Author Archives: bwjones

Contrast Sensitivity Isocontours Of The Central Visual Field

We have a new manuscript out in Nature Scientific Reports, Contrast Sensitivity Isocontours Of The Central Visual Field.

Authors: Agnes Y. J. Choi, Lisa Nivison-Smith, Jack Phu, Barbara Zangerl, Sieu K. Khuu, Bryan W. Jones, Rebecca L. Pfeiffer, Robert E. Marc & Michael Kalloniatis.

Abstract: Standard automated perimetry (SAP), the most common form of perimetry used in clinical practice, is associated with high test variability, impacting clinical decision making and efficiency. Contrast sensitivity isocontours (CSIs) may reduce test variability in SAP by identifying regions of the visual field with statistically similar patterns of change that can be analysed collectively and allow a point (disease)-to-CSI (normal) comparison in disease assessment as opposed to a point (disease)-to-point (normal) comparison. CSIs in the central visual field however have limited applicability as they have only been described using visual field test patterns with low, 6° spatial sampling. In this study, CSIs were determined within the central 20° visual field using the 10-2 test grid paradigm of the Humphrey Field Analyzer which has a high 2° sampling frequency. The number of CSIs detected in the central 20° visual field was greater than previously reported with low spatial sampling and stimulus size dependent: 6 CSIs for GI, 4 CSIs for GII and GIII, and 3 CSIs for GIV and GV. CSI number and distribution were preserved with age. Use of CSIs to assess visual function in age-related macular degeneration (AMD) found CSI guided analysis detected a significantly greater deviation in sensitivity of AMD eyes from normal compared to a standard clinical pointwise comparison (−1.40 ± 0.15 dB vs −0.96 ± 0.15 dB; p < 0.05). This work suggests detection of CSIs within the central 20° is dependent on sampling strategy and stimulus size and normative distribution limits of CSIs can indicate significant functional deficits in diseases affecting the central visual field such as AMD.

Tracing Neurodegenerative Disease

This is one of our undergraduates Jeebika Dahal, working to annotate in one of our pathoconnectomics databases.  This work is helping us to understand how neural degenerative disease changes wiring, and corrupts processing in neural systems.  We work in retina, but the principles apply to all neural systems with implications for Alzheimer’s, Parkinson’s, amyotrophic lateral sclerosis, epilepsy, and more.

Originally posted on Jonesblog.

Persistent Remodeling And Neurodegeneration In Late-Stage Retinal Degeneration

We have a new manuscript out in Progress In Retinal And Eye Research, Persistent Remodeling And Neurodegeneration In Late-Stage Retinal Degeneration.

Authors: Rebecca L. Pfeiffer, Robert E. Marc, and Bryan William Jones.

I’m really proud of the work that Becca did on this manuscript.  It does a couple of important things including summarizing the field of retinal remodeling, but also introducing some new data that plants a flag to define retinal degeneration and retinal remodeling as the first steps in what becomes progressive neurodegeneration.  We view the retina as an excellent model to begin exploring diseases like Alzheimer’s, Parkinson’s, and other progressive neurodegenerative diseases.  In addition, Becca also demonstrates a new potential mechanism for misfolded proteins, that may point the way for how proteinopathies spread.

Abstract: Retinal remodeling is a progressive series of negative plasticity revisions that arise from retinal degeneration, and are seen in retinitis pigmentosa, age-related macular degeneration and other forms of retinal disease. These processes occur regardless of the precipitating event leading to degeneration. Retinal remodeling then culminates in a late-stage neurodegeneration that is indistinguishable from progressive central nervous system (CNS) proteinopathies. Following long-term deafferentation from photoreceptor cell death in humans, and long-lived animal models of retinal degeneration, most retinal neurons reprogram, then die. Glial cells reprogram into multiple anomalous metabolic phenotypes. At the same time, survivor neurons display degenerative inclusions that appear identical to progressive CNS neurodegenerative disease, and contain aberrant α-synuclein (α-syn) and phosphorylated α-syn. In addition, ultrastructural analysis indicates a novel potential mechanism for misfolded protein transfer that may explain how proteinopathies spread. While neurodegeneration poses a barrier to prospective retinal interventions that target primary photoreceptor loss, understanding the progression and time-course of retinal remodeling will be essential for the establishment of windows of therapeutic intervention and appropriate tuning and design of interventions. Finally, the development of protein aggregates and widespread neurodegeneration in numerous retinal degenerative diseases positions the retina as a ideal platform for the study of proteinopathies, and mechanisms of neurodegeneration that drive devastating CNS diseases.

