Combining Vision with Action one Synapse from the Eye

Lead Research Organisation: University College London
Department Name: Institute of Ophthalmology

Abstract

One synapse away from the eye lies a fundamental brain structure, the superior colliculus, responsible for integrating sensory input, allocating attention to spatial locations, and generating orienting movements of the head and body to those locations. The inputs from the eye go to the superficial portion of the superior colliculus (sSC), which is thought to contain a mostly visual representation of the external world. Recent observations in our laboratory, however, suggest that sSC does much more than pure vision: its visual responses are strongly shaped by non-sensory signals.
The proposed project will reveal how this key brain region combines visual signals with non-sensory signals reflecting brain and behavioral state, decision processes and motor actions. Further, it will help reveal the sources of non-sensory signals, and provide a simple model of the functional effects of this combination of visual and non-sensory signals, and of the underlying neural circuits.
To achieve these goals, we will leverage novel neural imaging and behavioral techniques that we have developed in our laboratory. We will use two-photon imaging to record activity of hundreds of genetically identified neurons within the sSC of awake mice. The same technique will reveal the activity of the inputs to those neurons originating in the eye or in the cerebral cortex. These imaging measurements will be made while mice are passively viewing a stimulus or actively performing a visual task.
Our first objective focuses on how sSC is affected by brain and behavioral state such as arousal and locomotion. We will image responses in sSC to a range of visual stimuli and relate them to the level of arousal, as reflected by pupil diameter, and to locomotion. Preliminary data indicate that these factors have an enormous effect on the responses of some cells and a negligible one on others. We will distinguish cell classes to map these effects onto the circuits of sSC.
Our second objective focuses on how sSC is affected in interactive conditions where visual stimuli are used for specific decisions and actions. We will image different cell classes in the sSC while the animal performs a visual task requiring a goal-directed movement. We will relate responses to stimulus, performance, and action using simple correlation measures and a predictive model of neural responses. The data will characterize how the sSC combines visual signals with signals related to decision and action.
Our third objective focuses on the sources and circuits that provide the sSC with non-sensory signals. The main visual inputs to sSC originate from the eye and from the cerebral cortex. To assess their role in providing visual and non-sensory signals, we will image the activity of their axon terminals in sSC and the activity of cortical neurons projecting to the sSC. We will then inactivate the cortex to reveal its effect on sSC. The results will characterize the signals that sSC inherits from the eye and from the cortex, and will indicate if the latter is necessary to explain the combination of visual and non-sensory signals seen in sSC.
Results from all objectives will allow us to build simple functional and circuit models for the combination of visual and non-sensory signals in the sSC.
These experiments have the potential to change the way we think about how the brain integrates sensory and non-sensory inputs, showing how neurons getting direct input from the eye combine visual signals with signals related to brain and behavioural state, decisions, and actions.
Expanding our understanding of the function and circuitry of the superior colliculus will eventually enable us to simulate and replicate how this brain area transforms sensory input into commands that allocate attention and generate actions. It may also help to understand attentional deficits in disease and develop cures and therapies.

Technical Summary

The superior colliculus is a midbrain area responsible for sensorimotor integration. Its superficial layers (sSC) are thought to be mostly visual, but recent observations in our laboratory show that its visual responses are shaped by non-sensory signals.
We seek to understand how sSC combines visual with non-sensory signals related to brain or behavioural state (Objective 1), and to decision and action (Objective 2), and we seek to characterize the underlying projections and circuits (Objective 3).
Objective 1. We will use two-photon imaging to record the visual responses of different cell classes in sSC in awake mice. We will relate these responses to the level of arousal, as reflected by pupil diameter, and to the speed of locomotion. Preliminary data indicate that these factors have an enormous effect on some cells, but a negligible one on others. We will study how these effects map to different cell classes using transgenic mouse lines, and we will summarize these effects with simple functional and circuit models.
Objective 2. We will ask how different cell classes in sSC are affected when the animal performs a visual discrimination task. We will relate responses to stimulus, task, and action using correlation measures and a model that predicts neural activity based on those events. These data will help refine the functional and circuit models.
Objective 3: To characterize the signals that sSC inherits from retina and visual cortex, we will image the terminals of those projections in sSC, and we will image the activity of cortical neurons projecting to the sSC. We will then inactivate visual cortex and corticotectal neurons to assess the cortical role in the combination of visual and non-sensory signals seen in sSC. The findings will be incorporated into the circuit model of sSC.
These experiments will show how neurons one synapse away from retina combine visual signals with non-sensory signals related to brain and behavioural state, decision, and action.

