Neural stem/progenitor cells (NSPCs) play a crucial part in the evolutionary development of the human neocortex. During early postnatal development, NSPCs give rise to immature neurons called neuroblasts within the subventricular zone (SVZ) that utilize unique migratory streams to integrate widely in the cerebral cortex. However, the cellular mechanisms enabling these unique migratory routes through the compacted cellular landscape remain unknown. Special emphasis has been placed on understanding the susceptibility of these brain regions to severe conditions such as congenital heart disease (CHD), resulting in poor neurological outcomes. Owing to its reminiscent complexity to humans, the neonatal piglet (Sus scrofa domesticus), which possesses a highly evolved gyrencephalic neocortex and an expansive outer SVZ, provides a powerful translational model system for the study of how heart dysfunction impacts cortical development from both a modern and evolutionary perspective. The present study provides a detailed characterization of neuroblast migration along their associate substrates in the piglet cortex under normal physiological conditions and how reduced oxygenation (i.e., hypoxia) can impact their vulnerability and/or resistance to injury during a critical period of postnatal development. In this thesis, I investigated the spatiotemporal distribution and developmental origin of SVZ-derived neuroblasts. Following BrdU tracing, multiplex labeling, and confocal microscopy, I show that the porcine brain contains populations of newly generated (BrdU+/DCX+) neurons in the prefrontal cortex that are produced postnatally. Regional analyses using immunohistochemical staining for doublecortin (DCX), a marker expressed by immature neurons, revealed that DCX+ clusters co-express markers of neuronal cell migration (PSA-NCAM), GABAergic interneuron marker (GABA+), and specific transcription factors (SCGN+SP8+) associated with the caudal- and lateral ganglionic eminence progenitor domains in the ventral forebrain. Moreover, I found that DCX+ neuroblasts are encased by astrocytic processes and tightly associated with blood vessels in the SVZ. Additionally, this thesis describes the use of chronic hypoxia as a model to profile neuroblast migration along associated substrates in pathological conditions related to CHD. Together, this work serves as a framework for the functional utilization of the neonatal piglet to understand the impact of substrate-dependent neuronal migration on brain maturation and neurodevelopmental diseases. / Doctor of Philosophy / Congenital heart disease (CHD) remains a significant cause of abnormal fetal brain development, affecting 1-2% of live births per year. Although many surgical strategies have shown promise in increasing quality of life, the current challenges remain the long-term cognitive deficits and diverse neurodevelopmental disabilities due to CHD. Recent studies suggest that dysregulated neurogenesis, which is associated with impaired neocortical development in human fetuses of CHD, may be influenced by altered brain circulation of blood and oxygen deliverance during critical periods of prenatal cortical growth. The brain's subventricular zone (SVZ) niche is essential for producing new neurons following birth to restore, repair, and replace existing neurons in the developing brain. In addition, these newborn neurons undergo long-distance migration from the SVZ to reach their final cortical destinations and ultimately contribute to brain development/plasticity. This study seeks to characterize the migration patterns of newborn neurons and the substrates (e.g., blood vessels or astrocytes), enabling the movement along the unique migratory routes under normal and pathological (i.e., hypoxia) conditions. In short, we found that the vast majority of the SVZ-derived newborn neurons are inhibitory neurons (i.e., interneurons) that originate in the deep region of the brain called the telencephalon and migrate tangentially utilizing blood vessels as scaffolds to the cortex, which is likely to contribute to cortical plasticity. These postnatal piglet findings demonstrate that swine represent a powerful translational model system to study large-brained mammalian cortical development and neuronal migration as it correlates to humans in normal and diseased states.

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Le néocortex est une région du cerveau qui traite toutes les entrées sensorielles et créé des réponses comportementales. Il est subdivisé en zones fonctionnelles, chacune ayant une cytoarchitecture, un motif d’expression génique et un profil de connectivité spécifiques. L'organisation en zones est pré-modelée par des gènes organisateurs, et ensuite affinée par l’activité sensorielle. Dans cette étude, j'ai étudié d'abord si ce pré-modelage est établi dans les progéniteurs et/ou les cellules post-mitotiques, et si l'activité neuronale spontanée est nécessaire pour l’établissement de la connectivité correcte entre néocortex et thalamus, station relais principale des données sensorielles. Avec l'aide d'une série de souris transgéniques, j’ai montré que la fonction du gène organisateur COUP-TFI est suffisante et nécessaire pour organiser l'identité sensorielle dans les cellules post-mitotiques, et que COUP-TFI régule l'activité intrinsèque des neurones corticaux, influençant la bonne intégration des entrées thalamiques dans le cortex somatosensoriel. J’ai montré que COUP-TFI contrôle directement l'expression du gène Egr1, qui dépend fortement de l'activité neuronale. COUP-TFI et Egr1 agissent sur l'acquisition de la morphologie des cellules étoilées dans les neurones de la couche 4, cibles principales des axones thalamiques et trait typique des zones somatosensoriels primaires. En conclusion, ce travail montre que le pré-modelage cortical dépend primordialement d’un programme génétique établi dans les cellules post-mitotiques et que l'activité intrinsèque et les propriétés génétiques agissent ensemble pour façonner l'organisation des premiers circuits dans le néocortex. / The neocortex is a region of the brain that processes all sensory inputs creating appropriate behavioral responses. It is subdivided into functional areas, each with a specific cytoarchitecture, gene expression pattern and connectivity profile. The organization into areas is pre-patterned by the action of areal patterning genes, and subsequently refined by sensory evoked activity. In this study, I have first investigated whether early areal patterning is committed in progenitor and/or post-mitotic cells, and then assessed whether spontaneous neuronal activity is required in establishing correct connectivity between the neocortex and the thalamus, the principal relay station of peripheral sensory inputs. With the help of a series of transgenic mice, my work showed that the function of the areal patterning gene COUP-TFI is sufficient and necessary to organize sensory identity in post-mitotic cells, and that COUP-TFI regulates intrinsic activity properties of cortical neurons, and thus proper integration of thalamic inputs into the somatosensory cortex. In particular, I found that COUP-TFI directly controls the expression of the immediate early gene Egr1, which expression levels strongly depend on neuronal activity. Both COUP-TFI and Egr1 act on the acquisition of the stellate cell morphology of layer 4 neurons, the main targets of thalamic axons and a typical trait of primary somatosensory areas. In conclusion, this work demonstrates that cortical area patterning primordially depends on a genetic program established in post-mitotic cells and that intrinsic genetic and activity properties act together to shape the organization of early circuits in the neocortex.

