Publications

For the most comprehensive list, please see our Google Scholar page.

°: Corresponding author, *: Co-first authors, lab members highlighted in bold

2025  ⸻⸻⸻⸻⸻⸺⸺

• Ons M’Saad*, Allison Cairns*, Jonathan Gulcicek, Ravi Kiran Kasula, Jacob Liao, Ilona Kondratiuk, Emma H Bewersdorf, Phylicia Kidd, Hanieh Falahati, Juliana E Gentile, Robert F Niescier, Katherine Watters, Robert C Sterner, Seong-il Lee, Xiaojia Guo, Xinran Liu, Gary Desir, Pietro De Camilli, James E Rothman, Anthony J Koleske, Thomas Biederer, Aaron T Kuan°, Joerg Bewersdorf°. All-optical visualization of specific molecules in the ultrastructural context of brain tissue. Nature Biotechnology (2025). 1-15.

• Yujin Bao*, Zach Marin*, Xiongchao Chen, Qiong Liu, Yazgan Tuna, Sylvi Stoller, Florian Schueder, Chuyue Zhang, Suet Yin Sarah Fung, Min Wu, Karla M. Neugebauer, Jonathon Howard, Chi Liu, David Baddeley, Michael Shribak°, Joerg Bewersdorf°. A correlative quantitative phase contrast and fluorescence super-resolution microscope for imaging molecules in their cellular context. bioRxiv 2025.10. 13.682186.

• Yuan Tian*, Alexander Sauer*, Mariia Dmitrieva, Hongqing Han, Hannahmariam T Mekbib, Yujin Bao, Xiaojia Guo, Tian-min Chen, Robert Safirstein, Gary Desir, Jens Rittscher°, Joerg Bewersdorf°. Scalable automated segmentation quantifies mitochondrial proteins and morphology at the nanoscale. bioRxiv 2025.07. 28.667278.

• Yang Li*, Dong-Ryoung Lee*, Edward S Allgeyer, Lena K Schroeder, Shijie Tu, Joerg Bewersdorf°, Xiang Hao°. Implementation of an adaptive-optics assisted isoSTED nanoscope. bioRxiv 2025.04. 02.645322.

• Maohan Su*, Abhijith Radhakrishnan*, You Yan, Yuan Tian, Hong Zheng, Ons M’Saad, Morven Graham, Jeff Coleman, Jean ND Goder, Xinran Liu, Yongdeng Zhang, Joerg Bewersdorf°, James E Rothman°. The golgi rim is a precise tetraplex of golgin proteins that can self-assemble into filamentous bands. bioRxiv 2025.03. 27.645134.

• Devin M Fuller, Yumei Wu, Florian Schueder, Burha Rasool, Shanta Nag, Justin L Korfhage, Rolando Garcia-Milian, Katerina D Melnyk, Joerg Bewersdorf, Pietro De Camilli, Thomas J Melia°. ATG2A engages Rab1a and ARFGAP1 positive membranes during autophagosome biogenesis. bioRxiv 2025.03. 24.645038.

• Hannahmariam T Mekbib, Lasse Pærgård Andersen, Shuwen Zhang, Jonathan Gulcicek, Yuan Tian, Jack R Ross, Mark D Lessard, Joerg Bewersdorf°. Pan-ASLM: a high-resolution and large-field-of-view light sheet microscope for Expansion Microscopy. bioRxiv 2025.08. 06.668765.

• Xiaojia Guo, Rongmin Chen, Christine Shugrue, Fei-Fei Shang, Rolando G Milian, Haley Moller, Pawel Licznerski, Tian-min Chen, Richard Kibbey, Ons M Saad, Yuan Tian, Joerg Bewersdorf, Frank Giordano, Fred S Gorelick, Robert Safirstein, Elizabeth A Jonas°, Gary V Desir°. Renalase activates mitochondrial leak metabolism in response to cellular stress and to repair damage after injury. bioRxiv 2025.08. 19.671117.

2024  ⸻⸻⸻⸻⸻⸺⸺

• Berrak Ugur, Florian Schueder, Jimann Shin, Michael G Hanna, Yumei Wu, Marianna Leonzino, Maohan Su, Anthony R McAdow, Catherine Wilson, John Postlethwait, Lilianna Solnica-Krezel, Joerg Bewersdorf, Pietro De Camilli°. VPS13B is localized at the interface between Golgi cisternae and is a functional partner of FAM177A1. Journal of Cell Biology (2024), 223(12). e202311189.

• Florian Schüder°, Felix Rivera-Molina, Maohan Su, Zach Marin, Phylicia Kidd, James E. Rothman, Derek Toomre, Joerg Bewersdorf°. Unraveling cellular complexity with transient adapters in highly multiplexed super-resolution imaging. Cell (2024), 187(7). 1769-1784. 