Coupling architecture of the retinal Aii/ON cone bipolar cell network and alteration in degeneration

This poster was presented today, July 28th at the 2019 International Gap Junction Conference in Victoria, Canada by Crystal L. Sigulinsky, Rebecca L. PfeifferJames R. Anderson, Christopher Rapp, Jeebika Dahal, Jessica C Garcia, Jia-Hui Yang, Daniel P. Emrich, Hope Morrison, Kevin D. Rapp, Carl B. Watt, Mineo Kondo, Hiroko Terasaki, Robert E. Marc and Bryan W. Jones.

Almost full resolution version here.

Authors:

Crystal L Sigulinsky1, Rebecca L Pfeiffer1, James R. Anderson1, Christopher N. Rapp1, Jeebika Dahal1, Jessica C Garcia1, Jia-Hui Yang1, Daniel P. Emrich1, Hope Morrison1, Kevin D. Rapp1, Carl B. Watt1, Mineo Kondo2, Hiroko Terasaki3, Robert E. Marc1, Bryan W. Jones1
1Moran Eye Center/ Ophthalmology, University of Utah, Salt Lake City, Utah, United States; 2Mie University, Tsu, Japan; 3Nagoya University, Nagoya-shi, Japan;

ABSTRACT:

Background and aim:
Gap junctions are prevalent throughout the neural retina, with expression by every major neuronal class and at every level of signal processing. Yet, the functional roles and expressing cells/participating networks for many remain unknown. Spontaneous network spontaneous hyperactivity observed during retinal degeneration contributes to visual impairment and requires gap junctional coupling in the Aii amacrine cell/ON cone bipolar cell (CBC) network.  However, it remains unclear whether this hyperactivity reflects changes in the underlying circuitry or dysfunction of the normative circuitry. Here, we used connectomics-based mapping of retinal circuitry to 1) define the coupling architecture of the Aii/ON CBC network in healthy adult rabbit retina using connectome RC1 and 2) evaluate changes in coupling motifs in RPC1, a pathoconnectome from a rabbit retinal degeneration model.

Methods:

RC1 and RPC1 are connectomes built by automated transmission electron microscopy at ultrastructural (2 nm/pixel) resolution. RC1 is a 0.25 mm diameter volume of retina from a 13-month old, light adapted female Dutch Belted rabbit. RPC1 is a 0.07 mm diameter volume of degenerate retina from a transgenic P347L model of autosomal dominant retinitis pigmentosa (10-months old, male, New Zealand White background) presenting with ~50% rod loss. ON CBCs, Aii amacrine cells, and their coupling partners were annotated using the Viking application. Coupling motifs and features were explored with 3D rendering and network graph visualization. Gap junctions were validated by 0.25 nm resolution recapture with goniometric tilt when necessary.

Results:

Complete reconstruction of 37 ON CBCs in RC1 yielded 1339 gap junctions and revealed pervasive in- and cross-class coupling motifs among ON CBCs that produce complex network topologies within the coupled Aii network. Robust rulesets underlie class-specific coupling profiles with specificity defined beyond geometric opportunity. These coupling profiles enabled classification of all 145 ON CBCs contained within RC1 into 7 distinct classes. In RPC1, two ON CBC classes appear to retain their class-specific coupling profiles, accepting and rejecting specific combinations of Aii and ON CBC class partnerships. However, aberrant partnerships exist, including both loss of motifs and acquisition of novel ones.

Conclusions:

Gap junctions formed by ON CBCs are prominent network components, with specificity rivaling that of chemical synapses. These gap junctions not only subserve canonical signal transfer for night vision, but also extensive coupling within and across the parallel processing streams. Clearly aberrant morphological and synaptic changes exist in RPC1, including changes in the coupling specificity of both Aii and ON CBCs. Thus, circuit topology is altered prior to complete loss of rods, with substantial implications for therapeutic interventions for blinding diseases that depend upon the surviving retinal network.

Development Of A Spatial Model Of Age-Related Change In The Macular Ganglion Cell Layer To Predict Function From Structural Changes

We have a new paper out in the Americal Journal of Ophthalmology, Development of a spatial model of age-related change in the macular ganglion cell layer to predict function from structural changes.

Authors: Janelle Tong, Jack Phu, Sieu K. Khuu, Nayuta Yoshioka, Agnes Y. Choi, Lisa Nivison-Smith, Robert E. Marc, Bryan W. Jones, Rebecca L. Pfeiffer, Michael Kalloniatis, and Barbara Zangerl.

