Scholars@Duke

• Background
• 

  Education, Training, & Certifications

  • Ph.D., Rockefeller University 2009
• 

  Previous Appointments & Affiliations

  • Assistant Professor in Orthopaedic Surgery, Orthopaedic Surgery, Clinical Science Departments 2019 - 2020
  • Assistant Professor of Cell Biology, Cell Biology, Basic Science Departments 2014 - 2020
  • Instructor, Temporary in the Department of Cell Biology, Cell Biology, Basic Science Departments 2013 - 2014
• Recognition
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  In the News

  • MAY 2, 2019

    Developing Cells Do Synchronized Swimming Inside the Embryo
• Expertise
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  Subject Headings

  • Muser Mentor
• Research
• 

  Selected Grants

  • Training Program in Developmental and Stem Cell Biology awarded by National Institutes of Health 2001 - 2027
  • Cell and Molecular Biology Training Program awarded by National Institutes of Health 2021 - 2026
  • Mechanisms and developmental functions of cytoplasmic flows in early embryogenesis awarded by National Institutes of Health 2021 - 2025
  • Genetic and Genomics Training Grant awarded by National Institutes of Health 2020 - 2025
  • Quantitative dissection of the events that encode bone size and shape during regeneration awarded by National Institutes of Health 2022 - 2025
  • Genetic approaches to skin regeneration in zebrafish awarded by National Institutes of Health 2020 - 2025
  • LIVE IMAGING OF BONE REGENERATION IN ZEBRAFISH awarded by National Institutes of Health 2020 - 2025
  • Quantitative analysis of signaling dynamics across the BMP morphogen gradient awarded by National Institutes of Health 2022 - 2024
  • Control of Tissue Geometry Through Signaling Waves During Regeneration awarded by Shipley Foundation, Inc. 2019 - 2022
  • An integrative cellular blueprint of vertebrate tissue development awarded by University of California - San Diego 2018 - 2022
  • Time-keeping mechanisms of embryonic cell cycles awarded by National Institutes of Health 2017 - 2022
  • Enteroendocrine cells sense gut bacteria and activate a gut-brain pathway awarded by National Institutes of Health 2021
  • Bioinformatics and Computational Biology Training Program awarded by National Institutes of Health 2005 - 2021
  • Genetics Training Grant awarded by National Institutes of Health 1979 - 2020
  • Organization and Function of Cellular Structure awarded by National Institutes of Health 1975 - 2020
  • Regulation of the Epicardial Injury Response During Heart Regeneration in Zebrafish awarded by National Institutes of Health 2016 - 2019
  • Regulation of Appendage Regeneration in Zebrafish awarded by National Institutes of Health 2006 - 2018
  • Time-Keeping Mechanisms in Drosophila Embryonic Development awarded by National Institutes of Health 2014 - 2017
• Publications & Artistic Works
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  Selected Publications

