In neurons, mitochondrial quantity and basal cellular respiration are maintained with age, but alterations in other key functions and quantities make these cells susceptible to the pathology of age-related neurodegenerative disease. We observed age-related decreases in cytochrome C, cardiolipin, cytochrome C oxidase (CCO) function, and glutamate response that render cells less capable of responding to stress. Rescue experiments showed that estrogen is a promising treatment in restoring neuron function with age. After finding key differences in CCO, we examined the electron transport chain more closely and found age-related deficits in quantity or function for each individual complex. Our experiments support a lack of endogenous substrates or a failure of upstream complexes to transport electrons to complex IV with age, ultimately leading to age-related neurodegeneration. Reactive oxygen species production may add to the problem by degrading macromolecules such as nucleic acid, cardiolipin, and proteins. Increased ROS may also lead to a redox imbalance in the neuron, reducing the potential for energy production. Also, epigenetic controls such as DNA methylation, histone acetylation ubiquitination and phosphorylation that persist in culture independent of aging hormone levels, vasculature, and immune system may be partly responsible for the observed age-related deficiencies as has been previously observed in aging human muscle (Ronn et al., 2008). This compelling cumulative evidence suggests an age-related deficiency in electron transport via quinones from complexes I to III, and age-related deficiencies in substrates, cofactors, and quantity or function for complex IV. These studies add to the growing body of evidence that dysfunction in the enzyme complexes of the electron transport chain lead to neurodegeneration in senescence-related diseases. In an attempt to integrate our age-related findings with Alzheimer's Disease (AD) pathology, we sequentially isolated the electron transport chain complexes using selective mitochondrial inhibitors in cortical neurons removed from the 3xTg-AD mouse model, which harbors mutations in the PS1, APPSwe and tauP301L genes and follows the proposed temporal development of human AD pathology (Oddo et al., 2003a; 2003b). Overall, we did not detect 3xTg-AD cortical neuron deficits at the four electron transport complexes of mitochondria or in NAD(P)H oxidase (NOX), an extramitochondrial oxygen consumer and regulator of NAD(P)+/NAD(P)H homeostasis (Morre et al., 2000).

Memory is one of the highest cognitive functions that differentiates higher organisms from others because of its fundamental function to all learning and studying process. Recently, it was suggested that lactate works as a signaling molecule in neuronal plasticity system in long-term memory (LTM). These functions are reported only at mice so far, but it would be a universal phenomenon among various higher organisms. Because lactate is organic acid that is involved with energy production, it is of particular interest to know how memory associated genes including lactate-mediated neural plasticity (LMNP) genes get involved during evolution. I here set the purpose of my studies to understand the evolutionary origin and process of these memory-associated genes. Conducting an extensive literature survey, I collected a total of 302 genes of mice as memory associated genes. I, then, compared the number of genes orthologous to the 302 mice memory-associated genes among 11 representative organisms that I have chosen for the present study. As a result, I found that these memory-associated genes emerged at different time points during evolution, even before the emergence time of the organisms where memory function was reported. It suggests that memory function could be evolutionarily established gradually but not at once. Moreover, I examined 386 of LMNP-related genes of mice and other organisms to understand the evolutionary origin and processes of those genes that were identified by RNA-seq analyses (Margineanu et al., 2018). I found that the emergence times of LMNP genes were varied with genes, suggesting that the LMNP system may have been also formed gradually until its completion of the system around at the time of the common ancestor of vertebrates. Interestingly, I found that there are 13 genes overlap between the memory system and the LMNP system, indicating the critical role of those genes in connecting between both systems. From those studies, I conclude that the memory system and LMNP system has been formed by gradual participation of newly emerging genes during evolution, suggesting that the function of LMNP as a signaling molecule may be evolutionarily related to memory system by an unknown system that may exist to link both systems.

