Oldenbourg Publications

Articles in reverse chronological order

  1. Tran, M. T. and Oldenbourg, R. (2018).聽Mapping birefringence in three dimensions using polarized light field聽microscopy: the case of the juvenile聽clamshell. J. Microsc., 271(3):315-324.聽
  2. Yoshizawa, T., Ali, R., Jiou, J., Fung, H. Y.聽J., Burke, K. A., Kim, S. J., Lin, Y., Peeples, W. B., Saltzberg, D., Soniat,聽M., Baumhardt, J. M.,聽Oldenbourg,聽R.,聽Sali, A., Fawzi, N. L., Rosen, M. K. and Chook, Y. M. (2018). Nuclear Import聽Receptor Inhibits Phase Separation of FUS through Binding to Multiple聽Sites.聽Cell, 173(3):693-705 e22.聽
  3. Chandler, T., Mehta, S., Shroff, H.,聽Oldenbourg, R., and La Riviere, P. J.聽(2017). Single-fluorophore orientation determination with multiview聽polarized聽illumination: modeling and microscope design. Opt Express, 25(25):31309-31325.聽
  4. Nordenfelt,聽P., Moore, T. I., Mehta, S. B., Kalappurakkal, J. M., Swaminathan, V., Koga,聽N., Lambert, T. J., Baker, D., Waters, J. C.,聽Oldenbourg, R.,聽Tani, T., Mayor, S., Waterman, C. M. and Springer,聽T. A. (2017). Direction of actin flow dictates integrin LFA-1 orientation聽during leukocyte聽migration. Nature communications, 8(1):2047.聽
  5. Spira,聽F., Cuylen-Haering, S., Mehta, S., Samwer, M., Reversat, A., Verma, A.,聽Oldenbourg, R., Sixt, M. and Gerlich,聽D. W. (2017). Cytokinesis in聽vertebrate cells initiates by contraction of an聽equatorial actomyosin network composed of randomly oriented filaments. Elife,聽6.聽
  6. Gibaud, T., Kaplan, C. N., Sharma, P.,聽Zakhary, M. J., Ward, A.,聽Oldenbourg, R.,聽Meyer, R. B., Kamien, R. D., Powers, T. R. and Dogic, Z. (2017).聽Achiral聽symmetry breaking and positive Gaussian modulus lead to scalloped colloidal聽membranes. Proc Natl Acad Sci U S A, 114(17):E3376-E3384.聽
  7. Keikhosravi, A., Liu, Y., Drifka, C., Woo, K.聽M., Verma, A.,聽Oldenbourg, R.聽and聽Eliceiri, K. W. (2017). Quantification of collagen organization in聽histopathology samples using liquid crystal based polarization microscopy.聽Biomed Opt Express, 8(9):4243-4256.聽
  8. Swaminathan, V., Kalappurakkal, J. M., Mehta,聽S. B., Nordenfelt, P., Moore, T. I., Koga, N., Baker, D. A.,聽Oldenbourg, R., Tani, T., Mayor, S.,聽Springer,聽T. A. and Waterman, C. M. (2017). Actin retrograde flow actively聽aligns and orients ligand-engaged integrins in focal adhesions. Proc Natl Acad聽Sci U聽S A, 114(40):10648-10653.聽
  9. Tkacz,聽R., Abedin, M. J., Sheath, P., Mehta, S. B., Verma, A., Oldenbourg, R. and聽Majumder, M. (2017). Phase Transition and Liquid Crystalline聽Organization of聽Colloidal Graphene Oxide as a Function of pH. Particle & Particle Systems聽Characterization, 34(9):1600391.聽
  10. McQuilken,聽M., Jentzsch, M. S., Verma, A., Mehta, S. B.,聽Oldenbourg, R.,聽and Gladfelter, A. S. (2017). Analysis of Septin聽Reorganization at聽Cytokinesis Using Polarized Fluorescence Microscopy. Front聽Cell Dev Biol, 5:42.聽
  11. Mehta, S. B., M. McQuilken, P. J. La Riviere,聽P. Occhipinti, A. Verma,聽R. Oldenbourg,聽A. S. Gladfelter and T. Tani. 2016. Dissection of molecular聽assembly dynamics聽by tracking orientation and position of single molecules in live cells.聽Proceedings聽of the National Academy of Sciences聽113:E6352-E6361.聽
  12. Valm, A. M.,聽R. Oldenbourg聽and G. G. Borisy. 2016. Multiplexed Spectral Imaging聽of 120 Different Fluorescent Labels.聽PLoS One聽11: e0158495.聽