Planned Impact

The proposed work is at the level of fundamental science and its main impact is in the generation of essential knowledge about how the brain works. In addition, the proposed work may have impact in the following domains.
(1) "Understanding and treating disease". The superior colliculus is responsible for orienting toward unexpected stimuli. It is thus intimately linked to distractibility and is thought to play a role in attention deficit hyperactivity disorder (ADHD). ADHD affects 5-7% of adolescents worldwide (see www.adhd-institute.com) and is a major risk factor for later substance abuse, delinquency, and personality disorder [Sagvolden T, Sergeant JA, Behav Brain Res, 1998]. In a rat model of ADHD, visual responses in sSC were greater than in normal rats and D-Amphetamine, a drug commonly administered to ADHD patients, reduced these responses in diseased and normal rats [Clements KM et al, Neuroscience, 2014]. It is hypothesized that these amplified visual responses lead to a higher probability of orienting movements towards salient stimuli, and thus to a larger degree of distractibility. The proposed project will reveal the influence of several non-visual factors (level of arousal, locomotion, and decision-related signals) on the visual response properties of the sSC. Preliminary results suggest that these signals do affect responses to visual stimuli. The project will also investigate the origin of these non-sensory signals and how different cell types are affected by them. Understanding the modulation of visual responses in healthy subjects may help to understand the abnormal changes in responsivity in ADHD, or may lead to the development of compensatory interventions to restore normal activity patterns.
(2) "Development of artificial intelligence". Modern technology that uses some form of artificial intelligence is an integral part of everyday life. Machines and electronic devices take over typical human skills like understanding and producing human language, or autonomously driving cars. The implementation of such complex functions is often inspired by the brain. A prominent case is deep learning, which is based on the concept of neural networks and hierarchical processing in the brain. The superior colliculus is an important part of the sensorimotor system, which processes low-level visual information, identifies the most relevant input, and generates motor commands to orient towards these inputs. The ability to suppress orienting towards just any new or salient stimulus may be due to input from other brain areas such as cortex or basal ganglia. These functions are vital to our behaviour and their implementation in artificial systems, e.g. self-driving cars, may prove equally vital. The proposed project may help the progress in this field by elucidating how visual input is processed in goal-directed decision making compared to passive viewing, how cortical input influences this processing, and what role different cell types in the circuit play in that processing.
Our project falls firmly under Response Priority Mode "Systems approaches to the biosciences" because we will study a complex biological system and use statistics and modelling to capture relevant features of the system. The system involves several components at different hierarchical levels, namely different cell classes and different brain areas, that interact in complex ways, and will be studied during behaviour (decisions, actions, arousal). Our final computational model of the neural circuitry will capture the different components and their interactions so that it can be used to predict functional and anatomical features of the circuit. We build on strong collaborations with bioscientists (e.g. Prof. Robin Ali, Dr. Matteo Rizzi and Prof. Leon Lagnado to develop a viral vector for the imaging of retinal ganglion cell axons) and computational neuroscientists (e.g. Prof. Kenneth Harris who runs the laboratory with Prof. Carandini).

