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Bryan W. Jones, PhD

Languages spoken: English

Academic Information

Departments: Ophthalmology/Visual Sciences - Associate Professor

Academic Office Information

I am a retinal neuroscientist. My scientific work involves understanding the topology of neural circuitry, and what the evolution of neural circuitry can teach us about information processing. Understanding how we perceive the world through neural circuits involved in vision is compelling enough. But understanding how those circuits are altered in disease like retinitis pigmentosa, glaucoma, and age-related macular degeneration drives the work. Elucidating how retinal tissues are connected at the ultrastructural level is fundamental to understanding how retinas and therefore neural circuits process information, but also discovering how that circuitry is altered in disease. Defects in neural wiring reveal potential therapeutic interventions targeted at restoring or preventing vision loss. This work is responsible for discovering the substantial clinical significance of negative neuronal remodeling in retinal degenerations and extends to both animal disease models of, and human retinitis pigmentosa and macular degeneration. Specifically, exploring plasticity and remodeling in the retina along with glial reactions and neuronal death which are part and parcel of understanding pathological circuitry, particularly earlier in the disease process by creating complete network diagrams with rich data including classes, cell patternings, and complete connectivities. This work evolved into a new field called retinal connectomics, where I've been one of the pioneers. We created possibly the world's first retinal connectome, but certainly the first one with enough resolution to resolve synapses and gap junctions. My lab has also produced the very first pathoconnectome, in any tissue. This pathoconnectome or connectome of disease tissue was completed using retinal tissues via NIH/NEI funding, consonant with the goals of the NEI to understand normal retinal circuitry and how it is changed in disease.

I am also a some time photographer as a tacit personal reminder of why I work in retinal and visual sciences. My photographic work has been published or discussed in: NPRs Science Friday, National Geographic, The Smithsonian, Wired, Popular Science, Popular Mechanics, Science, the Washington Post, MSNBC, io9, Mother Nature Network, The Guardian UK, CNET, the Huffington Post, NewScientist, The Washington Times, Defense Technology International, Boing Boing, War is Boring, The Washington Independent, The NIH Director’s Blog, World Politics Review, Combat Aircraft, Mental Floss Magazine, USA Today, Warships International and others. I’ve also had gallery work presented in the Museum für Gestaltung in Zürich and Art Access in Salt Lake City and had materials used in documentary films.

Research Statement

Research Interests: Retinal vision, synaptic transmission, neuronal circuitry, retinal cell biology, metabolism, connectomics

Education History

Postdoctoral Fellowship Moran Eye Center
Postdoctoral Fellow
Postdoctoral Fellowship Huntsman Cancer Institute
Cell Biology
Postdoctoral Fellow
Doctoral Training University of Utah
Undergraduate University of Utah
Biology, Chemistry