  13. Tani, T., M. Shribak and聽R. Oldenbourg. 2016. Living Cells and Dynamic Molecules Observed聽with the Polarized Light Microscope: the Legacy of聽Shinya Inoue.聽Biological聽Bulletin聽231: 85-95.聽

  14. Thievessen, I., Fakhri, N., Steinwachs, J., Kraus, V., McIsaac, R. S., Gao, L., Chen, B. C., Baird, M. A., Davidson, M. W., Betzig, E., Oldenbourg, R., Waterman,聽C. M. and Fabry, B. (2015). Vinculin is required for cell polarization, migration, and extracellular matrix remodeling in 3D collagen. FASEB J., 29(11):4555-67.聽doi:聽

  15. Min, K. A., Rajeswaran, W. G., Oldenbourg, R., Harris, G., Keswani, R. K., Chiang, M., Rzeczycki, P., Talattof, A., Hafeez, M., Horobin, R. W., Larsen, S. D.,聽Stringer, K. A. and Rosania, G. R. (2015). Massive Bioaccumulation and Self-Assembly of Phenazine Compounds in Live Cells. Adv Sci (Weinh), 2(8). doi:聽
  16. McQuilken, M., Mehta, S. B., Verma, A., Harris, G., Oldenbourg, R. and Gladfelter, A. S. (2015). Polarized Fluorescence Microscopy to Study Cytoskeleton聽Assembly and Organization in Live Cells. Curr Protoc Cell Biol, 67:4 29 1-4 29 13. doi:聽
  17. Koike-Tani, M., Tani, T., Mehta, S. B., Verma, A. and Oldenbourg, R. (2015). Polarized light microscopy in reproductive and developmental biology. Mol. Reprod.聽Dev., 82(7-8):548-62. doi:聽
  18. Henson, J. H., Yeterian, M., Weeks, R. M., Medrano, A. E., Brown, B. L., Geist, H. L., Pais, M. D., Oldenbourg, R. and Shuster, C. B. (2015). Arp2/3 Complex聽Inhibition Radically Alters Lamellipodial Actin Architecture, Suspended Cell Shape, and the Cell Spreading Process. Mol. Biol. Cell, 26(5):887-900. doi:聽
  19. Abrahamsson, S., McQuilken, M., Mehta, S. B., Verma, A., Larsch, J., Ilic, R., Heintzmann, R., Bargmann, C. I., Gladfelter, A. S. and Oldenbourg, R. (2015).聽MultiFocus Polarization Microscope (MF-PolScope) for 3D polarization imaging of up to 25 focal planes simultaneously. Optics Express, 23(6):7734-7754. doi:聽
  20. Zakhary, M. J., Gibaud, T., Kaplan, C. N., Barry, E., Oldenbourg, R., Meyer, R. B. and Dogic, Z. (2014). Imprintable membranes from incomplete chiral聽coalescence. Nat. Comm., 5:3063. doi:聽
  21. Tkacz, R., Oldenbourg, R., Mehta, S. B., Miansari, M., Verma, A. and Majumder, M. (2014). pH dependent isotropic to nematic phase transitions in graphene oxide聽dispersions reveal droplet liquid crystalline phases. Chem Commun, 50(50):6668-6671. doi:聽
  22. Tkacz, R., Oldenbourg, R., Fulcher, A., Miansari, M. and Majumder, M. (2014). Capillary-Force-Assisted Self-Assembly (CAS) of Highly Ordered and聽Anisotropic Graphene-Based Thin Films. J Phys Chem C, 118(1):259-267. doi:聽
  23. Mehta, S. B. and Oldenbourg, R. (2014). Image simulation for biological microscopy: microlith. Biomed. Opt. Express, 5(6):1822-1838. doi:聽
  24. LaFountain, J. R., Jr. and Oldenbourg, R. (2014). Kinetochore-driven outgrowth of microtubules is a central contributor to kinetochore fiber maturation in crane-fly聽spermatocytes. Mol. Biol. Cell, 25(9):1437-45. doi:聽
  25. Henson, J. H., Gianakas, A. D., Henson, L. H., Lakin, C. L., Voss, M. K., Bewersdorf, J., Oldenbourg, R. and Morris, R. L. (2014). Broadening the spectrum of聽actin-based protrusive activity mediated by Arp2/3 complex-facilitated polymerization: motility of cytoplasmic ridges and tubular projections. Cytoskeleton聽(Hoboken), 71(8):484-500. doi:聽.