Purpose: To develop location specific models of normal, age-related changes in the macular ganglion cell layer (GCL) from optical coherence tomography (OCT). Using these OCT-derived models, we predicted visual field (VF) sensitivity and compared these results to actual VF sensitivities.

Design: Retrospective cohort study

Methods: Single eyes of 254 normal participants were retrospectively enrolled from the Centre for Eye Health (Sydney, Australia). Macular GCL measurements were obtained using Spectralis OCT. Cluster algorithms were performed to identify spatial patterns demonstrating similar age- related change. Quadratic and linear regression models were subsequently utilized to characterize age-related GCL decline. 40 participants underwent additional testing with Humphrey VFs, and 95% prediction intervals were calculated to measure the predictive ability of structure-function models incorporating cluster-based pooling, age-correction and consideration of spatial summation.

Results: Quadratic GCL regression models provided a superior fit (p = <0.0001-0.0066), establishing that GCL decline commences in the late 30’s across the macula. The equivalent linear rates of GCL decline showed eccentricity-dependent variation (0.13μm/year centrally versus 0.06μm/year peripherally), however average, normalized GCL loss per year was consistent across the 64 macular measurement locations at 0.26%. The 95% prediction intervals describing predicted VF sensitivities were significantly narrower across all cluster- based structure-function models (3.79-4.99dB) compared with models without clustering applied (5.66-6.73dB, p <0.0001).

Conclusions: Combining spatial clustering with age-dependent regression allowed the development of robust models describing GCL changes with age. The resultant superior predictive ability of VF sensitivity from ganglion cell measurements may be applied to future models of disease development to improve detection of early macular GCL pathology.

Coupling Architecture Of The AII/ON Cone Bipolar Cell Network In Degenerate Retina

This abstract was presented today, April 8th at the 2019 Association for Research in Vision and Opthalmology (ARVO) meetings in Vancouver, Canada as a platform presentation by Crystal L. Sigulinsky, Rebecca L. PfeifferJames R. Anderson, Daniel P. Emrich, Christopher Rapp, Jeebika Dahal, Jessica Garcia, Hope Morrison, Kevin D. Rapp, Jia-Hui Yang, Carl B. Watt, Robert E. Marc and Bryan W. Jones.

Purpose
In mouse models of retinal degeneration, connexin36-containing gap junctions in the Aii amacrine cell network appear to mediate aberrant hyperactivity within the retina. However, it remains unclear whether this hyperactivity reflects changes in the underlying circuitry or dysfunction of the normative circuitry. Our connectomics-based mapping of retinal circuitry in rabbit Retinal Connectome 1 (RC1) has dramatically expanded the coupled Aii network. In addition to canonical Aii-to-Aii and Aii-to-ON cone bipolar cell (CBC) coupling, we describe pervasive in- and cross-class coupling motifs among ON CBCs. This study examines the changes in these coupling motifs in RPC1, an ultrastructural retinal pathoconnectome from a rabbit model of retinitis pigmentosa.

Methods
RC1 and RPC1 are connectomes built by automated transmission electron microscopy at ultrastructural (2 nm/pixel) resolution. RC1 is a 0.25 mm diameter volume of retina from a 13 month old, light-adapted female Dutch Belted rabbit and serves as the healthy reference connectome. RPC1 is a 0.09 mm diameter volume of pathological retina from a 10 month old, male transgenic P347L model of autosomal dominant retinitis pigmentosa showing early phase 1 retinal remodeling, when rod photoreceptors are still present, but stressed. ON CBCs, Aii amacrine cells, and their coupling partners were annotated using the Viking application. Coupling motifs and features were explored with 3D rendering and graph visualization of connectivity. Gap junctions were validated by 0.25 nm resolution recapture with goniometric tilt when necessary.

Results
All major coupling motifs were observed. Several ON CBC classes retained their class-specific coupling profiles, accepting and rejecting specific combinations of Aii and ON CBC class partnerships. However, aberrant partnerships exist in the coupled network, including both loss of prominent motifs and acquisition of novel ones.

Conclusions
Clearly aberrant morphological and synaptic changes exist in RPC1, including changes in the coupling specificity and gap junction distributions of both Aii amacrine cells and ON CBCs. This indicates that the Aii/ON CBC circuit topology is already altered during early phase 1 remodeling, with substantial implications for therapeutic interventions for blinding diseases that depend upon the surviving retinal network in human patients.

Comparative Anatomy And Connectivity Of The AII Amacrine Cell In Mouse And Rabbit Retina

This abstract was presented today, April 8th at the 2019 Association for Research in Vision and Opthalmology (ARVO) meetings in Vancouver, Canada by Selena Wirthlin, Crystal L. SigulinskyJames R. Anderson, Daniel P. Emrich, Christopher Rapp, Jeebika Dahal, Rebecca L. Pfeiffer, Kevin D. Rapp, Jia-Hui Yang, Carl B. Watt, Robert E. Marc and Bryan W. Jones.

