& symbionts🦠 & mobile genes🧬
Recruiting soon at all levels!
🔗 chang-yu-chang.github.io/changlab/
Reposted by Chang-Yu Chang 張昌祐
I'm super bummed to be missing #ESEB2025 @eseb2025.bsky.social due to a cancelled flight! Here's a quick overview of my talk "Gene- and genome-focused perspectives on microbial pangenomes" slated to be part of The Evolution of Microbial Pangenomes -- which I recommend you attend tomorrow (Fri) !
1/n
1/n
August 21, 2025 at 4:57 PM
I'm super bummed to be missing #ESEB2025 @eseb2025.bsky.social due to a cancelled flight! Here's a quick overview of my talk "Gene- and genome-focused perspectives on microbial pangenomes" slated to be part of The Evolution of Microbial Pangenomes -- which I recommend you attend tomorrow (Fri) !
1/n
1/n
Reposted by Chang-Yu Chang 張昌祐
Do plasmids evolve faster 🐇, slower 🐢, or just like chromosomes 🧬?
In our new paper, we tackled this question using theory, simulations, bioinformatics, and experiments!
👇 Check out all the details in Paula’s thread!
Hint: 🐇 (most of the time)
In our new paper, we tackled this question using theory, simulations, bioinformatics, and experiments!
👇 Check out all the details in Paula’s thread!
Hint: 🐇 (most of the time)
July 22, 2025 at 3:05 PM
Do plasmids evolve faster 🐇, slower 🐢, or just like chromosomes 🧬?
In our new paper, we tackled this question using theory, simulations, bioinformatics, and experiments!
👇 Check out all the details in Paula’s thread!
Hint: 🐇 (most of the time)
In our new paper, we tackled this question using theory, simulations, bioinformatics, and experiments!
👇 Check out all the details in Paula’s thread!
Hint: 🐇 (most of the time)
Reposted by Chang-Yu Chang 張昌祐
New paper in @nature.com! With @kiseokmicro.bsky.social , Siqi Liu, Kyle Crocker, Jojo Wang, Mikhail Tikhonov & Madhav Mani — a massive dataset and simple model reveal a few conserved regimes that capture how soil microbiome metabolism responds to perturbations. www.nature.com/articles/s41...
July 17, 2025 at 6:36 AM
New paper in @nature.com! With @kiseokmicro.bsky.social , Siqi Liu, Kyle Crocker, Jojo Wang, Mikhail Tikhonov & Madhav Mani — a massive dataset and simple model reveal a few conserved regimes that capture how soil microbiome metabolism responds to perturbations. www.nature.com/articles/s41...
Reposted by Chang-Yu Chang 張昌祐
How may theoretical ecology & evolutionary theory push microbiology forward?
At Environmental Microbiology, I am commissioning a series of Perspectives exploring that question. Excited to share them in the 🧵 below
The series is open, so do get in touch if you'd like to propose a new contribution!
At Environmental Microbiology, I am commissioning a series of Perspectives exploring that question. Excited to share them in the 🧵 below
The series is open, so do get in touch if you'd like to propose a new contribution!
July 16, 2025 at 2:58 PM
How may theoretical ecology & evolutionary theory push microbiology forward?
At Environmental Microbiology, I am commissioning a series of Perspectives exploring that question. Excited to share them in the 🧵 below
The series is open, so do get in touch if you'd like to propose a new contribution!
At Environmental Microbiology, I am commissioning a series of Perspectives exploring that question. Excited to share them in the 🧵 below
The series is open, so do get in touch if you'd like to propose a new contribution!
A beautifully simple model reveals the nitrogen dynamics in soil in response to pH! Congrats to the authors! @kiseokmicro.bsky.social
Published in Nature today! Here, we sought to systematically ask how natural community's metabolism changes with the environment. A simple consumer-resource model can predict N-cycle metabolism (nitrate use) and, more importantly, the mechanism behind its change.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Functional regimes define soil microbiome response to environmental change - Nature
Experimental perturbation of soil pH leads to a generalizable model of the soil microcosm comprising three functional regimes with distinct mechanisms linking environmental change to metabolite dynami...
www.nature.com
July 16, 2025 at 6:19 PM
A beautifully simple model reveals the nitrogen dynamics in soil in response to pH! Congrats to the authors! @kiseokmicro.bsky.social
Reposted by Chang-Yu Chang 張昌祐
Our paper demonstrating that within-species warfare interactions are ecologically important on human skin is now published in Nature Micro! www.nature.com/articles/s41...
June 30, 2025 at 12:26 PM
Our paper demonstrating that within-species warfare interactions are ecologically important on human skin is now published in Nature Micro! www.nature.com/articles/s41...
Reposted by Chang-Yu Chang 張昌祐
I would love to host a PhD student on my lab with strong quantitative training interested in projects integrating ecology and evolution, or cell physiology and ecological dynamics
www.simonsfoundation.org/grant/simons...
www.simonsfoundation.org/grant/simons...