  26. Oldenbourg, R. (2013) Polarization Microscopy. in N. T. Shaked Z. Zalevskey and L. Satterwhite (eds.)聽Biomedical Optical Phase Microscopy and Nanoscopy.聽Amsterdam: Elsevier.
  27. Mehta, S. B., Shribak, M. and Oldenbourg, R. (2013). Polarized light imaging of birefringence and diattenuation at high resolution and high sensitivity. Journal of聽Optics, 15:094007 (13pp). doi:聽
  28. LaFountain, J. R., Jr., C. S. Cohan and R. Oldenbourg. 2012. Pac-man motility of kinetochores unleashed by laser microsurgery. Molecular Biology of the Cell 23: 3133-42.
  29. Gibaud, T., E. Barry, M. J. Zakhary, M. Henglin, A. Ward, Y. Yang, C. Berciu, R. Oldenbourg, M. F. Hagan, D. Nicastro, R. B. Meyer and Z. Dogic. 2012. Reconfigurable self-assembly through chiral control of interfacial tension. Nature 481: 348-51.
  30. LaFountain, J. R., Jr., C. S. Cohan and R. Oldenbourg. 2011. Functional states of kinetochores revealed by laser microsurgery and fluorescent speckle microscopy. Molecular Biology of the Cell 22: 4801-8.
  31. DeMay, B. S., N. Noda, A. S. Gladfelter and R. Oldenbourg. 2011. Rapid and quantitative imaging of excitation polarized fluorescence reveals ordered septin dynamics in live yeast. Biophys. J. 101: 985-94.
  32. DeMay, B. S., X. Bai, L. Howard, P. Occhipinti, R. A. Meseroll, E. T. Spiliotis, R. Oldenbourg and A. S. Gladfelter. 2011. Septin filaments exhibit a dynamic, paired organization that is conserved from yeast to mammals. J. Cell Biol. 193: 1065-81.
  33. Valm, A. M., J. L. Welch, C. W. Rieken, Y. Hasegawa, M. L. Sogin, R. Oldenbourg, F. E. Dewhirst and G. G. Borisy. 2011. Systems-level analysis of microbial community organization through combinatorial labeling and spectral imaging. Proc Natl Acad Sci U S A 108: 4152-7.
  34. Miyata, H., N. Noda, D. J. Fairbairn, R. Oldenbourg and R. A. Cardullo. 2011. Assembly of the fluorescent acrosomal matrix and its fate in fertilization in the water strider, Aquarius remigis. J. Cell. Physiol. 226: 999-1006.
  35. Henson, J. H., D. Cheung, C. A. Fried, C. B. Shuster, M. K. McClellan, M. K. Voss, J. T. Sheridan and R. Oldenbourg. 2009. Structure and dynamics of an Arp2/3 complex-independent component of the lamellipodial actin network. Cell Motil. Cytoskeleton 66: 679-92.