• Shiwei Zhu*, Clinton J Bradfield*, Agnieszka Maminska*, Eui-Soon Park*, Bae-Hoon Kim*, Pradeep Kumar, Shuai Huang, Minjeong Kim, Yongdeng Zhang, Joerg Bewersdorf, John D MacMicking°. Native architecture of a human GBP1 defense complex for cell-autonomous immunity to infection. Science (2024), 383(6686). eabm9903.

2023  ⸻⸻⸻⸻⸻⸺⸺

• Lei Tong, Shanshan Han, Yao Xue, Minggang Chen, Fuyi Chen, Wei Ke, Yousheng Shu, Ning Ding, Joerg Bewersdorf, Z Jimmy Zhou, Peng Yuan°, Jaime Grutzendler°. Single cell in vivo optogenetic stimulation by two-photon excitation fluorescence transfer. Iscience (2023), 26(10).

• Lukas A Fuentes*, Zach Marin*, Jonathan Tyson, David Baddeley, Joerg Bewersdorf°. The nanoscale organization of reticulon 4 shapes local endoplasmic reticulum structure in situ. Journal of Cell Biology (2023), 222(10).

• Mark E Pownall°, Liyun Miao°, Charles E Vejnar, Ons M’Saad, Alice Sherrard, Megan A Frederick, Maria DJ Benitez, Curtis W Boswell, Kenneth S Zaret, Joerg Bewersdorf, Antonio J Giraldez°. Chromatin expansion microscopy reveals nanoscale organization of transcription and chromatin. Science (2023), 381(6653). 92-100.

• Zach Marin, Lukas A Fuentes, Joerg Bewersdorf, David Baddeley°. Extracting nanoscale membrane morphology from single-molecule localizations. Biophysical Journal (2023), 122(15). 3022-3030. 

• Dijin Xu*, Weiqian Jiang*, Lizhen Wu, Ryan G Gaudet, Eui-Soon Park, Maohan Su, Sudheer Kumar Cheppali, Nagarjuna R Cheemarla, Pradeep Kumar, Pradeep D Uchil, Jonathan R Grover, Ellen F Foxman, Chelsea M Brown, Phillip J Stansfeld, Joerg Bewersdorf, Walther Mothes, Erdem Karatekin, Craig B Wilen, John D MacMicking°. PLSCR1 is a cell-autonomous defence factor against SARS-CoV-2 infection. Nature (2023), 619(7971). 819-827.

• Mary Lou P Bailey*, Susan E Pratt*, Michael Hinrichsen, Yongdeng Zhang, Joerg Bewersdorf, Lynne J Regan, Simon GJ Mochrie°. Uncovering diffusive states of the yeast membrane protein, Pma1, and how labeling method can change diffusive behavior. The European Physical Journal E (2023), 46(6). 1-16.

• Vinit Sheth, Xuxin Chen, Evan M Mettenbrink, Wen Yang, Meredith A Jones, Ons M’Saad, Abigail G Thomas, Rylee S Newport, Emmy Francek, Lin Wang, Alex N Frickenstein, Nathan D Donahue, Alyssa Holden, Nathan F Mjema, Dixy E Green, Paul L DeAngelis, Joerg Bewersdorf, Stefan Wilhelm°. Quantifying Intracellular Nanoparticle Distributions with Three-Dimensional Super-Resolution Microscopy. ACS Nano (2023), 17(9). 8376-8392.

• Andrew ES Barentine, Yu Lin, Edward M Courvan, Phylicia Kidd, Miao Liu, Leonhard Balduf, Timy Phan, Felix Rivera-Molina, Michael R Grace, Zach Marin, Mark Lessard, Juliana Rios Chen, Siyuan Wang, Karla M Neugebauer, Joerg Bewersdorf°, David Baddeley°. An integrated platform for high-throughput nanoscopy. Nature Biotechnology (2023), 41. 1-8. 

2022  ⸻⸻⸻⸻⸻⸺⸺

• Florian Schueder, Joerg Bewersdorf°. Omics goes spatial epigenomics. Cell (2022), 185(23). 4253-4255. 

• Kenny KH Chung, Zhao Zhang, Phylicia Kidd, Yongdeng Zhang, Nathan D Williams, Bennett Rollins, Yang Yang, Chenxiang Lin, David Baddeley, Joerg Bewersdorf°. Fluorogenic DNA-PAINT for faster, low-background super-resolution imaging. Nature Methods (2022), 19(5). 554-559.

• Kevin M Dean°, Tonmoy Chakraborty, Stephan Daetwyler, Jinlong Lin, Gerard Garrelts, Ons M’Saad, Hannahmariam T Mekbib, Fabian F Voigt, Martina Schaettin, Esther T Stoeckli, Fritjof Helmchen, Joerg Bewersdorf, Reto Fiolka°. Isotropic imaging across spatial scales with axially swept light-sheet microscopy. Nature Protocols (2022), 17(9). 2025-2053.