<p>The neocortex expanded spectacularly during human origins. That expansion is thought to form the foundation for our cognitive faculties underlying abstract reasoning and socialization. The human neocortex differs from that of other great apes in several notable regards including altered cell cycle, prolonged corticogenesis, and massively increased size. However, despite decades of effort, little progress has been made in uncovering the genetic contributions that underlie these differences that distinguish our species from closely related primate, such as chimpanzees. A subset of highly conserved non-coding regions that show rapid sequence changes along the human lineage are candidate loci for the development and evolution of uniquely human traits. Several studies have identified human-accelerated enhancers, but none have linked an expression difference to a organismal traits, such as brain sizes. Here we report the discovery of a human-accelerated regulatory enhancer (HARE5) near the Wnt receptor FRIZZLED-8 (FZD8). Using a variety of approaches, we demonstrate dramatic differences in human and chimpanzee HARE5 activity, with human HARE5 driving significantly strong expression. We show that HARE5 likely regulates FZD8 and that expression differences influence cell cycle kinetics, cortical layers, and brain size. At present, this would provide the first evidence of a human-chimpanzee genetic difference influencing the evolution of brain size.</p> / Dissertation

Gyrencephaly (the folding of the surface of the neocortex) is a mammalian-specific trait present in almost all mammalian orders. Despite the widespread appearance of the trait, little is known about the mechanism of its genesis or its adaptive significance. Still, most of the hypotheses proposed concentrated on the pattern of connectivity of mature neurons as main components of gyri formation. Recent work on embryonic neurogenesis in several species of mammals revealed different progenitor and stem cells and their neurogenic potential as having important roles in the process of gyrification. Studies in the field of comparative neurogenesis revealed that gyrencephaly is an evolutionarily labile trait, and that some species underwent a secondary loss of a convoluted brain surface and thus reverted to a more ancient form, a less folded brain surface (lissencephaly). This phenotypic reversion provides an excellent system for understanding the phenomenon of secondary loss. In this review, we will outline the theory behind secondary loss and, as specific examples, present species that have undergone this transition with respect to neocortical folding. We will also discuss different possible pathways for obtaining (or losing) gyri. Finally, we will explore the potential adaptive consequence of gyrencephaly relative to lissencephaly and vice versa.