  36. Barry, E., Z. Dogic, R. B. Meyer, R. A. Pelcovits and R. Oldenbourg. 2009. Direct Measurement of the Twist Penetration Length in a Single Smectic A Layer of Colloidal Virus Particles. J Phys Chem B 113: 3910-3.
  37. Guo, Y., Y. Liu, R. Oldenbourg, J. X. Tang and J. M. Valles, Jr. 2008. Effects of osmotic force and torque on microtubule bundling and pattern formation. Physical Review E (Statistical, Nonlinear, and Soft Matter Physics) 78: 041910.
  38. Oldenbourg, R. 2008. Polarized light field microscopy: an analytical method using a microlens array to simultaneously capture both conoscopic and orthoscopic views of birefringent objects. J. Microsc. 231: 419-32.
  39. Henson, J. H., C. A. Fried, M. K. McClellan, J. Ader, J. E. Davis, R. Oldenbourg and C. R. Simerly. 2008. Bipolar, anastral spindle development in artificially activated sea urchin eggs. Dev. Dyn. 237: 1348-58.
  40. Oldenbourg, R. 2007. Analysis of microtubule dynamics by polarized light. Methods Mol Med, 137, 111-123.
  41. Janicke, M. A., L. Lasko, R. Oldenbourg and J. R. LaFountain, Jr. 2007. Chromosome malorientations after meiosis II arrest cause nondisjunction. Mol. Biol. Cell 18: 1645-56.
  42. Barry, E., Z. Hensel, Z. Dogic, M. Shribak and R. Oldenbourg. 2006. Entropy-driven formation of a chiral liquid-crystalline phase of helical filaments. Phys. Rev. Lett. 96: Art. No. 018305.
  43. LaFountain, J. R., Jr. and R. Oldenbourg. 2004. Maloriented bivalents have metaphase positions at the spindle equator with more kinetochore microtubules to one pole than to the other. Mol. Biol. Cell 15: 5346-55.
  44. Kagawa, Y., T. L. Megraw and R. Oldenbourg. 2004. Cell division dynamics of Drosophila kc cells without functional mitotic centrosomes. Biol. Bull. 207: 161.
  45. Shribak, M. and R. Oldenbourg. 2003. Techniques for fast and sensitive measurements of two-dimensional birefringence distributions. Appl. Opt. 42: 3009-17.
  46. Shribak, M. and R. Oldenbourg. 2003. Three-dimensional birefringence distribution in reconstituted asters of Spisula oocytes revealed by scanned aperture polarized light microscopy. Biol. Bull. 205: 194-5.
  47. Wang, W. H., L. Meng, R. J. Hackett, R. Oldenbourg and D. L. Keefe. 2002. Rigorous thermal control during intracytoplasmic sperm injection stabilizes the meiotic spindle and improves fertilization and pregnancy rates. Fertil. Steril. 77: 1274-7.
  48. Shribak, M., S. Inou茅 and R. Oldenbourg. 2002. Polarization aberrations caused by differential transmission and phase shift in high NA lenses: theory, measurement and rectification. Opt. Eng. 41: 943-954.
  49. LaFountain, J. R., Jr., R. Oldenbourg, R. W. Cole and C. L. Rieder. 2001. Microtubule flux mediates poleward motion of acentric chromosome fragments during meiosis in insect spermatocytes. Mol. Biol. Cell 12: 4054-65.
  50. Oldenbourg, R. and P. T枚r枚k. 2000. Point spread functions of a polarizing microscope equipped with high numerical aperture lenses. Appl. Opt. 39: 6325-6331.
  51. Oldenbourg, R., K. Katoh and G. Danuser. 2000. Mechanism of lateral movement of filopodia and radial actin bundles across neuronal growth cones. Biophys. J. 78: 1176-82.