The thesis addresses the topic of Deep Neural Networks, in particular the methods regar- ding the field of Deep Learning, which is used to initialize the weight and learning process s itself within Deep Neural Networks. The focus is also put to the basic theory of the classical Neural Networks, which is important to comprehensive understanding of the issue. The aim of this work is to determine the optimal set of optional parameters of the algori- thms on various complexity levels of image recognition tasks through experimenting with created application applying Deep Neural Networks. Furthermore, evaluation and analysis of the results and lessons learned from the experimentation with classical and Deep Neural Networks are integrated in the thesis.

abstract: Development of the cerebral cortex requires the complex integration of extracellular stimuli to affect changes in gene expression. Trophic stimulation activates specialized intracellular signaling cascades to instruct processes necessary for the elaborate cellular diversity, architecture, and function of the cortex. The canonical RAS/RAF/MEK/ERK (ERK/MAPK) cascade is a ubiquitously expressed kinase pathway that regulates crucial aspects of neurodevelopment. Mutations in the ERK/MAPK pathway or its regulators give rise to neurodevelopmental syndromes termed the “RASopathies.” RASopathy individuals present with neurological symptoms that include intellectual disability, ADHD, and seizures. The precise cellular mechanisms that drive neurological impairments in RASopathy individuals remain unclear. In this thesis, I aimed to 1) address how RASopathy mutations affect neurodevelopment, 2) elucidate fundamental requirements of ERK/MAPK in GABAergic circuits, and 3) determine how aberrant ERK/MAPK signaling disrupts GABAergic development. Here, I show that a Noonan Syndrome-linked gain-of-function mutation Raf1L613V, drives modest changes in astrocyte and oligodendrocyte progenitor cell (OPC) density in the mouse cortex and hippocampus. Raf1L613V mutant mice exhibited enhanced performance in hippocampal-dependent spatial reference and working memory and amygdala-dependent fear learning tasks. However, we observed normal perineuronal net (PNN) accumulation around mutant parvalbumin-expressing (PV) interneurons. Though PV-interneurons were minimally affected by the Raf1L613V mutation, other RASopathy mutations converge on aberrant GABAergic development as a mediator of neurological dysfunction. I therefore hypothesized interneuron expression of the constitutively active Mek1S217/221E (caMek1) mutation would be sufficient to perturb GABAergic circuit development. Interestingly, the caMek1 mutation selectively disrupted crucial PV-interneuron developmental processes. During embryogenesis, I detected expression of cleaved-caspase 3 (CC3) in the medial ganglionic eminence (MGE). Interestingly, adult mutant cortices displayed a selective 50% reduction in PV-expressing interneurons, but not other interneuron subtypes. PV-interneuron loss was associated with seizure-like activity in mutants and coincided with reduced perisomatic synapses. Mature mutant PV-interneurons exhibited somal hypertrophy and a substantial increase in PNN accumulation. Aberrant GABAergic development culminated in reduced behavioral response inhibition, a process linked to ADHD-like behaviors. Collectively, these data provide insight into the mechanistic underpinnings of RASopathy neuropathology and suggest that modulation of GABAergic circuits may be an effective therapeutic option for RASopathy individuals. / Dissertation/Thesis / Doctoral Dissertation Neuroscience 2019