  • Academic Articles

    • Miao, Yuchuan, Yannis Djeffal, Alessandro De Simone, Kongju Zhu, Jong Gwan Lee, Ziqi Lu, Andrew Silberfeld, et al. “Reconstruction and deconstruction of human somitogenesis in vitro.” Nature, December 21, 2022. https://doi.org/10.1038/s41586-022-05655-4.
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    • Ferree, Patrick L., Maggie Xing, Jenny Q. Zhang, and Stefano Di Talia. “Structure-function analysis of Cdc25Twine degradation at the Drosophila maternal-to-zygotic transition.” Fly (Austin) 16, no. 1 (December 2022): 111–17. https://doi.org/10.1080/19336934.2022.2043095.
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    • Haertter, Daniel, Xiaolei Wang, Stephanie M. Fogerson, Nitya Ramkumar, Janice M. Crawford, Kenneth D. Poss, Stefano Di Talia, Daniel P. Kiehart, and Christoph F. Schmidt. “DeepProjection: specific and robust projection of curved 2D tissue sheets from 3D microscopy using deep learning.” Development 149, no. 21 (November 1, 2022). https://doi.org/10.1242/dev.200621.
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    • Hayden, Luke, Woonyung Hur, Massimo Vergassola, and Stefano Di Talia. “Manipulating the nature of embryonic mitotic waves.” Current Biology : Cb 32, no. 22 (November 2022): 4989-4996.e3. https://doi.org/10.1016/j.cub.2022.10.014.
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    • Bagnat, Michel, Bijoy Daga, and Stefano Di Talia. “Morphogenetic Roles of Hydrostatic Pressure in Animal Development.” Annu Rev Cell Dev Biol 38 (October 6, 2022): 375–94. https://doi.org/10.1146/annurev-cellbio-120320-033250.
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    • Di Talia, Stefano. “Using balloons and rubber bands to learn about inter-cellular bridges.” Biophys J 121, no. 16 (August 16, 2022): 2995–96. https://doi.org/10.1016/j.bpj.2022.07.010.
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    • Di Talia, S. “Geometry and symmetry-breaking in cell polarity.” Nature Computational Science 2, no. 8 (August 1, 2022): 473–74. https://doi.org/10.1038/s43588-022-00304-2.
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    • Di Talia, Stefano, and Massimo Vergassola. “Waves in Embryonic Development.” Annu Rev Biophys 51 (May 9, 2022): 327–53. https://doi.org/10.1146/annurev-biophys-111521-102500.
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    • Hayden, Luke, Anna Chao, Victoria E. Deneke, Massimo Vergassola, Alberto Puliafito, and Stefano Di Talia. “Cullin-5 mutants reveal collective sensing of the nucleocytoplasmic ratio in Drosophila embryogenesis.” Curr Biol 32, no. 9 (May 9, 2022): 2084-2092.e4. https://doi.org/10.1016/j.cub.2022.03.007.
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    • Haertter, Daniel, Xiaolei Wang, Stephanie M. Fogerson, Nitya Ramkumar, Janice M. Crawford, Kenneth D. Poss, Stefano Di Talia, Daniel P. Kiehart, and Christoph F. Schmidt. “DeepProjection: Rapid and structure-specific projections of tissue sheets embedded in 3D microscopy stacks using deep learning.” Biorxiv, November 17, 2021. https://doi.org/10.1101/2021.11.17.468809.
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    • Hayden, Luke D., Kenneth D. Poss, Alessandro De Simone, and Stefano Di Talia. “Mathematical modeling of Erk activity waves in regenerating zebrafish scales.” Biophys J 120, no. 19 (October 5, 2021): 4287–97. https://doi.org/10.1016/j.bpj.2021.05.004.
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    • Brantley, Susanna E., and Stefano Di Talia. “Cell cycle control during early embryogenesis.” Development 148, no. 13 (July 1, 2021). https://doi.org/10.1242/dev.193128.
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    • Lenne, Pierre-François, Edwin Munro, Idse Heemskerk, Aryeh Warmflash, Laura Bocanegra-Moreno, Kasumi Kishi, Anna Kicheva, et al. “Roadmap for the multiscale coupling of biochemical and mechanical signals during development.” Phys Biol 18, no. 4 (April 14, 2021). https://doi.org/10.1088/1478-3975/abd0db.
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    • De Simone, Alessandro, Maya N. Evanitsky, Luke Hayden, Ben D. Cox, Julia Wang, Valerie A. Tornini, Jianhong Ou, Anna Chao, Kenneth D. Poss, and Stefano Di Talia. “Control of osteoblast regeneration by a train of Erk activity waves.” Nature 590, no. 7844 (February 2021): 129–33. https://doi.org/10.1038/s41586-020-03085-8.
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    • Hur, Woonyung, James P. Kemp, Marco Tarzia, Victoria E. Deneke, William F. Marzluff, Robert J. Duronio, and Stefano Di Talia. “CDK-Regulated Phase Separation Seeded by Histone Genes Ensures Precise Growth and Function of Histone Locus Bodies.” Dev Cell 54, no. 3 (August 10, 2020): 379-394.e6. https://doi.org/10.1016/j.devcel.2020.06.003.
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    • Deneke, Victoria E., Alberto Puliafito, Daniel Krueger, Avaneesh V. Narla, Alessandro De Simone, Luca Primo, Massimo Vergassola, Stefano De Renzis, and Stefano Di Talia. “Self-Organized Nuclear Positioning Synchronizes the Cell Cycle in Drosophila Embryos.” Cell 177, no. 4 (May 2, 2019): 925-941.e17. https://doi.org/10.1016/j.cell.2019.03.007.