This thesis examines the functional connectivity of the hippocampus with the rest of the brain, with a focus on the neocortex. The hypothesis explored, in an animal model, is whether the frequency-dependent behaviour of certain brain connectivity relationships applies to hippocampal-neocortical connections. To encompass the temporal and spatial resolution necessary to do this, two main techniques are used in combination in most of the experimental work hereby presented: (1) electrophysiological recordings of local field potentials (LFPs), and (2) functional activity recordings of blood oxygenation level dependent (BOLD) signal using functional magnetic resonance imaging (fMRI). The main hypothesis is that the frequency-dependent behaviour of specific hippocampal synapses imposes the rules of extra-hippocampal activity propagation and hippocampal-neocortical interactions. The main discovery is that short and long-term plasticity modulates network activation, a finding suggesting a possible mechanism that could mediate the encoding and consolidation of memory traces. Chapters 1 to 3 introduce the vast literature review in which this project lies, and the general methods utilised. Chapter 4 (first experimental chapter) describes, using electrophysiology in rats, the evoked response of the main hippocampal output (CA1 neurons) when its major input (CA3 pyramidal cells) is activated at frequencies that in subsequent experiments were used to build brain-wide functional maps. CA1 spiking activity is found to be optimal in maintaining the amplitude of the population spike (PS) at beta frequencies (10-20 Hz), whereas lower (< 10 Hz) and higher (> 20 Hz) frequencies are normally less effective. Chapter 5 describes, using fMRI, how these intra-hippocampal activity patterns relate to long-range activity propagation in fMRI experiments. Hippocampal activation exhibits a linear monotonic increase with evoked frequency, whilst a network of selected structures is activated preferentially when beta frequencies are applied (mainly neocortical structures like the prefrontal and parietal cortices, motor and sensory cortices, and some subcortical structures like the nucleus accumbens and the striatum). This data is highly correlated with the PS recorded in CA1 and with multi-unit activity (MUA) and single-unit activity (SUA) simultaneously recorded in the medial prefrontal cortex (mPFC), one of the structures receiving propagated activity at beta frequencies, as described in Chapter 6. As mPFC also receives hippocampal input at a restricted beta frequency range stimulation of the dorsal hippocampus, Chapter 7 describes the use of a combined electrophysiology/fMRI approach to identify the pathway responsible for activity propagation. We performed microsurgery lesions to investigate the pathway responsible for the polysynaptic propagation of activity. Findings indicate that the septo-temporal longitudinal pathway is the one leading information transfer from dorsal to ventral hippocampus in the rat, and from there directly to the ventral subiculum, apparently by-passing entorhinal cortex. Last, in Chapter 8 the effect of durable modifications of synaptic weights by long-term potentiation (LTP) in the previously described frequency-dependent activity propagation is also described and contextualized in the memory trace consolidation framework, both electrophysiologically (Chapter 5) and with fMRI (Chapter 6). LTP is a long-lasting change in synaptic weights that, at the CA3-CA1 synapse, is capable of modifying hippocampal-neocortical connections such as to open the opportunity for higher frequency patterns (> 40 Hz) to propagate to neocortical structures. These results suggest that, by means of frequency-coding, the hippocampus normally regulates propagation of selected information to the neocortex, but that at specific moments (e.g. when the hippocampus undergoes LTP) this regulation broadens to permit high-frequency information to pass through and affect neural activity in the cortex. It is a beautifully simple mechanism that merits further detailed examination in a multi-disciplinary manner as outlined in Chapters 9 and 10.

<p>This Master Thesis has been performed at the Department of Electrical Engineering, Division of Electronic Devices in Linköping University. A study about HTM technology and a technical evaluation of advanced HTM picture recognition has been attained. HTM, which stands for Hierarchical Temporal Memory, is a technology developed by Numenta Inc. based on Jeff Hawkins theory on the brain function. The report includes also some essential facts about the brain for guidelines of engineers to reach a better understanding of the connection between the brain and the technology of HTM. Even if the technique of HTM is still young but the ambition of its developer is to design truly intelligent machines.</p>

The mammalian neocortex is an exquisite, highly organized brain structure composed of hundreds of subpopulations of neurons and glia, precisely connected to enable motor control, sensory perception, information integration, and planning. Unique molecular, structural, and anatomical neuronal properties underlie diverse functionality, endowing much of the neocortex’s complex processing power. Neocortical size correlates with information processing capacity, suggesting that increased neuronal number and diversity begets increased sophistication. One excitatory projection neuron type, callosal projection neurons (CPN), has disproportionately expanded with cortical size increase. CPN directly connect homotypic regions of the two neocortical hemispheres by sending axons via the largest white matter fiber tract in the brain, the corpus callosum (CC), allowing quick relay, integration, and comparison of information. In humans, the CC contains over 300,000 axons, CPN have been centrally implicated in autism spectrum disorders, and absence or surgical disruption of CPN connectivity in humans is associated with defects in abstract reasoning, problem solving, and generalization. Therefore, CPN are critical to complex brain functions, and their diversity likely contributes to these roles. Work presented in this dissertation addresses molecular controls over CPN development, specifically genes that are expressed by, and function in, particular subpopulations of CPN. While much progress has been made in identifying molecular controls over neocortical arealization, lamination, and broad subtype specification, CPN diversity has remained largely unaddressed. Therefore, this work begins by identifying genes more highly expressed in CPN than other closely related projection neuron populations, and uncovers molecular diversity within CPN. From this molecular diversity, functional analysis of three candidate molecular controls over CPN subtype diversity follows. Cited2 acts broadly in neocortical progenitor development and postnatally in refining somatosensory CPN identity. Caveolin1 identifies a population of CPN with dual axonal projections. Tmtc4 is mutated in human CC disease and can function in CPN axonal development. These analyses of CPN molecular diversity in mouse then expand to an investigation of which molecular subpopulations are conserved, expanded, or uncommon between rodent and primate, allowing both for comparative evolutionary theories of CPN function, and indicating which CPN populations critical for human brain function can be best studied in rodent models.

This Master Thesis has been performed at the Department of Electrical Engineering, Division of Electronic Devices in Linköping University. A study about HTM technology and a technical evaluation of advanced HTM picture recognition has been attained. HTM, which stands for Hierarchical Temporal Memory, is a technology developed by Numenta Inc. based on Jeff Hawkins theory on the brain function. The report includes also some essential facts about the brain for guidelines of engineers to reach a better understanding of the connection between the brain and the technology of HTM. Even if the technique of HTM is still young but the ambition of its developer is to design truly intelligent machines.