Selected Publications

  1. Rohrer B, Parsons N, Annamalai B, Nicholson C, Obert E, Jones BW, Dick AD (2021). Peptide-based immunotherapy against oxidized elastin ameliorates pathology in mouse model of smoke-induced ocular injury. Exp Eye Res, 212, 108755.
  2. Ning K, Sendayen BE, Kowal TJ, Wang B, Jones BW, Hu Y, Sun Y (2021). Primary Cilia in Amacrine Cells in Retinal Development. Invest Ophthalmol Vis Sci, 62(9), 15.
  3. Kosta P, Iseri E, Loizos K, Paknahad J, Pfeiffer RL, Sigulinsky CL, Anderson JR, Jones BW, Lazzi G (2021). Model-based comparison of current flow in rod bipolar cells of healthy and early-stage degenerated retina. Exp Eye Res, 207, 108554.
  4. Annamalai B, Parsons N, Nicholson C, Joseph K, Coughlin B, Yang X, Jones BW, Tomlinson S, Rohrer B (2021). Natural immunoglobulin M-based delivery of a complement alternative pathway inhibitor in mouse models of retinal degeneration. Exp Eye Res, 207, 108583.
  5. Annamalai B, Parsons N, Nicholson C, Obert E, Jones B, Rohrer B (2021). Subretinal Rather Than Intravitreal Adeno-Associated Virus-Mediated Delivery of a Complement Alternative Pathway Inhibitor Is Effective in a Mouse Model of RPE Damage. Invest Ophthalmol Vis Sci, 62(4), 11.
  6. Pfeiffer RL, Anderson JR, Dahal J, Garcia JC, Yang JH, Sigulinsky CL, Rapp K, Emrich DP, Watt CB, Johnstun HA, Houser AR, Marc RE, Jones BW (2020). A pathoconnectome of early neurodegeneration: Network changes in retinal degeneration. Exp Eye Res, 199, 108196.
  7. Bryan W Jones, and Robert E Marc (2020). Retinal Connectomics. In Editor-in-Chief: Bernd Fritzsch (Ed.), The Senses: A Comprehensive Reference (2nd). Elsevier.
  8. Sigulinsky CL, Anderson JR, Kerzner E, Rapp CN, Pfeiffer RL, Rodman TM, Emrich DP, Rapp KD, Nelson NT, Lauritzen JS, Meyer M, Marc RE, Jones BW (2020). Network Architecture of Gap Junctional Coupling among Parallel Processing Channels in the Mammalian Retina. J Neurosci, 40(23), 4483-4511.
  9. Ayton LN, Barnes N, Dagnelie G, Fujikado T, Goetz G, Hornig R, Jones BW, Muqit MMK, Rathbun DL, Stingl K, Weiland JD, Petoe MA (2019). An update on retinal prostheses. Clin Neurophysiol, 131(6), 1383-1398.
  10. Pfeiffer RL, Marc RE, Jones BW (2020). Müller Cell Metabolic Signatures: Evolutionary Conservation and Disruption in Disease. Trends Endocrinol Metab, 31(4), 320-329.
  11. Annamalai B, Nicholson C, Parsons N, Stephenson S, Atkinson C, Jones B, Rohrer B (2020). Immunization Against Oxidized Elastin Exacerbates Structural and Functional Damage in Mouse Model of Smoke-Induced Ocular Injury. Invest Ophthalmol Vis Sci, 61(3), 45.
  12. Bryan CD, Casey MA, Pfeiffer RL, Jones BW, Kwan KM (2020). Optic cup morphogenesis requires neural crest-mediated basement membrane assembly. Development, 147(4).
  13. Pfeiffer RL, Marc RE, Jones BW (2019). Persistent remodeling and neurodegeneration in late-stage retinal degeneration. Prog Retin Eye Res, 74, 100771.
  14. Tong J, Phu J, Khuu SK, Yoshioka N, Choi AY, Nivison-Smith L, Marc RE, Jones BW, Pfeiffer RL, Kalloniatis M, Zangerl B (2019). Development of a Spatial Model of Age-Related Change in the Macular Ganglion Cell Layer to Predict Function From Structural Changes. Am J Ophthalmol, 208, 166-177.
