Patterns of physiological electrical activity in the central nervous system (CNS) cause longlasting changes in gene expression that promote neuronal survival. These changes can be mediated by signalling pathways activated by Ca2+ influx through synaptic N-methyl DAspartate receptors (NMDARs). Identification and study of these, and other neuroprotective signalling pathways of the CNS, is invaluable; as this may one day lead to therapeutic strategies against the deleterious effects of CNS injury or degeneration. The data presented in this thesis focuses on activity-dependent neuroprotection and how it interacts with other signalling pathways to protect against apoptotic and oxidative insults. A previously unobserved role of activity-dependent neuroprotection in mediating the effects of the neuropeptide PACAP is demonstrated. By promoting cAMP/PKA signalling PACAP triggers neuronal firing activity, which is essential for the neuroprotective effects mediated by PACAP. This firing activity cooperates with direct signalling by PKA in promoting longlasting CREB-mediated gene expression. The molecular events associated with PACAP mediated stimulation of CRE-dependent gene expression are presented. Investigation of the control of neuronal antioxidant defences by neuronal activity, both on its own and in cooperation with astrocyte-derived support, was also investigated. Neuronal activity is demonstrated to strongly increase the capacity of the antioxidant glutathione (GSH) system, through a program of coordinated transcriptional events. The utilisation, biosynthesis and recycling of GSH is enhanced in neurons, leading to increased resistance against oxidative insults. Since several GSH pathway enzyme genes are regulated by the transcription factor Nrf2, the ability of CDDO-F3, a small molecule activator of Nrf2, to mimic the effect of firing activity on neuronal GSH levels was examined. CDDO-F3 sustains neuronal GSH levels and confers neuroprotection against oxidative insult. These actions are dependent on the presence of astrocytes; whereas Nrf2 mediated regulation of GSH pathway genes is essentially inactive in neurons. Neuronal activity and activation of the astrocytic Nrf2 pathway can cooperate, maintaining neuronal GSH levels and protecting neurons against strong oxidative insults. Collectively this work expands our knowledge as to the molecular mechanisms of activity-dependent neuroprotection, and how such signals may synergise with other protective pathways to promote neuronal health.

Chronic hypersensitive pain states can become established following sustained, repeated or earlier noxious stimuli and are notably difficult to treat, especially in cases where nerve injury contributes to the trauma. A key underlying reason is that a variety of plastic changes occur in the central nervous system (CNS) at spinal and potentially also supraspinal levels to upregulate functional activity in pain processing pathways. A major component of these changes is the enhanced function of excitatory amino acid receptors and related signalling pathways. Here we utilised rodent models of neuropathic and inflammatory pain to investigate whether evidence could be found for lasting hypersensitivity following neonatal (or adult) noxious stimuli, in terms of programming hyper-responsiveness to subsequent noxious stimuli, and whether we could identify underlying biochemical mechanisms. We found that neonatal (postnatal day 8, P8) nerve injury induced either long lasting mechanical allodynia or shorter lasting allodynia that nonetheless was associated with hyper-responsiveness to a subsequent noxious formalin stimulus at P42 despite recovery of normal mechanical thresholds. By developing a new micro-scale method for preparation of postsynaptic densities (PSD) from appropriate spinal cord quadrants we were able to show increased formalin-induced trafficking of GluA1- containing AMPA receptors into the PSD of animals that had received (and apparently recovered from) nerve injury at P8. This was associated with increased activation of ERK MAP kinase (a known mediator of GluA1 translocation) and increased expression of the ERK pathway regulator, Sos-1. Synaptic insertion of GluA1, as well as its interaction with a key partner protein 4.1N, was also seen in adults during a nerve injury-induced hypersensitive pain state. Further experiments were carried out to develop and optimise a new technological platform enabling fluorometric assessment of Ca2+ and membrane potential responses of acutely isolated CNS tissue; 30-100 μm tissue segments, synaptoneurosomes (synaptic entities comprising sealed and apposed pre- and postsynaptic elements) and 150 × 150 μm microslices. After extensive trials, specialised conditions were found that produced viable preparations, which could consistently deliver dynamic functional responses. Responsiveness of these new preparations to metabotropic and ionotropic receptor stimuli as well as nociceptive afferent stimulant agents was characterised in frontal cortex and spinal cord. These studies have provided new opportunities for assessment of plasticity in pain processing (and other) pathways in the CNS at the interface of in vivo and in vitro techniques. They allow for the first time, valuable approaches such as microscale measurement of synaptic insertion of GluA1 AMPA receptor subunits and ex vivo assessment of dynamic receptor-mediated Ca2+ and membrane potential responses.