Publications

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Description This project aims to reveal how a key brain region for visual processing, the superior colliculus (SC), combines sensory and non-sensory signals one synapse from the eye.
Our first objective is to establish how neural responses in the superficial superior colliculus (sSC) are influenced by the animal's arousal and by locomotion. We imaged the most superficial neurons in sSC, which receive direct input from the retina, and found that in about half of the cells activity was modulated by arousal and locomotion (Schröder et al., 2019, bioRxiv). This modulation was cell type dependent: arousal on average increased responses of excitatory neurons more than of inhibitory neurons, and the effects of arousal were dependent on the neurons' selectivity for orientation and direction of the visual input (arousal increased responses of neurons selective to either orientation or direction more than neurons selective to both orientation and direction). These findings show that even neurons that receive direct input from the eye and that were previously thought to have a purely visual function are already influenced by non-visual factors.
Our second objective is to discover how neurons in sSC combine visual signals with signals related to decision and action. To this end, we trained mice on a visual decision task where they report which one of two visual stimuli has the higher contrast. Using a steering wheel, they move the target stimulus, which appears to their right or their left, towards the centre of their visual field. Imaging the sSC revealed that many neurons respond not only to visual stimuli as expected, but also during movements of the wheel independently of the presence of visual stimuli. A different set of neurons responds after the mouse received a water reward for correct responses. We presented these results at the annual Society for Neuroscience meetings in 2017.
Our third objective is to investigate the impact of inputs coming from cerebral cortex and retina to the SC. We found that modulation through locomotion and arousal is not inherited from cortex. We inactivated visual cortex while the mouse was passively viewing visual stimuli. Electrical recordings from the SC showed that the neurons are on average less active when visual cortex is inactivated but that their responses are still modulated by locomotion and arousal. When imaging the projections of retinal cells in the sSC, however, we found that their activity is correlated with running and arousal and that their visual responses are behaviourally modulated at a similar strength as the neurons in sSC. This shows that behavioural modulation in the sSC may be inherited from retinal inputs. The modulation of activity in the projections could be caused by mechanisms acting locally in the SC or by modulation of the cells in the retina. To distinguish between these two possible mechanisms, we have recorded from the axons of retinal cells in the optic tract. Even activity in these axons showed a modulation by arousal. The results will revealed that behavioural states affect neural responses as early as in the eye. The preprint publication of these results (Schroeder et al., 2019, bioRxiv) has gained a lot of attention on social media, and we will shortly resubmit the manuscript to the peer reviewed journal Neuron.
Exploitation Route These results enrich our understanding of a fundamental brain region present in all vertebrates, including humans. They will help us better understand how the brain sees, decides, and makes movements.
Sectors Other

 
Title Two-photon imaging of activity in retinal axons in awake mice 
Description We developed a surgical procedure and implant to access axon terminals of the retina for optical imaging. The procedure does not disrupt any other brain areas, nor the health or behaviour of the animals. To record retinal activity, a calcium sensor is expressed in retinal ganglion cells (via injection of a virus into the vitreous of the eye) and two-photon imaging is used to record activity in the axon terminals in awake mice. This method provides a unique opportunity to record the output of single retinal ganglion cells in awake mice so that the dependence of retinal activity on behaviour can be studied. 
Type Of Material Technology assay or reagent 
Year Produced 2019 
Provided To Others? Yes  
Impact This method provides a unique opportunity to record the output of single retinal ganglion cells in awake mice so that the dependence of retinal activity on behaviour can be studied. 
 
Title Calcium Data for paper Reward modulates visual responses in the superficial superior colliculus of mice 
Description Calcium imaging data used in the paper : Reward modulates visual responses in the superficial superior colliculus of mice The file contains a description of the data and NPY files arranged by animal and session. The files can be opened using Matlab or Python. Further data from this publication is linked below. The file includes pre-processed data, and the code used to analyse this pre-processed data is available at GitHub (linked below) Paper abstract The superficial layers of the superior colliculus (SC) are highly visual and receive direct input from the retina. Nonetheless, neural activity in the superficial SC (sSC) is modulated by locomotion and pupil-linked arousal. Here we show that visual responses of neurons in the sSC are additionally modulated by reward delivered prior to the visual stimulus. We trained mice to perform a visual detection task and recorded the activity of neurons in the SC using two-photon calcium imaging and electrophysiological recordings using high-density silicone probes (Neuropixels). Neurons across all layers of the SC responded to various task events, including reward delivery. However, responses to events like licking or movements did not explain the visual response modulation by reward. Electrophysiological recordings showed that most of the reward modulation occurred in the superficial rather than the deeper layers of the SC. Neurons also exhibited modulation by pupil-linked arousal, which was independent of the reward modulation. Performance of a population decoder to detect visual stimuli improved significantly by reward modulation but not by pupil-linked arousal modulation. Our results indicate that behavioural factors other than locomotion and arousal modulate visual activity in the SC. 
Type Of Material Database/Collection of data 
Year Produced 2022 
Provided To Others? Yes  
URL https://sussex.figshare.com/articles/dataset/Calcium_Data_for_paper_Reward_modulates_visual_response...
 