  15. Choi AYJ, Nivison-Smith L, Phu J, Zangerl B, Khuu SK, Jones BW, Pfeiffer RL, Marc RE, Kalloniatis M (2019). Contrast sensitivity isocontours of the central visual field. Sci Rep, 9(1), 11603.
  16. Heng JS, Rattner A, Stein-OBrien GL, Winer BL, Jones BW, Vernon HJ, Goff LA, Nathans J (2019). Hypoxia tolerance in the Norrin-deficient retina and the chronically hypoxic brain studied at single-cell resolution. Proc Natl Acad Sci U S A, 116(18), 9103-9114.
  17. Lauritzen JS, Sigulinsky CL, Anderson JR, Kalloniatis M, Nelson NT, Emrich DP, Rapp C, McCarthy N, Kerzner E, Meyer M, Jones BW, Marc RE (2016). Rod-cone crossover connectome of mammalian bipolar cells. J Comp Neurol, 527(1), 87-116.
  18. Pfeiffer RL, Anderson JR, Emrich DP, Dahal J, Sigulinsky CL, Morrison HAB, Yang JH, Watt CB, Rapp KD, Kondo M, Terasaki H, Garcia JC, Marc RE, Jones BW (2019). Pathoconnectome Analysis of Müller Cells in Early Retinal Remodeling. Adv Exp Med Biol, 1185, 365-370.
  19. Marc RE, Sigulinsky CL, Pfeiffer RL, Emrich D, Anderson JR, Jones BW (2018). Heterocellular Coupling Between Amacrine Cells and Ganglion Cells. Front Neural Circuits, 12, 90.
  20. Nagarajan N, Jones BW, West PJ, Marc RE, Capecchi MR (2017). Corticostriatal circuit defects in Hoxb8 mutant mice. Mol Psychiatry, 23(9), 1868-1877.
  21. Kyle Loizos, Robert Marc, Mark Humayun, James R Anderson, Bryan W Jones, Gianluca Lazzi (2018). Increasing Electrical Stimulation Efficacy in Degenerated Retina: Stimulus Waveform Design in a Multiscale Computational Model. IEEE Trans Neural Syst Rehabil Eng, 1111-1120.
  22. Phu J, Khuu SK, Nivison-Smith L, Zangerl B, Choi AYJ, Jones BW, Pfeiffer RL, Marc RE, Kalloniatis M (2017). Pattern Recognition Analysis Reveals Unique Contrast Sensitivity Isocontours Using Static Perimetry Thresholds Across the Visual Field. Invest Ophthalmol Vis Sci, 58(11), 4863-4876.
  23. Yoshioka N, Zangerl B, Nivison-Smith L, Khuu SK, Jones BW, Pfeiffer RL, Marc RE, Kalloniatis M (2017). Pattern Recognition Analysis of Age-Related Retinal Ganglion Cell Signatures in the Human Eye. Invest Ophthalmol Vis Sci, 58(7), 3086-3099.
  24. Kerzner E, Lex A, Sigulinsky CL, Umess T, Jones BW, Marc RE, Meyer M (2017). Graffinity: Visualizing Connectivity in Large Graphs. Comput Graph Forum, 36(3), 251-260.
  25. Wahlin KJ, Maruotti JA, Sripathi SR, Ball J, Angueyra JM, Kim C, Grebe R, Li W, Jones BW, Zack DJ (2017). Photoreceptor Outer Segment-like Structures in Long-Term 3D Retinas from Human Pluripotent Stem Cells. Sci Rep, 7(1), 766.
  26. Jones BW, Marc RE, Pfeiffer RL, Kolb H, Fernandez E, Nelson R (1995). Retinal Degeneration, Remodeling and Plasticity. [Review].
  27. Merriman DK, Sajdak BS, Li W, Jones BW (2016). Seasonal and post-trauma remodeling in cone-dominant ground squirrel retina. Exp Eye Res, 150, 90-105.
  28. Jones BW, Pfeiffer RL, Ferrell WD, Watt CB, Marmor M, Marc RE (2016). Retinal remodeling in human retinitis pigmentosa. Exp Eye Res, 150, 149-65.
  29. Pfeiffer RL, Marc RE, Kondo M, Terasaki H, Jones BW (2016). Müller cell metabolic chaos during retinal degeneration. Exp Eye Res, 150, 62-70.
  30. Jones BW, Lewis GP (2016). Special issue on retinal remodeling. Exp Eye Res, 150, 1-3.