Synaptophysin (Syp) is a major integral synaptic vesicle (SV) protein; there are 31 copies of Syp per vesicle, which totals up to 10% of the total SV protein content. Despite being the major SV protein, little is known about the interaction partners of Syp and as a result there has been no clear role attributed to it. One key feature of Syp is that its cytoplasmic C-terminus contains 10 pentapeptide repeats, nine of which are initiated by a tyrosine residue. Syp is the major tyrosine phospho-protein on SVs. The kinase thought to phosphorylate Syp in vivo is the ubiquitously expressed non-receptor kinase C-Src. There are two splice variants of C-Src, N1- and N2-Src, which are only expressed in neuronal tissues. Although the 3 Srcs are structurally similar, they differ by a small insert of amino acids into their SH3 domains (the N-Src loop). Examination of the amino acid sequence of the cytosolic C-terminus of Syp revealed a putative type one SH3 domain interaction motif. A screen using SH3 domains of synaptic proteins as bait in GST-pull downs from nerve terminal lysate allowed an inventory of potential interaction partners of Syp to be created. Reciprocal experiments using the C-terminal of Syp as bait confirmed many of these interactions. Single point mutations of the SH3 interaction motif on Syp highlighted that syndapin and C-Src bound to Syp via this motif. These binding mutants were inserted in Syp superecliptic synaptophluorin (SypHy) to determine the functional consequences of these interactions. These mutants did not affect the trafficking of Syp when expressed in cortical neurons derived from Syp knockout mice. However, the SH3 interaction motif was fundamental for the retrieval of VAMP (vesicle associated membrane protein) when expressed in Syp knockout cultures. Importantly, this role is not mediated through a direct interaction with VAMP with the SH3 interaction motif implicating either syndapin, C-Src or both in Syp-dependent VAMP retrieval. The 3 different Srcs had different methods of interaction with Syp, and in vitro protein kinase assays the ability of the three Src splice variants to phosphorylate Syp was assessed. Key differences in both speed and efficiency of Syp phosphorylation was observed for the different Src splice variants. Mutagenesis of either all 9 tyrosine residues, only previously identified sites resulted in changes in Syp interactions in GST-pull down assays from nerve terminal lysates. To investigate the role of Syp phosphorylation in the SV lifecycle, the tyrosine pentapeptide repeats were truncated from the C-terminal of Syp in both a mCerulean tagged Syp and SypHy. The experiments showed that these potential tyrosine phosphorylation sites were not involved in the trafficking of Syp but key in the retrieval of VAMP from the plasma membrane during the SV lifecycle. I have indentified an SH3 interaction motif on the C-terminal of Syp that is critical in forming a complex of proteins that are responsible for the retrieval of VAMP during the SV lifecycle. Further experiments have shown that this key interaction is potentially phosphorylation dependent. My preliminary mass spectrometry analysis has provided a catalogue of proteins that can potentially interact with Syp, identifying proteins that may bind to either the Syp C-terminus SH3 interaction motif or to other regions in a phosphorylation dependent manner. This has provided a list of potential candidate proteins for the VAMP retrieval complex.