Title Calcium Data for paper Reward modulates visual responses in the superficial superior colliculus of mice 
Description Calcium imaging data used in the paper : Reward modulates visual responses in the superficial superior colliculus of mice The file contains a description of the data and NPY files arranged by animal and session. The files can be opened using Matlab or Python. Further data from this publication is linked below. The file includes pre-processed data, and the code used to analyse this pre-processed data is available at GitHub (linked below) Paper abstract The superficial layers of the superior colliculus (SC) are highly visual and receive direct input from the retina. Nonetheless, neural activity in the superficial SC (sSC) is modulated by locomotion and pupil-linked arousal. Here we show that visual responses of neurons in the sSC are additionally modulated by reward delivered prior to the visual stimulus. We trained mice to perform a visual detection task and recorded the activity of neurons in the SC using two-photon calcium imaging and electrophysiological recordings using high-density silicone probes (Neuropixels). Neurons across all layers of the SC responded to various task events, including reward delivery. However, responses to events like licking or movements did not explain the visual response modulation by reward. Electrophysiological recordings showed that most of the reward modulation occurred in the superficial rather than the deeper layers of the SC. Neurons also exhibited modulation by pupil-linked arousal, which was independent of the reward modulation. Performance of a population decoder to detect visual stimuli improved significantly by reward modulation but not by pupil-linked arousal modulation. Our results indicate that behavioural factors other than locomotion and arousal modulate visual activity in the SC. 
Type Of Material Database/Collection of data 
Year Produced 2022 
Provided To Others? Yes  
URL https://sussex.figshare.com/articles/dataset/Calcium_Data_for_paper_Reward_modulates_visual_response...
 
Title Electrophysiology data for paper Reward modulates visual responses in the superficial superior colliculus of mice 
Description Neuropixels recordings used in the paper : Reward modulates visual responses in the superficial superior colliculus of mice The file contains a description of the data and NPY files arranged by animal and session. The files can be opened using Matlab or Python. Further data from this publication is linked below. The file includes pre-processed data, and the code used to analyse this pre-processed data is available at GitHub (linked below) Paper abstract The superficial layers of the superior colliculus (SC) are highly visual and receive direct input from the retina. Nonetheless, neural activity in the superficial SC (sSC) is modulated by locomotion and pupil-linked arousal. Here we show that visual responses of neurons in the sSC are additionally modulated by reward delivered prior to the visual stimulus. We trained mice to perform a visual detection task and recorded the activity of neurons in the SC using two-photon calcium imaging and electrophysiological recordings using high-density silicone probes (Neuropixels). Neurons across all layers of the SC responded to various task events, including reward delivery. However, responses to events like licking or movements did not explain the visual response modulation by reward. Electrophysiological recordings showed that most of the reward modulation occurred in the superficial rather than the deeper layers of the SC. Neurons also exhibited modulation by pupil-linked arousal, which was independent of the reward modulation. Performance of a population decoder to detect visual stimuli improved significantly by reward modulation but not by pupil-linked arousal modulation. Our results indicate that behavioural factors other than locomotion and arousal modulate visual activity in the SC. 
Type Of Material Database/Collection of data 
Year Produced 2022 
Provided To Others? Yes  
URL https://sussex.figshare.com/articles/dataset/Electrophysiology_data_for_paper_Reward_modulates_visua...
 