  31. Jones BW, Pfeiffer RL, Ferrell WD, Watt CB, Tucker J, Marc RE (2016). Retinal Remodeling and Metabolic Alterations in Human AMD. Front Cell Neurosci, 10, 103.
  32. Woodell A, Jones BW, Williamson T, Schnabolk G, Tomlinson S, Atkinson C, Rohrer B (2016). A Targeted Inhibitor of the Alternative Complement Pathway Accelerates Recovery From Smoke-Induced Ocular Injury. Invest Ophthalmol Vis Sci, 57(4), 1728-37.
  33. Molnr T, Yarishkin O, Iuso A, Barabas P, Jones B, Marc RE, Phuong TT, Kriaj D (2016). Store-Operated Calcium Entry in Müller Glia Is Controlled by Synergistic Activation of TRPC and Orai Channels. J Neurosci, 36(11), 3184-98.
  34. Frech TM, Boynton K, Downs-Kelly E, Jones B, Kriesel JD, Peterson K (2016). Eosinophilic Esophagitis in Two Patients with Systemic Sclerosis. Case Rep Rheumatol, 2016, 6410421.
  35. Lorach H, Kung J, Beier C, Mandel Y, Dalal R, Huie P, Wang J, Lee S, Sher A, Jones BW, Palanker D (2015). Development of Animal Models of Local Retinal Degeneration. Invest Ophthalmol Vis Sci, 56(8), 4644-52.
  36. Marc RE, Anderson JR, Jones BW, Sigulinsky CL, Lauritzen JS (2014). The AII amacrine cell connectome: a dense network hub. Front Neural Circuits, 8, 104.
  37. Marc RE, Jones BW, Watt CB, Anderson JR, Sigulinsky C, Lauritzen S (2013). Retinal connectomics: towards complete, accurate networks. Prog Retin Eye Res, 37, 141-62.
  38. Lauritzen JS, Anderson JR, Jones BW, Watt CB, Mohammed S, Hoang JV, Marc RE (2012). ON cone bipolar cell axonal synapses in the OFF inner plexiform layer of the rabbit retina. J Comp Neurol, 521(5), 977-1000.
  39. Barabas P, Liu A, Xing W, Chen CK, Tong Z, Watt CB, Jones BW, Bernstein PS, Kriaj D (2013). Role of ELOVL4 and very long-chain polyunsaturated fatty acids in mouse models of Stargardt type 3 retinal degeneration. Proc Natl Acad Sci U S A, 110(13), 5181-6.
  40. Marc RE, Jones BW, Lauritzen JS, Watt CB, Anderson JR (2012). Building retinal connectomes. Curr Opin Neurobiol, 22(4), 568-74.
  41. Jones BW, Kondo M, Terasaki H, Lin Y, McCall M, Marc RE (2012). Retinal remodeling. Jpn J Ophthalmol, 56(4), 289-306.
  42. Lauritzen JS, Jones BW, Watt CB, Mohammed S, Anderson JR, Marc RE (2012). Diffusely-Stratified OFF Cone Bipolar Cell Inputs to Amacrine Cells in the ON Inner Plexiform Layer. [Abstract]. ARVO 2012.
  43. Lin Y, Jones BW, Liu A, Vazquz-Chona FR, Lauritzen JS, Ferrell WD, Marc RE (2012). Rapid glutamate receptor 2 trafficking during retinal degeneration. Mol Neurodegener, 7, 7.
  44. D Lee, FV-Chona, W Ferrell, B Tam, BW Jones, RE Marc, O Moritz (February 2012). Dysmorphic Photoreceptors in a P23H Mutant Rhodopsin Model of Retinitis Pigmentosa are Metabolically Active and Capable of Regenerating to Reverse Retinal Degeneration. J Neurosci, 32(6), 2121-2128.
  45. Ross JW, Fernandez de Castro JP, Zhao J, Samuel M, Walters E, Rios C, Bray-Ward P, Jones BW, Marc RE, Wang W, Zhou L, Noel JM, McCall MA, DeMarco PJ, Prather RS, Kaplan HJ (January 2012). Generation of an inbred miniature pig model of retinitis pigmentosa. Invest Ophthalmol Vis Sci, 53(1), 501-507.
  46. Lin Y, Jones BW, Liu A, Tucker JF, Rapp K, Luo L, Baehr W, Bernstein PS, Watt CB, Yang JH, Shaw MV, Marc RE (2011). Retinoid receptors trigger neuritogenesis in retinal degenerations. FASEB J, 26(1), 81-92.