The crayfish claw opener neuromuscular junction (NMJ) is a biological model for studying presynaptic neuromodulation by serotonin and synaptic vesicle recycling. Serotonin acts on crayfish axon terminals to increase the release of the neurotransmitter glutamate, but a complete understanding of its mechanisms of action are unknown. In order to sustain enhanced neurotransmission over long periods of time, it was hypothesized that serotonin recruits (activates) a population of previously non-recycling vesicles to become releasable and contribute to neurotransmission. To determine if serotonin activates a distinct population of synaptic vesicles, FM1-43 fluorescence unloading experiments were performed on crayfish excitatory opener axon terminals. These experiments could not resolve a serotonin-activated population of synaptic vesicles, but instead revealed that synaptic vesicles change behaviour in axon terminals independent of serotonin, with vesicles becoming less likely to exocytose and unload FM1-43 dye over time. The change in behaviour was hypothesized to be due to conversion of vesicles from a recycling (releasable) status to a reserve (reluctant to release) status. Synaptic vesicle pool localization was then tested using photoconversion of FM1-43 and transmission electron microscopy techniques. The spatial location of FM1-43-labeled vesicles fixed 2 minutes following 20 Hz stimulation did not reveal retention of vesicles specifically near release sites and the distribution of FM1-43-labeled vesicles was not significantly different between early (2 min) and late (180 min) time points. Terminals fixed 30 seconds following stimulation, however, contained numerous endosome-like structures - the most frequently observed structures resembled large vesicles, which were the equivalent of 2-5 regular vesicle sizes. These results suggest that crayfish axon terminals recycle vast amounts of membrane in response to sustained 20-Hz stimulation and endocytosis appears to occur via multiple routes with the most common being through large vesicle intermediates. / Graduate

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Short-term synaptic depression is the phenomena where repeated stimulation leads to a decreased transmission efficacy. In this thesis, the impact of synaptic depression on the responses and dynamics of network models of visual processing is investigated, and the coding implications are examined. I find that synaptic depression can fundamentally change the operation of previously well - understood networks, and explain temporal nonlinearities present in neural responses to multiple stimuli. Furthermore, I show, more generally, how nonlinear interactions can be beneficial with respect to neural coding. I begin chapter 1 with a short introduction. In chapter 2 of this thesis, the behaviour of a ring attractor network is examined when its recurrent connections are subject to short term synaptic depression. I find that, in the presence of a uniform background current, the activity of the network settles to one of three states: a stationary attractor state, a uniform state or a rotating attractor state. I show that the rotation speed can be adjusted over a large range by changing the background current, opening the possibility to use the network as a variable frequency oscillator or pattern generator, and use mathematical analysis to determine an approximate maximum rotation speed. Using simulations, I then extend the network into two - dimensions, and find a rich range of possible behaviours. Processing in the visual cortex can be non - linear: the response to two objects or other visual stimuli presented simultaneously is often less than the sum of the responses to the individual objects. A maximum function has in some cases been proposed to describe these competitive interactions. More recent data has emphasised that such interactions have temporal aspects as well, namely that the response to an initially presented stimulus can suppress the response to a stimulus presented subsequently, especially if the first stimulus is presented at high contrast. Chapter 3 of this thesis will present a simple neuronal network featuring synaptic depression which can account for much of the temporal aspects of this behaviour, whilst remaining consistent with older data and models. Furthermore, it will show how this model leads to several strong predictions regarding the processing of low contrast stimuli sequences, as well suggesting a link between response latency and suppression strength. The response of the model to a structured sequence of input stimuli also appears to anticipate future stimuli, and we predict that the magnitude of this stimulus anticipation will decrease as contrast is decreased. Following on from investigating the temporal aspects of responses to stimuli pairs, in chapter 4 this thesis examines an abstract model of how coding is impacted by non - linear interactions, for both structured and unstructured stimuli spaces. I find that non- linear methods of responding to pairs of stimuli presented simultaneously can have a beneficial effect on coding capacity, with linearly combined responses generally leading to the highest decoding errors rates. This thesis goes on to examine the interplay between this models noise assumptions and the decoding performance, and finds that many of the assumptions made can be weakened without changing, qualitatively, these findings. In chapter 5, this thesis examines layered networks of noisy spiking neurons with recurrent connectivity and featuring depressing synapses. The contrast dependent latency and spike count statistics of the model are analysed and are found to be strongly dependent on the parameters of the noise. The tuning of parameters for models containing noisy IF neurons is discussed, and an information theoretic approach to tuning is outlined which successfully reproduces earlier work in which noise was tuned to linearise the response of a spiking network. The approach is applied to maximise the ability of the network to filter rapid noise transients at low contrast. I finish the thesis with a short concluding chapter.