  52. Liu, L., J. R. Trimarchi, R. Oldenbourg and D. L. Keefe. 2000. Increased Birefringence in the Meiotic Spindle Provides a New Marker for the Onset of Activation in Living Oocytes. Biol. Reprod. 63: 251-258.
  53. Liu, L., R. Oldenbourg, J. R. Trimarchi and D. L. Keefe. 2000. A reliable, noninvasive technique for spindle imaging and enucleation of mammalian oocytes. Nat. Biotechnol. 18: 223-5.
  54. Danuser, G. and R. Oldenbourg. 2000. Probing f-actin flow by tracking shape fluctuations of radial bundles in lamellipodia of motile cells. Biophys. J. 79: 191-201.
  55. Silva, C. P., K. Kommineni, R. Oldenbourg and D. L. Keefe. 1999. The first polar body does not predict accurately the location of the metaphase II meiotic spindle in mammalian oocytes. Fertil. Steril. 71: 719-21.
  56. Oldenbourg, R. 1999. Polarized light microscopy of spindles. Methods Cell Biol. 61: 175-208.
  57. Katoh, K., K. Hammar, P. J. Smith and R. Oldenbourg. 1999. Arrangement of radial actin bundles in the growth cone of Aplysia bag cell neurons shows the immediate past history of filopodial behavior. Proc Natl Acad Sci U S A 96: 7928-31.
  58. Katoh, K., K. Hammar, P. J. Smith and R. Oldenbourg. 1999. Birefringence imaging directly reveals architectural dynamics of filamentous actin in living growth cones. Mol. Biol. Cell 10: 197-210.
  59. Oldenbourg, R., E. D. Salmon and P. T. Tran. 1998. Birefringence of single and bundled microtubules. Biophys. J. 74: 645-54.
  60. Inoue, S. and R. Oldenbourg. 1998. Microtubule dynamics in mitotic spindle displayed by polarized light microscopy. Mol. Biol. Cell 9: 1603-7.
  61. Tran, P. T., A. DePina, S. Inoue, R. Oldenbourg, S. J. Segal and M. H. Burgos. 1997. Effect of gossypol on Spisula sperm observed with real-time confocal microscopy, polarized light microscopy, and video microscopy. Biol. Bull. 193: 227-8.
  62. Keefe, D., P. Tran, C. Pellegrini and R. Oldenbourg. 1997. Polarized light microscopy and digital image processing identify a multilaminar structure of the hamster zona pellucida. Hum. Reprod. 12: 1250-2.
  63. Katoh, K., G. Langford, K. Hammar, P. J. Smith and R. Oldenbourg. 1997. Actin bundles in neuronal growth cone observed with the Pol-Scope. Biol. Bull. 193: 219-20.
  64. Tran, P., E. D. Salmon and R. Oldenbourg. 1996. Mitotic spindle fine structures observed with polarized light. Biol. Bull. 191: 271-272.
  65. Oldenbourg, R. 1996. A new view on polarization microscopy. Nature 381: 811-2.
  66. Katoh, K., K. Yamada, F. Oosawa and R. Oldenbourg. 1996. Birefringence Measurements of the actin bundle in acrosomal processes of Limulus sperm. Biol. Bull. 191: 271-272.
  67. Tran, P., E. D. Salmon and R. Oldenbourg. 1995. Quantifying single and bundled microtubules with the polarized light microscope. Biol. Bull. 189: 206.
  68. Oldenbourg, R. and G. Mei. 1995. New polarized light microscope with precision universal compensator. J. Microsc. 180 ( Pt 2): 140-7.
  69. Flamarique, I. N., R. Oldenbourg and F. I. Harosi. 1995. Transmission of polarized light through sunfish double cones reveals minute optical anisotropies. Biol. Bull. 189: 220-2.
  70. Tran, P. T., S. Inoue, E. D. Salmon and R. Oldenbourg. 1994. Muscle fine structure and microtubule birefringence measured with a new pol-scope. Biol. Bull. 187: 244-5.