  47. V Jagadeesh, BS Manjunath, J Anderson, B Jones, R Marc, SK Fisher (2012). Online parameter estimation in dynamic Markov Random Fields for image sequence analysis. International Conference on Image Processing. Proceedings, Institute of Electrical and Electronics Engineers.
  48. Jones BW, Kondo M, Terasaki H, Watt CB, Rapp K, Anderson J, Lin Y, Shaw MV, Yang JH, Marc RE (2011). Retinal remodeling in the Tg P347L rabbit, a large-eye model of retinal degeneration. J Comp Neurol, 519(14), 2713-33.
  49. Anderson JR, Jones BW, Watt CB, Shaw MV, Yang JH, Demill D, Lauritzen JS, Lin Y, Rapp KD, Mastronarde D, Koshevoy P, Grimm B, Tasdizen T, Whitaker R, Marc RE (2011). Exploring the retinal connectome. Mol Vis, 17, 355-79.
  50. Anderson JR, Mohammed S, Grimm B, Jones BW, Koshevoy P, Tasdizen T, Whitaker R, Marc RE (2010). The Viking viewer for connectomics: scalable multi-user annotation and summarization of large volume data sets. J Microsc, 241(1), 13-28.
  51. Tasdizen T, Koshevoy P, Grimm BC, Anderson JR, Jones BW, Watt CB, Whitaker RT, Marc RE (2010). Automatic mosaicking and volume assembly for high-throughput serial-section transmission electron microscopy. J Neurosci Methods, 193(1), 132-44.
  52. Jurrus E, Paiva ARC, Watanabe S, Jorgensen EM, Anderson JR, Jones BW, Whitaker R, Marc R, Tasdizen T (2010). Detection of neuron membranes in electron microscopy images using auto-context. Med Image Anal.
  53. Anderson JR, Jones BW, Yang JH, Shaw MV, Watt CB, Koshevoy P, Spaltenstein J, Jurrus E, U V K, Whitaker RT, Mastronarde D, Tasdizen T, Marc RE (2009). A computational framework for ultrastructural mapping of neural circuitry. PLoS Biol, 7(3), e1000074.
  54. Jurrus E, Whitaker R, Jones BW, Marc R, Tasdizen T (2009). AN OPTIMAL-PATH APPROACH FOR NEURAL CIRCUIT RECONSTRUCTION. Proc IEEE Int Symp Biomed Imaging, 2008(4541320), 1609-1612.
  55. Marc RE, Jones BW, Watt CB, Vazquez-Chona F, Vaughan DK, Organisciak DT (2008). Extreme retinal remodeling triggered by light damage: implications for age related macular degeneration. Mol Vis, 14, 782-806.
  56. Marc RE, Jones BW, Anderson JR, Kinard K, Marshak DW, Wilson JH, Wensel T, Lucas RJ (2007). Neural reprogramming in retinal degeneration. Invest Ophthalmol Vis Sci, 48(7), 3364-71.
  57. Marc RE, Kalloniatis M, Jones BW (2005). Excitation mapping with the organic cation AGB2+. Vision Res, 45(28), 3454-68.
  58. Jones BW, Watt CB, Marc RE (2005). Retinal remodelling. Clin Exp Optom, 88(5), 282-91.
  59. Jones BW, Marc RE (2005). Retinal remodeling during retinal degeneration. [Review]. Exp Eye Res, 81(2), 123-37.
  60. Marc RE, Jones BW (2003). Retinal remodeling in inherited photoreceptor degenerations. Mol Neurobiol, 28(2), 139-47.
  61. Jones BW, Watt CB, Frederick JM, Baehr W, Chen CK, Levine EM, Milam AH, Lavail MM, Marc RE (2003). Retinal remodeling triggered by photoreceptor degenerations. J Comp Neurol, 464(1), 1-16.
  62. Marc RE, Jones BW, Watt CB, Strettoi E (2003). Neural remodeling in retinal degeneration. Prog Retin Eye Res, 22(5), 607-55.
  63. Marc RE, Jones BW (2002). Molecular phenotyping of retinal ganglion cells. J Neurosci, 22(2), 413-27.