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    • Ferree, Patrick, and Stefano Di Talia. “Developmental Biology: Embryos Need to Control Their Nucleotides Just Right.” Curr Biol 29, no. 7 (April 1, 2019): R252–54. https://doi.org/10.1016/j.cub.2019.02.051.
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    • Cox, Ben D., Alessandro De Simone, Valerie A. Tornini, Sumeet P. Singh, Stefano Di Talia, and Kenneth D. Poss. “In Toto Imaging of Dynamic Osteoblast Behaviors in Regenerating Skeletal Bone.” Curr Biol 28, no. 24 (December 17, 2018): 3937-3947.e4. https://doi.org/10.1016/j.cub.2018.10.052.
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    • Ferree, P. L., and S. Di Talia. “Chemical Waves in Embryonic Cell Cycles.” Israel Journal of Chemistry 58, no. 6 (June 1, 2018): 714–21. https://doi.org/10.1002/ijch.201700144.
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    • Deneke, Victoria E., and Stefano Di Talia. “Chemical waves in cell and developmental biology.” J Cell Biol 217, no. 4 (April 2, 2018): 1193–1204. https://doi.org/10.1083/jcb.201701158.
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    • Vergassola, Massimo, Victoria E. Deneke, and Stefano Di Talia. “Mitotic waves in the early embryogenesis of Drosophila: Bistability traded for speed.” Proc Natl Acad Sci U S A 115, no. 10 (March 6, 2018): E2165–74. https://doi.org/10.1073/pnas.1714873115.
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    • Cao, Jingli, Jinhu Wang, Christopher P. Jackman, Amanda H. Cox, Michael A. Trembley, Joseph J. Balowski, Ben D. Cox, et al. “Tension Creates an Endoreplication Wavefront that Leads Regeneration of Epicardial Tissue.” Dev Cell 42, no. 6 (September 25, 2017): 600-615.e4. https://doi.org/10.1016/j.devcel.2017.08.024.
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    • Ferree, Patrick L., and Stefano Di Talia. “For Embryos, Mother Can Only Take You So Far.” Dev Cell 42, no. 3 (August 7, 2017): 203–5. https://doi.org/10.1016/j.devcel.2017.07.016.
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    • Tornini, Valerie A., Alberto Puliafito, Leslie A. Slota, John D. Thompson, Gregory Nachtrab, Anna-Lila Kaushik, Marika Kapsimali, Luca Primo, Stefano Di Talia, and Kenneth D. Poss. “Live Monitoring of Blastemal Cell Contributions during Appendage Regeneration.” Curr Biol 26, no. 22 (November 21, 2016): 2981–91. https://doi.org/10.1016/j.cub.2016.08.072.
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    • Di Talia, Stefano, and Kenneth D. Poss. “Monitoring Tissue Regeneration at Single-Cell Resolution.” Cell Stem Cell 19, no. 4 (October 6, 2016): 428–31. https://doi.org/10.1016/j.stem.2016.09.007.
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    • Momen-Roknabadi, Amir, Stefano Di Talia, and Eric Wieschaus. “Transcriptional Timers Regulating Mitosis in Early Drosophila Embryos.” Cell Rep 16, no. 11 (September 13, 2016): 2793–2801. https://doi.org/10.1016/j.celrep.2016.08.034.
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    • Deneke, Victoria E., Anna Melbinger, Massimo Vergassola, and Stefano Di Talia. “Waves of Cdk1 Activity in S Phase Synchronize the Cell Cycle in Drosophila Embryos.” Dev Cell 38, no. 4 (August 22, 2016): 399–412. https://doi.org/10.1016/j.devcel.2016.07.023.
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    • Ferree, Patrick L., Victoria E. Deneke, and Stefano Di Talia. “Measuring time during early embryonic development.” Semin Cell Dev Biol 55 (July 2016): 80–88. https://doi.org/10.1016/j.semcdb.2016.03.013.
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    • Chen, Chen-Hui, Alberto Puliafito, Ben D. Cox, Luca Primo, Yi Fang, Stefano Di Talia, and Kenneth D. Poss. “Multicolor Cell Barcoding Technology for Long-Term Surveillance of Epithelial Regeneration in Zebrafish.” Dev Cell 36, no. 6 (March 21, 2016): 668–80. https://doi.org/10.1016/j.devcel.2016.02.017.
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    • Xenopoulos, Panagiotis, Minjung Kang, Alberto Puliafito, Stefano Di Talia, and Anna-Katerina Hadjantonakis. “Heterogeneities in Nanog Expression Drive Stable Commitment to Pluripotency in the Mouse Blastocyst.” Cell Rep 10, no. 9 (March 10, 2015): 1508–20. https://doi.org/10.1016/j.celrep.2015.02.010.
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    • Di Talia, Stefano, and Eric F. Wieschaus. “Simple biochemical pathways far from steady state can provide switchlike and integrated responses.” Biophys J 107, no. 3 (August 5, 2014): L1–4. https://doi.org/10.1016/j.bpj.2014.06.018.
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    • Schrode, Nadine, Néstor Saiz, Stefano Di Talia, and Anna-Katerina Hadjantonakis. “GATA6 levels modulate primitive endoderm cell fate choice and timing in the mouse blastocyst.” Dev Cell 29, no. 4 (May 27, 2014): 454–67. https://doi.org/10.1016/j.devcel.2014.04.011.
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    • Di Talia, Stefano, Richard She, Shelby A. Blythe, Xuemin Lu, Qi Fan Zhang, and Eric F. Wieschaus. “Posttranslational control of Cdc25 degradation terminates Drosophila's early cell-cycle program.” Curr Biol 23, no. 2 (January 21, 2013): 127–32. https://doi.org/10.1016/j.cub.2012.11.029.
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    • Di Talia, Stefano, and Eric F. Wieschaus. “Short-term integration of Cdc25 dynamics controls mitotic entry during Drosophila gastrulation.” Dev Cell 22, no. 4 (April 17, 2012): 763–74. https://doi.org/10.1016/j.devcel.2012.01.019.