L’amyotrophie spinale infantile (SMA) est une maladie neurodégénérative rare, caractérisée par une perte progressive des motoneurones de la moelle épinière, et pour laquelle aucun traitement curatif n’est disponible. Cette maladie est causée par la mutation du gène SMN1 qui induit une diminution de l’expression de la protéine SMN. Depuis plusieurs des années, notre l’équipe examine les effets de l’exercice sur le développement ou le maintien de l’unité motrice dans des maladies neurodégénératives affectant spécifiquement le motoneurone. Ces études ont notamment permis de mettre en évidence que l’exercice physique pourrait avoir des effets bénéfiques pour l’amyotrophie spinale, dans un modèle de souris SMA de type 2 soumis à un exercice de course sur roue pendant 5 jours (Grondard et al., 2005). Dans notre étude, nous avons comparé les effets de deux programmes d’entraînement différents, d’une durée de 10 mois, basés sur un exercice de course ou sur un exercice de nage, sur des populations de souris SMA de type 3, la forme la moins sévère de la maladie. Dans nos conditions, la course est un exercice de faible intensité et de faible amplitude, mais qui induit plus de lésions musculaires, au contraire de la nage, comme le confirme les mesures de lactate et de créatine kinase circulants. Ces deux paramètres ont des valeurs anormalement hautes chez les souris SMA, suggérant des anomalies métaboliques et de fragilité musculaire, qui sont limitées par les deux programmes d’entraînement. Les analyses du comportement moteur indiquent également que les 10 mois d’entraînement améliorent significativement les capacités motrices des souris SMA, et notamment la résistance à la fatigue avec la nage. Comme attendu, la perte de 46% des motoneurones spinaux enregistrée à 12 mois chez les souris SMA sédentaires est significativement limitée par les deux types d’entrainement, mais avec des efficacités différentes sur les différentes sous‐populations de motoneurones spinaux. En effet, la course protège préférentiellement les motoneurones de faible surface et exprimant ERR‐β, assimilés à des motoneurones lents, et la nage les motoneurones de large surface et exprimant Chodl, assimilés à des motoneurones rapides. De manière surprenante, la neuroprotection induite par l’exercice est indépendante de l’expression de SMN dans la moelle épinière des souris SMA. Une étude de la forme et de la surface des jonctions neuromusculaires dans trois muscles du mollet, le soleus, le plantaris et le tibialis, et une étude du phénotype musculaire de ces mêmes trois muscles confirment le rôle bénéfique de l’entrainement mais aussi les effets différentiels des deux programmes, avec un effet plus important pour la nage. Les améliorations de l’unité motrice, induites par l’exercice, permettent un meilleur fonctionnement neuromusculaire, comme le suggère les mesures électrophysiologiques du muscle plantaire. Pris tous ensemble, ces résultats suggèrent qu’un exercice de nage, à haute intensité, dans des conditions anaérobies, et axé sur le recrutement des muscles extenseurs pourrait être bénéfique pour les patients SMA, notamment pour améliorer les capacités motrices et donc la qualité de vie des patients. / Objective: Spinal Muscular Atrophy (SMA) is a group of autosomal recessive neurodegenerative diseases differing in their clinical outcome, characterized by the specific loss of spinal motor‐neurons, caused by insufficient levels of SMN protein expression. No cure is presently available for SMA. While physical exercise might represent a promising approach for alleviating SMA symptoms, the lack of data dealing with the effects of different exercise types on diseased motor‐units still precludes the use of exercise in SMA patients. Methods: We have evaluated the efficiency of two long‐term physical exercise paradigms, either based on high intensity swimming or on low intensity running, in alleviating SMA symptoms in a mild type 3 SMA‐like mouse model. Results: We found that a 10‐month physical training induced significant benefits in terms of resistance to muscle damages, energetic metabolism, muscle fatigue and motor behavior. Both exercise types significantly enhanced motor‐neuron survival, independently of SMN expression, leading to the maintenance of neuromuscular junctions and skeletal muscle phenotypes, particularly in the soleus, plantaris and tibialis of trained mice. Most importantly, both exercises significantly improved neuromuscular excitability properties. Besides, all these training‐induced benefits are quantitatively and qualitatively related to the specific characteristics of each exercise, suggesting that the related neuroprotection is strongly dependent on the specific activation of some motor‐neuron subpopulations. Interpretation: Taken together, the present data show significant long‐term exercise benefits in a mild type 3 SMA context and provide important clues for designing rehabilitation programs in patients.