  71. Oldenbourg, R., H. Terada, R. Tiberio and S. Inoue. 1993. Image sharpness and contrast transfer in coherent confocal microscopy. J. Microsc. 172 ( Pt 1): 31-9.
  72. Oldenbourg, R., G. Mei and R. E. Palazzo. 1993. Asters in lysates of Spisula oocytes observed with a new type of polarized light microscope. Biol. Bull. 185: 288.

Book Chapters:

  1. Oldenbourg, R.聽2018. Observing the living cell: Shinya聽Inou茅 and the reemergence of light microscopy. in K. S. Matlin, Maienschein,聽J., Laubichler,聽M.D. (ed.)聽Visions of Cell Biology: Reflections inspired by聽Cowdry鈥檚 GENERAL CYTOLOGY. Chicago: The University of Chicago Press.聽
  2. Oldenbourg, R. 2012. Polarization Microscopy. in N. T. Shaked, Z. Zalevskey, and L. Satterwhite (eds.) Biomedical Optical Phase Microscopy and Nanoscopy. Amsterdam: Elsevier.
  3. Oldenbourg, R. 2010. Polarized Light Microscopy: Principles and Practice. In: Rafael Yuste, editor. Optical Imaging Techniques: A Laboratory Manual. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
  4. Oldenbourg, R. and M. Shribak. 2010. Microscopes. In: Michael Bass, Jay M. Enoch, Vasudevan Lakshminarayanan, Guifang Li, Carolyn Macdonald, Virendra N. Mahajan, Eric Van Stryland, editors. Handbook of Optics. 3rd ed. New York: McGraw-Hill, Inc. p 28.1 鈥 28.62.
  5. Oldenbourg, R. 2005. Polarization microscopy with the LC-PolScope. In: R. D. Goldman and D. L. Spector, editors. Live Cell Imaging: A Laboratory Manual. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press. p 205-37.
  6. Oldenbourg, R., S. Inou茅, R. Tiberio, A. Stemmer, G. Mei and M. Skvarla. 1996. Standard test targets for high resolution light microscopy. In: H. C. Hoch, L. W. Jelinsky and H. Craighead, editors. Nanofabrication and Biosystems: Integrating Material Science, Engineering and Biology. Cambridge, England: Cambridge University Press. p 123-138.
  7. Inou茅, S. and R. Oldenbourg. 1995. Microscopes. In: M. Bass, editor. Handbook of Optics. 2nd ed. New York: McGraw-Hill, Inc. p 17.1-17.52.

Patents:

  1. Shribak, M. and R. Oldenbourg. 2008. Retardance Measurement System and Method. US Patent, Number 7,372,567. USA, Marine Biological Laboratory (Woods Hole, MA).
  2. Shribak, M. and R. Oldenbourg. 2007. Retardance Measurement System and Method. US Patent, Number 7,239,388. USA, Marine Biological Laboratory (Woods Hole, MA).
  3. Shribak, M. and R. Oldenbourg. 2007. Retardance Measurement System and Method. US Patent, Number 7,202,950. USA, Marine Biological Laboratory (Woods Hole, MA).
  4. Shribak, M., R. Oldenbourg, P. J. Cronin, C. C. Hoyt and P. J. Miller. 2006. Instantaneous Polarization Measurement System and Method. US Patent, Number 7,079,247. USA, Marine Biological Laboratory (Woods Hole, MA).
  5. Oldenbourg, R., M. Shribak, C. C. Hoyt and P. T枚r枚k. 2005. Enhancing Polarized Light Microscopy. US Patent, Number 6,924,893 B2. USA, Marine Biological Laboratory (Woods Hole, MA).
  6. Oldenbourg, R. 2002. Retardance measurement method. US Patent, Number 6,501,548. USA, Cambridge Research & Instrumentation Inc. (Woburn, MA).
  7. Oldenbourg, R. and G. Mei. 1996. Polarized Light Microscopy. US Patent, Number 5,521,705. USA, Marine Biological Laboratory (Woods Hole, MA).