High-Throughput Analysis of in-vitro LFP Electrophysiological Signals: A validated workflow/software package.

Synchronized brain activity in the form of alternating epochs of massive persistent network activity and periods of generalized neural silence, has been extensively studied as a fundamental form of circuit dynamics, important for many cognitive functions including short-term memory, memory consolidation, or attentional modulation. A key element in such studies is the accurate determination of the timing and duration of those network events. The local field potential (LFP) is a particularly attractive method for recording network activity, because it allows for long and stable recordings from multiple sites, allowing researchers to estimate the functional connectivity of local networks. Here, we present a computational method for the automatic detection and quantification of in-vitro LFP events, aiming to overcome the limitations of current approaches (e.g. slow analysis speed, arbitrary threshold-based detection and lack of reproducibility across and within experiments). The developed method is based on the implementation of established signal processing and machine learning approaches, is fully automated and depends solely on the data. In addition, it is fast, highly efficient and reproducible. The performance of the software is compared against semi-manual analysis and validated by verification of prior biological knowledge.

Topographical projection from the superior colliculus to the nucleus of the brachium of the inferior colliculus in the ferret: convergence of visual and auditory information.

The normal maturation of the auditory space map in the deeper layers of the ferret superior colliculus (SC) depends on signals provided by the superficial visual layers, but it is unknown where or how these signals influence the developing auditory responses. Here we report that tracer injections in the superficial layers label axons with en passant and terminal boutons, both in the deeper layers of the SC and in their primary source of auditory input, the nucleus of the brachium of the inferior colliculus (nBIC). Electron microscopy confirmed that biocytin-labelled SC axons form axodendritic synapses on nBIC neurons. Injections of biotinylated dextran amine in the nBIC resulted in anterograde labelling in the deeper layers of the SC, as well as retrogradely labelled superficial and deep SC neurons, whose distribution varied systematically with the rostrocaudal placement of the injection sites in the nBIC. Topographical order in the projection from the SC to the ipsilateral nBIC was confirmed using fluorescent microspheres. We demonstrated the existence of functional SC-nBIC connections by making whole-cell current-clamp recordings from young ferret slices. Both monosynaptic and polysynaptic EPSPs were generated by electrical stimulation of either the superficial or deep SC layers. In addition to unimodal auditory units, both visual and bimodal visual-auditory units were recorded in the nBIC in vivo and their incidence was higher in juvenile ferrets than in adults. The SC-nBIC circuit provides a potential means by which visual and other sensory or premotor signals may be delivered to the nBIC to calibrate the representation of auditory space.

Morphology and growth patterns of developing thalamocortical axons.

It is increasingly evident that the actions of guidance factors depend critically on the cellular and molecular context in which they operate. For this reason we examined the growth cone morphology and behavior of thalamic fibers in the relatively natural environment of a slice preparation containing the entire pathway from thalamus to cortex. Axons were labeled with DiI crystals and imaged with a laser-scanning confocal microscope for up to 8 hr. Their behavior was analyzed in terms of morphology, extension rates, shape of trajectory, frequency of branching, and percentage of time spent in advance, pause, and retraction. Thalamic fibers had distinct and stereotyped growth patterns that related closely to their position; within the striatum growth cones were small and elongated, rarely extending filopodia or side branches. Axons grew quickly, in straight trajectories, with minimal pauses or retractions. When they reached the ventral intermediate zone, axons slowed down, often coming to a complete stop for up to several hours, and their growth cones became larger and more complex. During pauses there were continuous extensions and retractions of filopodia and/or side branches. When advance resumed, it was often to a different direction. These results demonstrate consistent regional variations in growth patterns that identify an unexpected decision region for thalamic axons. They provide the basis for examining the roles of guidance cues in an accessible yet intact preparation of the thalamocortical pathway and allow for an evaluation of previously suggested pathfinding mechanisms.

Differential patterns of semaphorin expression in the developing rat brain.