Full resolution version here.

Purpose
Mouse retina structurally differs from rabbit retina, as it is thicker and vascularized, while the rabbit retina is thinner and avascular. The implications of these differences on neuronal morphology and connectivity is not known. This project compares the morphology and connectivity of the Aii amacrine cell (AC) with ultrastructural precision in connectomes of mouse (RC2) and rabbit (RC1) retina.

Methods
RC1 and RC2 are connectomes built by automated transmission electron microscopy at ultrastructural (2 nm/pixel) resolution. RC1 and RC2 are 0.25mm diameter volumes of retina. RC1 is from a 13 month old, female Dutch Belted rabbit. RC2 is from a 5 month old female C57BL/6J mouse. The Viking application was used to annotate Aii ACs in both connectomes.

Results
Mouse Aii ACs are noticeably elongated to span the thicker inner plexiform layer (IPL) and have a prominent neck region. Lobular appendages of Aii ACs in both species extend thin stalks from the soma, neck and proximal arboreal dendrites in the OFF sublamina, predominantly forming reciprocal synapses with OFF cone bipolar cells (BCs). In rabbits, multiple arboreal dendrites emerge from the base of the neck, branch and travel obliquely through the ON sublamina, and form gap junctions with ON cone BCs, neighbor Aii ACs, and itself. They extend laterally at the base of the IPL, collecting ribbon input from rod BCs. In contrast, mouse arboreal dendrites stem from a single primary dendrite that branches as it travels vertically through the IPL without self-branch interaction, terminating at variable depths that align with the more broadly ramified axon terminals of rod BCs. Conventional synapse to gap junction ratios reveal greater output in the OFF vs ON layer in mouse compared to rabbit. Notably, mouse Aii ACs form gap junctions with the descending axons of ON cone BCs as they pass its soma, in contrast to rabbit, where gap junctions do not form at contacts proximal to ON cone BC axon terminals.

Conclusions
Lateral expansion of rabbit Aii ACs may be attributable to eccentricity. However, morphological differences appear to mediate greater output to the OFF versus ON pathway in mouse. Synaptic partners are currently being analyzed. Comparative anatomy connectomics is essential for understanding possible implications of retinal structure on neuronal morphology and connectivity that may underlie network differences between the mouse and rabbit retina.

Aii Amacrine Cell Connectivity in Degenerating Retina

This abstract was presented today, April 8th at the 2019 Association for Research in Vision and Opthalmology (ARVO) meetings in Vancouver, Canada by Jeebika Dahal, Rebecca L. Pfeiffer, Crystal L. Sigulinsky, James R. Anderson, Daniel P. Emrich, Hope Morrison, Jessica C. Garcia, Kevin D. Rapp, Jia-Hui Yang, Carl B. Watt, Mineo Kondo, Hiroko Terasaki, Robert E. Marc and Bryan W. Jones.

Full resolution version here.

Purpose
Aii amacrine cells (Aii ACs) function in mediating scotopic vision via connection of rod bipolar cells (Rod BCs) to cone bipolar cell pathways. The purpose of this project is to determine the effect of retinal degeneration (RD) on Aii AC networks. We explore this in a pathoconnectome of early RD (RPC1), using a connectome of healthy retina (RC1) as control. Cells in each volume are evaluated by comparison of morphology, synaptic connectivity, and eventually network analysis.

Methods
Tissue for RPC1 was collected from a 10 month old transgenic p347L rabbit model of autosomal dominant retinitis pigmentosa. RC1 was collected from a 13 month old Dutch-Belted rabbit, with no indications of degeneration. Tissue was fixed in a mixed aldehyde solution, before subsequent dehydration, osmication, and resin embedding. Volumes were sectioned at 70nm (RPC1) and 90nm (RC1) and placed on formvar grids. 1 section was reserved from every 30 TEM sections for computational molecular phenotyping where it was placed on a slide and probed for small molecules or proteins. TEM sections were captured at 2.18nm/px using SerialEM software on a JEOL JEM-1400 TEM. The RC1 volume has a diameter of 250µm and RPC1 has a diameter of 90µm. Both volumes were analyzed using the Viking software suite.

Results
In this study, Aii ACs from RPC1 were compared to RC1. Initial results indicate no distinct difference in the morphology other than arbor size, which are likely due to eccentricity differences between volumes. However, in RPC1, we observe multiple instances of Aii AC coupling with Rod BCs in the ON region of the IPL. In contrast, Rod BCs never form gap junctions in healthy retina.