• Seong J An*°, Massimiliano Stagi*, Travis J Gould, Yumei Wu, Michael Mlodzianoski, Felix Rivera-Molina, Derek Toomre, Stephen M Strittmatter, Pietro De Camilli, Joerg Bewersdorf, David Zenisek°. Multimodal imaging of synaptic vesicles with a single probe. Cell Reports Methods (2022), 2(4). 100199.

• Giulia Biancon*°, Poorval Joshi*, Joshua T Zimmer, Torben Hunck, Yimeng Gao, Mark D Lessard, Edward Courchaine, Andrew ES Barentine, Martin Machyna, Valentina Botti, Ashley Qin, Rana Gbyli, Amisha Patel, Yuanbin Song, Lea Kiefer, Gabriella Viero, Nils Neuenkirchen, Haifan Lin, Joerg Bewersdorf, Matthew D Simon, Karla M Neugebauer, Toma Tebaldi*°, Stephanie Halene*°. Precision analysis of mutant U2AF1 activity reveals deployment of stress granules in myeloid malignancies. Molecular Cell (2022), 82(6). 1107-1122. e7.

2021  ⸻⸻⸻⸻⸻⸺⸺

• Zach Marin, Michael Graff, Andrew ES Barentine, Christian Soeller, Kenny KH Chung, Lukas A Fuentes, David Baddeley°. PYMEVisualize: an open-source tool for exploring 3D super-resolution data. Nature Methods (2021), 18(6). 582–584.

• Zach Marin, Lukas A Fuentes, Joerg Bewersdorf, David Baddeley. Extracting Organelle Membrane Topology from Super-Resolution Microscopy Data. Biophysical Journal (2021), 120(3). Supplement 1, 279A.

• Jonathan Tyson, Kevin Hu, Shuai Zheng, Phylicia Kidd, Neville Dadina, Ling Chu, Derek Toomre, Joerg Bewersdorf°, Alanna Schepartz°. Extremely bright, near-IR emitting spontaneously blinking fluorophores enable ratiometric multicolor nanoscopy in live cells. ACS Central Science (2021), 7(8). 1419-1426.

• Edward M Courchaine, Andrew ES Barentine, Korinna Straube, Dong-Ryoung Lee, Joerg Bewersdorf, Karla M Neugebauer°. DMA-tudor interaction modules control the specificity of in vivo condensates. Cell (2021), 184(14). 3612-3625. e17.

• Dong-Ryoung Lee, Joerg Bewersdorf°. Pupil function design for multifocal confocal, STED, and isoSTED microscopy. Applied Optics (2021), 60(18). 5354-5359.

• Xiang Hao*, Edward S Allgeyer*, Dong-Ryoung Lee*, Jacopo Antonello, Katherine Watters, Julianne A Gerdes, Lena K Schroeder, Francesca Bottanelli, Jiaxi Zhao, Phylicia Kidd, Mark D Lessard, James E Rothman, Lynn Cooley, Thomas Biederer, Martin J Booth, Joerg Bewersdorf°. Three-dimensional adaptive optical nanoscopy for thick specimen imaging at sub-50-nm resolution. Nature Methods (2021), 18(6). 688-693.

• Mary Grace M Velasco, Mengyang Zhang, Jacopo Antonello, Peng Yuan, Edward S Allgeyer, Dennis May, Ons M’Saad, Phylicia Kidd, Andrew ES Barentine, Valentina Greco, Jaime Grutzendler, Martin J Booth, Joerg Bewersdorf°. 3D super-resolution deep-tissue imaging in living mice. Optica (2021), 8(4). 442-450.

• Nicholas Bender, Mengyuan Sun, Hasan Yılmaz, Joerg Bewersdorf, Hui Cao°. Circumventing the optical diffraction limit with customized speckles. Optica (2021), 8(2). 122-129.

• Jingyu Wang*, Edward S Allgeyer*, George Sirinakis, Yongdeng Zhang, Kevin Hu, Mark D Lessard, Yiming Li, Robin Diekmann, Michael A Phillips, Ian M Dobbie°, Jonas Ries°, Martin J Booth°, Joerg Bewersdorf°. Implementation of a 4Pi-SMS super-resolution microscope. Nature Protocols (2021), 16(2). 677-727.

• Mengyuan Sun, Kevin Hu, Joerg Bewersdorf°, Thomas D Pollard°. Sample preparation and imaging conditions affect mEos3. 2 photophysics in fission yeast cells. Biophysical Journal (2021), 120(1). 21-34.

2020  ⸻⸻⸻⸻⸻⸺⸺

• Ons M’Saad, Joerg Bewersdorf°. Light microscopy of proteins in their ultrastructural context. Nature Communications (2020), 11(1). 3850.