Olfactory sensory neurons in the olfactory epithelium are responsible for detecting the odors we smell and are constantly dying. However, in order for the sense of smell to be maintained, the olfactory system has the unique ability to generate new neurons. After an olfactory sensory neuron is born in the olfactory epithelium, it must extend an axon towards the olfactory bulb in the central nervous system. Within the olfactory bulb, these axons make specific synaptic contacts with the dendritic processes of mitral cells, which are the main projection neurons from the olfactory bulbs into higher cortical areas in the brain. In addition to regeneration due to normal turnover, the olfactory system is also capable of recovery after an injury. The olfactory system’s ability to recover is remarkable because it is capable of regeneration after a mild injury (a portion of olfactory epithelium is removed) or a severe injury (in which the entire olfactory epithelium is removed.) A well-established model for producing a severe type of injury in the olfactory epithelium is by inducing a chemical ablation by a single injection of the drug methimazole. A specific interest in the regenerative process after injury is reestablishment of synaptic connections. We hypothesized that expression of synaptic markers will allow for establishing a timeline of functional recovery of the olfactory system after injury. Our lab has studied three synaptic vesicle associated proteins, vesicular glutamate transporter -1 (VGlut-1), vesicular glutamate transporter-2 (VGlut-2), and synaptophysin, as well as one activity-regulated protein, tyrosine hydroxylase. These studies found specific temporal expression profiles at 2, 7 and 14 days post injury. Our initial data show that VGlut-1 and VGlut-2 are decreased after injury, indicative of a reduction in synaptic connectivity in both olfactory sensory neuron axons and in dendrites of mitral cell neurons. These changes in synaptic connectivity help in understanding functional connectivity after an injury and can further be used to correlate histological axonal tracing with behavioral studies.

Laser capture microdissection (LCM) is a versatile computer-assisted dissection method that permits collection of tissue samples with a remarkable level of anatomical resolution. LCM's application to the study of human brain pathology is growing, although it is still relatively underutilized, compared with other areas of research. The present study examined factors that affect the utility of LCM, as performed with an Arcturus Veritas, in the study of gene expression in the human brain using frozen tissue sections. LCM performance was ascertained by determining cell capture efficiency and the quality of RNA extracted from human brain tissue under varying conditions. Among these, the relative humidity of the laboratory where tissue sections are stained, handled, and submitted to LCM had a profound effect on the performance of the instrument and on the quality of RNA extracted from tissue sections. Low relative humidity in the laboratory, i.e., 6-23%, was conducive to little or no degradation of RNA extracted from tissue following staining and fixation and to high capture efficiency by the LCM instrument. LCM settings were optimized as described herein to permit the selective capture of astrocytes, oligodendrocytes, and noradrenergic neurons from tissue sections containing the human locus coeruleus, as determined by the gene expression of cell-specific markers. With due regard for specific limitations, LCM can be used to evaluate the molecular pathology of individual cell types in post-mortem human brain.

Spinal muscular atrophy (SMA) is a genetic disorder characterized by muscle weakness and atrophy and death of motor neurons in humans. Although almost all cases of SMA occur due to mutations in a gene called survival motor neuron 1 (SMN1), SMA patients present with a wide range of severities of the symptoms. The most severe cases never achieve any developmental motor milestone and die within a few years after birth. On the other hand, mild cases of SMA have a normal life span and show trivial motor deficits. This suggests the role of other factors (rather than the function of SMN1) in the outcome of the disease. Indeed, the copy number of an almost identical gene, called SMN2, is the main determining factor for the severity of SMA. In addition, a few other genes (e.g. Plastin 3) are proposed as disease modifiers in SMA. SMN1 is a housekeeping gene, but due to unknown reasons, the most prominent pathologies in SMA are atrophy of myofibers and death of motor neurons. However, recent studies showed that some other cell types are also affected in the course of SMA disease. We investigated the alterations of central synapses in Smn2B/- mice, a model of SMA. We did not observe any degeneration of central synapses in these mice until a post symptomatic stage. However, mass spectrometry (MS) analysis on isolated synaptosomes from spinal cords of these animals revealed widespread alterations in the proteome of their central synapses at a presymptomatic stage. Functional cluster analysis on MS results suggested that several molecular pathways are affected within synapses of spinal cords of Smn2B/- mice prior to the onset of any obvious pathology in their motor units. The affected molecular pathways are involved in basic cell biological functions including energy production, protein synthesis, cytoskeleton regulation and intracellular trafficking. We showed that the levels of several proteins involved in actin cytoskeleton regulation are altered in synaptosomes isolated from spinal cords of Smn2B/- mice. More investigations are required to determine the exact functional abnormalities of affected pathways in central synapses of these mice. We also generated congenic Smn2B/- mice in two different mouse genetic backgrounds; FVB and BL6. Using a systematic approach, we showed that congenic Smn2B/- mice in the FVB background show a more severe SMA phenotype than Smn2B/- mice in a BL6 background. Smn2B/- mice in the FVB background had a shorter survival, higher rate of weight loss, earlier and more severe pathologic changes compared to Smn2B/- mice in the BL6 background. We investigated the levels of several actin binding proteins in spinal cords of these animals and found higher induction of plastin 3 in Smn2B/- mice in the BL6 background. More investigations are underway to determine the role of plastin 3 in the severity of the phenotype of Smn2B/- mice, and to find other possible SMA modifier genes in these animals.