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    • Zilman, Anton, Stefano Di Talia, Tijana Jovanovic-Talisman, Brian T. Chait, Michael P. Rout, and Marcelo O. Magnasco. “Enhancement of transport selectivity through nano-channels by non-specific competition.” Plos Comput Biol 6, no. 6 (June 10, 2010): e1000804. https://doi.org/10.1371/journal.pcbi.1000804.
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    • Zilman, A., S. D. Talia, T. Jovanovic-Talisman, B. T. Chait, M. P. Rout, and M. O. Magnasco. “Enhancement of transport selectivity through nano-channels by non-specific competition.” Plos Computational Biology 6, no. 6 (2010): e1000804. https://doi.org/10.1371/journal.pcbi.1000804.
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    • Di Talia, Stefano, Hongyin Wang, Jan M. Skotheim, Adam P. Rosebrock, Bruce Futcher, and Frederick R. Cross. “Daughter-specific transcription factors regulate cell size control in budding yeast.” Plos Biol 7, no. 10 (October 2009): e1000221. https://doi.org/10.1371/journal.pbio.1000221.
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    • Skotheim, Jan M., Stefano Di Talia, Eric D. Siggia, and Frederick R. Cross. “Positive feedback of G1 cyclins ensures coherent cell cycle entry.” Nature 454, no. 7202 (July 17, 2008): 291–96. https://doi.org/10.1038/nature07118.
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    • Di Talia, S., J. M. Skotheim, J. M. Bean, E. D. Siggia, and F. R. Cross. “The effects of molecular noise and size control on variability in the budding yeast cell cycle (Nature (2007) 448, (947-951)).” Nature 450, no. 7173 (December 20, 2007): 1272. https://doi.org/10.1038/nature06511.
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    • Di Talia, Stefano, Jan M. Skotheim, James M. Bean, Eric D. Siggia, and Frederick R. Cross. “The effects of molecular noise and size control on variability in the budding yeast cell cycle.” Nature 448, no. 7156 (August 23, 2007): 947–51. https://doi.org/10.1038/nature06072.
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    • Zilman, Anton, Stefano Di Talia, Brian T. Chait, Michael P. Rout, and Marcelo O. Magnasco. “Efficiency, selectivity, and robustness of nucleocytoplasmic transport.” Plos Comput Biol 3, no. 7 (July 2007): e125. https://doi.org/10.1371/journal.pcbi.0030125.
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    • Candia, Antonio de, Andrea Gamba, Fausto Cavalli, Antonio Coniglio, Stefano Di Talia, Federico Bussolino, and Guido Serini. “A simulation environment for directional sensing as a phase separation process.” Sci Stke 2007, no. 378 (March 20, 2007): pl1. https://doi.org/10.1126/stke.3782007pl1.
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    • Zilman, A., S. D. Talia, B. T. Chait, M. P. Rout, and M. O. Magnasco. “Efficiency, selectivity, and robustness of nucleocytoplasmic transport.” Plos Computational Biology 3, no. 7 (2007): e125. https://doi.org/10.1371/journal.pcbi.0030125.
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    • Di Talia, S., A. Gamba, F. Lamberti, and G. Serini. “Role of repulsive factors in vascularization dynamics.” Phys Rev E Stat Nonlin Soft Matter Phys 73, no. 4 Pt 1 (April 2006): 041917. https://doi.org/10.1103/PhysRevE.73.041917.
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    • Gamba, Andrea, Antonio de Candia, Stefano Di Talia, Antonio Coniglio, Federico Bussolino, and Guido Serini. “Diffusion-limited phase separation in eukaryotic chemotaxis.” Proc Natl Acad Sci U S A 102, no. 47 (November 22, 2005): 16927–32. https://doi.org/10.1073/pnas.0503974102.
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    • Coniglio, A., A. De Candia, S. Di Talia, and A. Gamba. “Erratum: Percolation and Burgers' dynamics in a model of capillary formation (Physical Review E (2004) 69 (051910)).” Physical Review E  Statistical, Nonlinear, and Soft Matter Physics 70, no. 3 2 (September 1, 2004): 039902–039901. https://doi.org/10.1103/PhysRevE.70.039902.
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    • Coniglio, A., A. de Candia, S. Di Talia, and A. Gamba. “Percolation and Burgers' dynamics in a model of capillary formation.” Phys Rev E Stat Nonlin Soft Matter Phys 69, no. 5 Pt 1 (May 2004): 051910. https://doi.org/10.1103/PhysRevE.69.051910.
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    • Coniglio, A., A. De Candia, S. Di Talia, and A. Gamba. “Percolation and Burgers' dynamics in a model of capillary formation.” Physical Review E  Statistical, Nonlinear, and Soft Matter Physics 69, no. 5 2 (January 1, 2004).
    • Gamba, A., D. Ambrosi, A. Coniglio, A. De Candia, S. Di Talia, E. Giraudo, G. Serini, L. Preziosi, and F. Bussolino. “Percolation, morphogenesis, and burgers dynamics in blood vessels formation.” Physical Review Letters 90, no. 11 (March 21, 2003).
    • Gamba, A., D. Ambrosi, A. Coniglio, A. de Candia, S. Di Talia, E. Giraudo, G. Serini, L. Preziosi, and F. Bussolino. “Percolation, morphogenesis, and burgers dynamics in blood vessels formation.” Phys Rev Lett 90, no. 11 (March 21, 2003): 118101. https://doi.org/10.1103/PhysRevLett.90.118101.
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  • Book Sections