Simons Graduate Fellowships in Ecology and Evolution
The purpose of these awards is to provide support for students entering U.S.-based Ph.D. programs with a plan to perform research in ecology and evolution. While we will consider all projects in ecolo...
www.simonsfoundation.org
June 18, 2025 at 4:55 PM
I would love to host a PhD student on my lab with strong quantitative training interested in projects integrating ecology and evolution, or cell physiology and ecological dynamics
www.simonsfoundation.org/grant/simons...
www.simonsfoundation.org/grant/simons...
Reposted by Chang-Yu Chang 張昌祐
How many paths lead to evolutionary innovation? How versatile are genomic toolkits? Excited to announce my new @pnas.org paper addressing these questions in collaboration with @rokaslab.bsky.social, @hittingerlab.bsky.social, and the Pennell lab!
www.pnas.org/doi/10.1073/...
www.pnas.org/doi/10.1073/...
June 4, 2025 at 3:36 PM
How many paths lead to evolutionary innovation? How versatile are genomic toolkits? Excited to announce my new @pnas.org paper addressing these questions in collaboration with @rokaslab.bsky.social, @hittingerlab.bsky.social, and the Pennell lab!
www.pnas.org/doi/10.1073/...
www.pnas.org/doi/10.1073/...
Reposted by Chang-Yu Chang 張昌祐
Get the word out far and wide. New opportunity from the Simons Foundation in the Eco-Evo space.
2026 Simons Graduate Fellowship in Ecology and Evolution Awards, due July 31, 2025, only for incoming PhD students who plan to start their PhDs in Fall 2026.
www.simonsfoundation.org/grant/simons...
2026 Simons Graduate Fellowship in Ecology and Evolution Awards, due July 31, 2025, only for incoming PhD students who plan to start their PhDs in Fall 2026.
www.simonsfoundation.org/grant/simons...
Simons Graduate Fellowships in Ecology and Evolution
The purpose of these awards is to provide support for students entering U.S.-based Ph.D. programs with a plan to perform research in ecology and evolution. While we will consider all projects in ecolo...
www.simonsfoundation.org
June 2, 2025 at 4:08 PM
Get the word out far and wide. New opportunity from the Simons Foundation in the Eco-Evo space.
2026 Simons Graduate Fellowship in Ecology and Evolution Awards, due July 31, 2025, only for incoming PhD students who plan to start their PhDs in Fall 2026.
www.simonsfoundation.org/grant/simons...
2026 Simons Graduate Fellowship in Ecology and Evolution Awards, due July 31, 2025, only for incoming PhD students who plan to start their PhDs in Fall 2026.
www.simonsfoundation.org/grant/simons...
Reposted by Chang-Yu Chang 張昌祐
Enjoying the new Michael Lynch perspective in PNAS, and not just because it validates my love of microbes.
www.pnas.org/doi/10.1073/...
www.pnas.org/doi/10.1073/...
May 28, 2025 at 12:37 PM
Enjoying the new Michael Lynch perspective in PNAS, and not just because it validates my love of microbes.
www.pnas.org/doi/10.1073/...
www.pnas.org/doi/10.1073/...
Reposted by Chang-Yu Chang 張昌祐
Macroecological patterns in experimental microbial communities, led by Will Shoemaker & Jacopo Grilli
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
Macroecological patterns in experimental microbial communities
Author summary Determining whether an empirical pattern can be manipulated is a crucial step towards building a predictive theory. Our study aimed to determine the extent that experimental manipulatio...
journals.plos.org
May 27, 2025 at 6:23 PM
Macroecological patterns in experimental microbial communities, led by Will Shoemaker & Jacopo Grilli
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
Reposted by Chang-Yu Chang 張昌祐
Excited to see this new, and extensively-rewritten, version of our preprint up now! With @paulturnerlab.bsky.social we show how bacterial population dynamics (e.g. growth curves) can be used to accurately quantify bacteriophage infectivity
🦠 🧫🔬 #microbiology #VirEvol
doi.org/10.1101/2023...
🦠 🧫🔬 #microbiology #VirEvol
doi.org/10.1101/2023...
Quantifying phage infectivity from characteristics of bacterial population dynamics
A frequent goal of phage biology is to quantify how well a phage kills a population of host bacteria. Unfortunately, traditional methods to quantify phage success can be time-consuming, limiting the t...
doi.org
May 27, 2025 at 10:41 PM
Excited to see this new, and extensively-rewritten, version of our preprint up now! With @paulturnerlab.bsky.social we show how bacterial population dynamics (e.g. growth curves) can be used to accurately quantify bacteriophage infectivity
🦠 🧫🔬 #microbiology #VirEvol
doi.org/10.1101/2023...
🦠 🧫🔬 #microbiology #VirEvol
doi.org/10.1101/2023...
Reposted by Chang-Yu Chang 張昌祐
Microbial communities can harbor many species that do not coexist in pairs, yet can coexist in the full community. Here we provide the mathematical foundations of emergent coexistence, and explain why it can't be predicted from pairwise tests www.biorxiv.org/content/10.1...
May 20, 2025 at 1:16 PM
Microbial communities can harbor many species that do not coexist in pairs, yet can coexist in the full community. Here we provide the mathematical foundations of emergent coexistence, and explain why it can't be predicted from pairwise tests www.biorxiv.org/content/10.1...