Danfeng Cai Lab
Combining advanced techniques to understand the functions of biomolecular condensates in healthy and cancerous cells
About the Cai Lab
What do lava lamps and cells have in common? Why do cells sometimes light up like a lava lamp? The Cai Lab is interested in studying the mysterious liquid-like compartments in a cell, just like oil droplets in a lava lamp.
Termed "biomolecular condensates" or membrane-less organelles, these compartments perform important functions in the cell such as transcription, chromatin organization, and cellular stress response, and are intimately linked to cellular homeostasis and diseases such as neurodegeneration and cancer. However, how they form and function are very poorly understood.
The Cai Lab aims to tackle this important question, using advanced imaging and proteomics tools.
We are a diverse and interdisciplinary group of scientists who believe that curiosity-driven research can lead to ground-breaking discoveries. We embrace the frequent intellectual interactions and collaborations with physician scientists, engineers, and mathematicians at Johns Hopkins University and throughout the world.
Research Overview
The Cai Lab focuses on understanding how the transcription process is regulated in normal and cancer cells. We are intrigued by the discoveries in our lab that have shown many transcription factors involved in cancers can form small, liquid-like condensates in the nucleus to activate transcription.
Our results are consistent with an emerging and paradigm-shifting view in biology: Many biochemical reactions inside the living cell are organized in liquid-like condensates formed by weak protein and nucleic acid interactions. This implies that the material states as well as the components of cellular assemblies matter for their functions.
We develop and employ many cutting-edge imaging tools in the lab, such as super resolution microscopy, single particle tracking, and optogenetics. By studying these condensates, we hope to understand how transcription is differentially organized in normal and cancer cells, and how we can target these condensates for cancer therapies.
Yap Condensates: Highly Organized Hubs
YAP/TEAD signaling is essential for organismal development, cell proliferation, and cancer progression. As a transcriptional coactivator, how YAP activates its downstream target genes is incompletely understood. YAP forms biomolecular condensates in response to hyperosmotic stress, concentrating transcription-related factors to activate downstream target genes. In bioRxiv, we report that endogenous YAP forms sub-micron scale condensates in response to Hippo pathway regulation and actin cytoskeletal tension. The transcription factor TEAD1 actively stabilizes YAP condensates, which also recruit BRD4, a coactivator that is enriched at active enhancers. Using single molecule tracking, we found that YAP condensates slowed YAP diffusion within condensate boundaries, a possible mechanism for promoting YAP target search. These results reveal that YAP condensate formation is a highly regulated process that is critical for YAP/TEAD target gene expression.
Selected Publications
Hao S, Lee YJ, Benhamou Goldfajn N, Flores E, Liang J, Fuehrer H, Demmerle J, Lippincott-Schwartz J, Liu Z, Sukenik S, Cai D. YAP condensates are highly organized hubs. iScience, 2024.
Cai D, Liu Z, Lippincott-Schwartz J. Biomolecular Condensates and Their Links to Cancer Progression. Trends in Biochemical Sciences, 2021.
Cai D, Feliciano D, Dong P, Flores E, Gruebele M, Porat-Shliom N, Sukenik S, Liu Z, Lippincott-Schwartz J. Phase separation of YAP reorganizes genome topology for long-term YAP target gene expression. Nature Cell Biology, 2019.
Demmerle J, Hao S, Cai D. Transcriptional condensates and phase separation: condensing information across scales and mechanisms. Nucleus, 2023.
Magesh S, Cai D. Roles of YAP/TAZ in ferroptosis. Trends in Cell Biology, 2022.
How to Join the Cai Lab
We are always looking for highly motivated students and fellows to join us.
PhD Students
The Cai Lab is part of the following PhD training programs at Johns Hopkins University. Visit the websites below to learn more about each program and how to apply. All programs provide full tuition and stipend support. Current students can contact Danfeng Cai by email to rotate in the lab.
Master's Students
The Cai Lab hosts students from the Department of Biochemistry and Molecular Biology Master of Health Science and Master of Science programs.
Postdoctoral Fellows
If you are interested in doing a postdoctoral fellowship in the Cai Lab, submit a cover letter and CV by email to Danfeng Cai. In addition to training within our lab, the Biochemistry and Molecular Biology Department has an active postdoctoral training program.