Fragile X syndrome (FXS) is the most commonly inherited form of intellectual disability as well as a leading genetic cause of autism spectrum disorder. It is typically the result of a trinucleotide repeat expansion in the Fmr1 gene which leads to loss of the encoded protein, fragile X mental retardation protein (FMRP). Animal model studies over the past twenty years, mainly focusing on the Fmr1 knockout (KO) mouse, have uncovered several cellular and behavioural phenotypes associated with the loss of FMRP. Seminal work using the Fmr1 KO mouse found that metabotropic glutamate receptor mediated long-term depression (mGluR-LTD) in the hippocampus is both exaggerated (Huber et al., 2002) and independent of new protein synthesis (Nosyreva & Huber, 2006). These findings, together with studies focusing on other brain regions including the prefrontal cortex (Zhao et al., 2005) and amygdala (Suvrathan et al., 2010), have contributed to the ‘mGluR theory of FXS’ (Bear et al., 2004) which suggests that group 1 metabotropic receptor function is exaggerated in FXS. The development of genetically modified rats allows the modelling of FXS in an animal model with more complex cognitive and social behaviours than has been previously available. It also provides an opportunity for comparison of phenotypes across mammalian species that result from FMRP deletion. While the study of Fmr1 rats can significantly contribute to our understanding of FXS, we must first confirm the assumption that cellular phenotypes are conserved across mouse and rat models. In this thesis, we first aimed to test if the key cellular and synaptic phenotypes that contribute to the ‘mGluR theory of FXS’ are conserved in both the hippocampus and amygdala of Fmr1 KO rats. In agreement with mouse studies, we found mGluR-LTD was both enhanced and independent of new protein synthesis in Fmr1 KO rats. Similarly, group 1 mGluR long-term potentiation (LTP) was significantly decreased at both cortical and thalamic inputs to the lateral amygdala. Secondly, we investigated mPFC intrinsic excitability and synaptic plasticity in Fmr1 KO rats. The mPFC plays a key role in several of the cognitive functions that are affected in fragile X patients including attention, cognitive flexibility and anxiety (Goto et al., 2010). The regulation of mPFC plasticity and intrinsic excitability has also been associated with mGluR signalling. Here we found that intralaminar LTP in the mPFC showed an age-dependent deficit in Fmr1 KO rats. The mPFC also provides top down control of several cortical and subcortical regions through long-range connectivity. One pathway of interest in the study of FXS is mPFC-amygdala connectivity which is associated with fear learning and anxiety behaviours (Burgos- Robles et al., 2009). Using retrograde tracing, we showed layer 5 pyramidal neurons that provide long-range connections to the basal amygdala were intrinsically hypoexcitable in Fmr1 KO rats. This phenotype could possibly be explained through homeostatic changes in the axon initial segment which regulates neuronal excitability. This work provides the first evidence for conservation of cellular phenotypes associated with the loss of FMRP in mice and rats which will be key in the interpretation of future studies using Fmr1 KO rats. We also provide evidence of deficits in mPFC long-range connectivity to the basal amygdala, a pathway that is associated with FXS relevant behaviours. Together this highlights how study of the rat model of FXS can complement existing studies of Fmr1 KO mice as well as provide new insights into the pathophysiology resulting from the loss of FMRP. Some of this work was published in Till et al., 2015.

The biological sense organ contains infinite potential. The artificial neural structures have emulated the potential of the central nervous system; however, most of the researchers have been using the linear combination of synaptic operation. In this thesis, this neural structure is referred to as the neural unit with linear synaptic operation (LSO). The objective of the research reported in this thesis is to develop novel neural units with higher-order synaptic operations (HOSO), and to explore their potential applications. The neural units with quadratic synaptic operation (QSO) and cubic synaptic operation (CSO) are developed and reported in this thesis. A comparative analysis is done on the neural units with LSO, QSO, and CSO. It is to be noted that the neural units with lower order synaptic operations are the subsets of the neural units with higher-order synaptic operations. It is found that for much more complex problems the neural units with higher-order synaptic operations are much more efficient than the neural units with lower order synaptic operations. Motivated by the intensity of the biological neural systems, the dynamic nature of the neural structure is proposed and implemented using the neural unit with CSO. The dynamic structure makes the system response relatively insensitive to external disturbances and internal variations in system parameters. With the success of these dynamic structures researchers are inclined to replace the recurrent (feedback) neural networks (NNs) in their present systems with the neural units with CSO. Applications of these novel dynamic neural structures are gaining potential in the areas of image processing for the machine vision and motion controls. One of the machine vision emulations from the biological attribution is edge detection. Edge detection of images is a significant component in the field of computer vision, remote sensing and image analysis. The neural units with HOSO do replicate some of the biological attributes for edge detection. Further more, the developments in robotics are gaining momentum in neural control applications with the introduction of mobile robots, which in turn use the neural units with HOSO; a CCD camera for the vision is implemented, and several photo-sensors are attached on the machine. In summary, it was demonstrated that the neural units with HOSO present the advanced control capability for the mobile robot with neuro-vision and neuro-control systems.