Humanin (HN) is an anti-apoptotic peptide that suppresses neuronal cell death induced by Alzheimer's disease, prion protein fragments, and serum deprivation. Recently, we demonstrated that Gly14-HN (HNG), a variant of HN in which the 14th amino acid serine is replaced with glycine, can decrease apoptotic neuronal death and reduce infarct volume in a focal cerebral ischemia/reperfusion mouse model. In this study, we postulate that the mechanism of HNG's neuroprotective effect is mediated by the PI3K/Akt pathway. Oxygen-glucose deprivation (OGD) was performed in cultured mouse primary cortical neurons for 60 min. The effect of HNG and PI3K/Akt inhibitors on OGD-induced cell death was examined at 24 h after reperfusion. HNG increased cell viability after OGD in primary cortical neurons, whereas the PI3K/Akt inhibitors wortmannin and Akti-1/2 attenuated the protective effect of HNG. HNG rapidly increased Akt phosphorylation, an effect that was inhibited by wortmannin and Akti-1/2. Mouse brains were injected intraventricularly with HNG before being subjected to middle cerebral artery occlusion (MCAO). HNG treatment significantly elevated p-Akt levels after cerebral I/R injury and decreased infarct volume. The protective effect of HNG on infarct size was attenuated by wortmannin and Akti-1/2. Taken as a whole, these results suggest that PI3K/Akt activation mediates HNG's protective effect against hypoxia/ischemia reperfusion injury.

Although human congenital cerebellar malformations are common, their molecular and developmental basis is still poorly understood. Recently, cilia-related gene deficiencies have been implicated in several congenital disorders that exhibit cerebellar abnormalities such as Joubert syndrome, Meckel-Gruber syndrome, Bardet-Biedl syndrome, and Orofaciodigital syndrome. The association of cilia gene mutations with these syndromes suggests that cilia may be important for cerebellar development, but the nature of cilia involvement has not been elucidated. To assess the importance of cilia-related proteins during cerebellar development, we studied the effects of CNS-specific inactivation of two mouse genes whose protein products are critical for cilia formation and maintenance, IFT88, (also known as polaris or Tg737), which encodes intraflagellar transport 88 homolog, and Kif3a, which encodes kinesin family member 3a. We showed that loss of either of these genes caused severe cerebellar hypoplasia and foliation abnormalities, primarily attributable to a failure of expansion of the neonatal granule cell progenitor population. In addition, granule cell progenitor proliferation was sensitive to partial loss of IFT function in a hypomorphic mutant of IFT88 (IFT88orpk), an effect that was modified by genetic background. IFT88 and Kif3a were not required for the specification and differentiation of most other cerebellar cell types, including Purkinje cells. Together, our observations constitute the first demonstration that cilia proteins are essential for normal cerebellar development and suggest that granule cell proliferation defects may be central to the cerebellar pathology in human cilia-related disorders.