Conclusions
Coupling between Aii ACs and Rod BCs in RPC1 is a unique change in retinal network topology occurring in early RD. Further exploration of network changes as a response to RD is warranted, as many therapeutic interventions currently in development rely upon maintenance of inner retinal circuitry. Prior research demonstrates Rod BCs extend dendrites towards cones and change their receptor expression as rods degenerate. Therefore, knowing the network changes involving Aii ACs and their associations with bipolar cells is crucial to understanding how photoreceptor degeneration affects inner retinal visual processing.

OFF-layer Branches of ON Cone Bipolar Cells in Early Retinal Degeneration

This abstract was presented today, April 8th at the 2019 Association for Research in Vision and Opthalmology (ARVO) meetings in Vancouver, Canada by Jessica C. Garcia, Rebecca L. Pfeiffer, Crystal L. Sigulinsky, James R. Anderson, Daniel P. Emrich, Jeebika Dahal, Hope Morrison, Kevin D. Rapp, Jia-Hui Yang, Carl B. Watt, Mineo Kondo, Hiroko Terasaki, Robert E. Marc and Bryan W. Jones.

Full resolution version here.

Purpose: Cone bipolar cells are customarily classified into superclasses of ON (ON-BCs) and OFF (OFF-BCs). ON or OFF specialization is further segregated by stratification within the inner plexiform layer. Retinal degeneration induces negative plasticity termed remodeling, that includes aberrant neurite extension from multiple cell types (rewiring) and ON-BCs switching their glutamate receptors to match that of OFF-BCs (reprogramming). Previous analysis in healthy retina shows that ON-BCs can make small ribbon synapses in the descending axon or, less frequently, simple single branch projections in the OFF layer. What impact remodeling has on these OFF-layer branches is unknown. In this study, we compare OFF branches from ON-BCs in a connectome of early retinal degeneration (RPC1) to our healthy retinal connectome (RC1).

Methods: Retinal tissues selected for RC1 and RPC1 were collected post-mortem from a 13 month old Dutch-belted healthy female rabbit and a male 10 month old transgenic P347L rabbit model of autosomal dominant retinitis pigmentosa, respectively. RPC1 shows signs of remodeling including rod outer-segment degeneration and aberrant neurite extension. Tissues were fixed in mixed aldehydes and subsequently osmicated, dehydrated, resin embedded, and sectioned at 90 nm (RC1) or 70 nm (RPC1). Sections were placed on formvar grids, stained, and imaged at 2nm/px on a JEOL JEM-1400 TEM using SerialEM software. 1 section was reserved from every 30 for Computational Molecular Phenotyping, and probed for small molecules. Both volumes were evaluated using the Viking software suite.

Results: Ribbons of ON-BCs formed in the OFF layer branches have been previously described to contact glycinergic amacrine cells (ACs), GABAergic ACs, ON ganglion cells, and intrinsically photosensitive ganglion cells. Initial analysis of OFF branches of ON-BCs in RPC1 demonstrate more complex branching than in RC1 and increased number of synapses on these branches. In contrast to the inconsistent OFF layer branch stratification observed in RC1, the OFF branches in RPC1 appear to stratify at a similar level. Evaluation of synaptic partners is ongoing.

Conclusions: Increased complexity and number of synapses found in the OFF branches of some ON-BCs ultimately may represent ON network corruption. Exploring synaptic partners will reveal potential network alterations in retinal degenerative disease.

Marclab Off To ARVO2019

The Marclab is off to ARVO 2019 and eager to share some of what we’ve been up to over the past year.  We have undergraduate Jeebika Dahal presenting her work on the AII Amacrine Cell Connectivity Changes In Degenerating Retina on Sunday (see poster B0013 Abstract Number: 551 – B0013).  Undergraduate Selena Wirthlin will present her work on the Comparative Anatomy and Connectivity Of The AII Amacrine Cell In Mouse And Rabbit Retina on Sunday (poster B0010 Abstract Number: 548 – B0010). Undergraduate and US Navy veteran Jessica Garcia will present her work Sunday on OFF-layer Branches Of ON Cone Bipolar Cells In Early Retinal Degeneration (B0017 Abstract Number: 555 – B0017). And postdoc Crystal Sigulinsky will present her work on Coupling Architecture Of The Aii/ON Cone Bipolar Cell Network In Degenerate Retina in a platform presentation on Thursday at 11:15am (Abstract Number: 6441).

We hope to see you there!