    • Di Talia, Stefano, Hongyin Wang, Jan M. Skotheim, Adam P. Rosebrock, Bruce Futcher, and Frederick R. Cross. “DAUGHTER-SPECIFIC TRANSCRIPTION FACTORS REGULATE CELL SIZE CONTROL IN BUDDING YEAST.” In INVESTIGATIONS IN YEAST FUNCTIONAL GENOMICS AND MOLECULAR BIOLOGY, 1–39, 2014. https://doi.org/10.1371/journal.pbio.1000221.
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  • Conference Papers

    • Falahati, Hanieh, Woonyung Hur, Stefano Di Talia, and Eric Wieschaus. “Temperature-Induced uncoupling of cell cycle regulators.” In Dev Biol, 470:147–53, 2021. https://doi.org/10.1016/j.ydbio.2020.11.010.
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    • Deneke, V., M. Vergassola, A. Puliafito, and S. Di Talia. “Physical and molecular mechanisms of cell cycle synchronization in early Drosophila embryos.” In Molecular Biology of the Cell, Vol. 28. AMER SOC CELL BIOLOGY, 2017.
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    • Saiz, N., M. Kang, A. Puliafito, N. Schrode, P. Xenopoulos, X. Lou, S. Di Talia, and A. K. Hadjantonakis. “Quantitative analyses for elucidating mechanisms of cell fate commitment in the mouse blastocyst.” In Progress in Biomedical Optics and Imaging  Proceedings of Spie, Vol. 9334, 2015. https://doi.org/10.1117/12.2081232.
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    • Roknabadi, A Momen, S. Di Talia, and E. Wieschaus. “Studying The Regulation of Temporal Patterning of String Transcription in Early Drosophila Cell Cycles.” In Molecular Biology of the Cell, Vol. 25. AMER SOC CELL BIOLOGY, 2014.
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    • Gamba, A., A. De Candia, S. Di Talia, A. Coniglio, F. Bussolino, and G. Serini. “Phase separation in eukaryotic directional sensing,” 38:23–32, 2007. https://doi.org/10.1007/978-0-8176-4558-8_3.
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    • Gamba, A., A. De Candia, F. Cavalli, S. Di Talia, A. Coniglio, F. Bussolino, and G. Serini. “A computational model for eukaryotic directional sensing.” In Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 4210 LNBI:184–95, 2006. https://doi.org/10.1007/11885191_13.
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• Teaching & Mentoring
• 

  Recent Courses

  • CELLBIO 493: Research Independent Study 2023
  • CELLBIO 493: Research Independent Study 2022
  • CELLBIO 899: Internship 2022
  • CELLBIO 493: Research Independent Study 2021
  • CELLBIO 899: Internship 2021
  • CMB 640: Quantitative Approaches to Biological Problems: From Cartoon Models to System Behavior 2021
  • CMB 710D: Cell & Molecular Biology Module IV 2021
  • UPGEN 640: Quantitative Approaches to Biological Problems: From Cartoon Models to System Behavior 2021

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