Title Electrophysiology data for paper Reward modulates visual responses in the superficial superior colliculus of mice 
Description Neuropixels recordings used in the paper : Reward modulates visual responses in the superficial superior colliculus of mice The file contains a description of the data and NPY files arranged by animal and session. The files can be opened using Matlab or Python. Further data from this publication is linked below. The file includes pre-processed data, and the code used to analyse this pre-processed data is available at GitHub (linked below) Paper abstract The superficial layers of the superior colliculus (SC) are highly visual and receive direct input from the retina. Nonetheless, neural activity in the superficial SC (sSC) is modulated by locomotion and pupil-linked arousal. Here we show that visual responses of neurons in the sSC are additionally modulated by reward delivered prior to the visual stimulus. We trained mice to perform a visual detection task and recorded the activity of neurons in the SC using two-photon calcium imaging and electrophysiological recordings using high-density silicone probes (Neuropixels). Neurons across all layers of the SC responded to various task events, including reward delivery. However, responses to events like licking or movements did not explain the visual response modulation by reward. Electrophysiological recordings showed that most of the reward modulation occurred in the superficial rather than the deeper layers of the SC. Neurons also exhibited modulation by pupil-linked arousal, which was independent of the reward modulation. Performance of a population decoder to detect visual stimuli improved significantly by reward modulation but not by pupil-linked arousal modulation. Our results indicate that behavioural factors other than locomotion and arousal modulate visual activity in the SC. 
Type Of Material Database/Collection of data 
Year Produced 2022 
Provided To Others? Yes  
URL https://sussex.figshare.com/articles/dataset/Electrophysiology_data_for_paper_Reward_modulates_visua...
 
Description Detecting and sorting spikes of single axons recorded in the optic tract 
Organisation Howard Hughes Medical Institute
Department Janelia Research Campus
Country United States 
Sector Academic/University 
PI Contribution We have recorded the activity of single retinal ganglion cells in awake animals. To do this we inserted Silicon probes (Neuropixels probes) into the optic tract and recorded spikes from the axons of retinal ganglion cells.
Collaborator Contribution Marius Pachitariu at Janelia farm has developed an algorithm to detect and sort the recorded spikes so that they could be associated with single axons and could be tracked over long time episodes (up to 2h). The spikes of axons are very small, which makes this a very difficult computational problem.
Impact The collaboration is multidisciplinary. Our work falls into the field of experimental neuroscience, the work of our collaborator into the field of machine learning and applied mathematics.
Start Year 2018
 
Description Imaging axonal boutons of retinal ganglion cells in superior colliculus 
Organisation University College London
Department Institute of Ophthalmology UCL
Country United Kingdom 
Sector Academic/University 
PI Contribution Our team performed the two-photon imaging to measure functional responses of retinal ganglion cells in awake mice.
Collaborator Contribution The lab of Prof. Leon Lagnado at University of Sussex has provided us with a plasmid that expresses the calcium dependent fluorescence GCaMP6f only at neuronal synapses. Given this plasmid, Dr. Matteo Rizzi then generated the virus that infects axonal boutons of retinal ganglion cells. He designed the viral construct and cloned the given plasmid into an AAV backbone.
Impact The collected data provide the first functional measurements of retinal ganglion cell activity in an alive and even awake mouse.
Start Year 2015
 
Description Imaging axonal boutons of retinal ganglion cells in superior colliculus 
Organisation University of Sussex
Country United Kingdom 
Sector Academic/University 
PI Contribution Our team performed the two-photon imaging to measure functional responses of retinal ganglion cells in awake mice.
Collaborator Contribution The lab of Prof. Leon Lagnado at University of Sussex has provided us with a plasmid that expresses the calcium dependent fluorescence GCaMP6f only at neuronal synapses. Given this plasmid, Dr. Matteo Rizzi then generated the virus that infects axonal boutons of retinal ganglion cells. He designed the viral construct and cloned the given plasmid into an AAV backbone.
Impact The collected data provide the first functional measurements of retinal ganglion cell activity in an alive and even awake mouse.
Start Year 2015
 
Title Suite2P 
Description A complete, automated pipeline for processing images and movies obtained with two-photon imaging of brain tissue. 
Type Of Technology Software 
Year Produced 2016 
Open Source License? Yes  
Impact The paper has been cited 97 times (as of 6 March 2020). Most of these are studies that used this package to analyze the data. 
URL https://scholar.google.com/scholar?start=20&hl=en&as_sdt=2005&sciodt=0,5&cites=12774718124336024207&...