Semaphorins are a large family of cell-surface and secreted proteins that have been shown to function as chemorepellents or inhibitors of growth cones of peripheral neurons, yet little is known about their role in patterning central pathways. In order to examine whether semaphorins may be involved in guiding the formation of the reciprocal thalamocortical connections in the rat, we have analysed the spatial and temporal expression of five recently identified rodent semaphorins (semB, C, D, F and G) using in situ hybridization. Transcripts of all five genes were present throughout the period examined (E15-P7) and displayed highly specific spatiotemporal distributions. We have based our discussion of putative semaphorin effects on their known functions as chemorepellents and found their spatiotemporal expression patterns compatible with such a role in several developmental events. Specifically, semaphorins are in the position to: (i) prevent neurite extension into the ventricular neuroepithelium throughout the brain; (ii) confer non-permissive properties to the embryonic cortical plate, hence regulating the radial invasion of corticopetal afferents; (iii) confine axonal extension to the intermediate zone and subplate; (iv) maintain the fasciculated state of thalamocortical and corticothalamic axons, and prevent them from branching while they grow through the striatum; and (v) restrict the terminal arborizations of thalamic afferents to layer IV. The evidence that different semaphorin genes are often co-expressed further suggests that the various molecules might interact in synergistic ways. Taken together, our results support the hypothesis that semaphorins could act as guidance signals in the development of the thalamocortical projections and suggest that innervation specificity is achieved through the combined action of multiple guidance cues. Furthermore, these data provide a basis for the design of functional assays and the study of mice carrying knockouts in specific semaphorin genes.

Properties of K+ conductances in cat retinal ganglion cells during the period of activity-mediated refinements in retinofugal pathways.

During ontogeny retinal ganglion cells manifest pronounced changes in excitable membrane properties. To further our understanding of the ionic conductances underlying such functional changes, the whole-cell voltage-clamp variation of the patch-clamp technique was used to record potassium currents in 220 ganglion cells dissociated from cat retinas ranging in age from embryonic day 31 to postnatal day 10. Potassium currents were isolated by blocking voltage-gated Na+ and Ca2+ currents with tetrodoxin (TTX) and CoCl2 respectively and were characterized by their pharmacology, kinetics and voltage-dependence of activation and inactivation. In all cases, a combination of three currents accounted for the total outward calcium-independent K+ current: (i) a steady linear conductance; (ii) a voltage-gated transient current, IA, and (iii) a voltage-gated sustained current, IK. Both voltage-gated currents were affected by the application of 4-aminopyridine and tetraethylammonia (TEA): IA showed a greater sensitivity to 4-aminopyridine, while IK was more sensitive to TEA. Both voltage-gated currents were present throughout the developmental period examined; however, the percentage of retinal ganglion cells (RGCs) expressing IA showed a marked decline from 82% at E31 to 45% at postnatal ages. During this developmental period there was an increase in the density of the two voltage-gated and the linear conductance. Additionally, with maturation, significantly slower inactivation kinetics were observed for IK. These findings, and our previous results dealing with maturational changes in the TTX-sensitive voltage-gated Na current, are related to the generation of excitability in developing retinal ganglion cells. Furthermore, the presence of cells with and without transient K+ conductance throughout development suggests that the different spiking patterns observed in RGC classes may be partially due to differences in their membrane properties.

Prenatal development of excitability in cat retinal ganglion cells: action potentials and sodium currents.

The development of precise retinofugal projections is dependent on activity-mediated events, but as yet nothing is known about the ontogeny of excitable membrane properties in retinal ganglion cells (RGCs). In order to begin to understand how functional maturity is attained in these neurons, whole-cell patch-clamp recordings were obtained from acutely dissociated RGCs of fetal and postnatal timed-pregnant cats. Current-clamp recordings revealed a pronounced developmental increase in the proportion of RGCs capable of generating action potentials. At embryonic day 30 (E30), 5 weeks before birth and during a time when RGCs are still being generated, electrical stimulation elicited spikes in only a third of the cells. None of these neurons were capable of multiple discharges in response to maintained depolarization. The proportion of spiking neurons increased during ontogeny, such that by E55 all RGCs could be induced to generate action potentials, with the majority manifesting repetitive spiking patterns. Application of tetrodotoxin abolished spike activity of all fetal RGCs, indicating that sodium-mediated action potentials are present very early in development. At the same time, voltage-clamp recordings revealed significant ontogenetic modifications in several key properties of the sodium currents (INa). These were (1) a twofold increase in Na current densities; (2) a shift in the voltage dependence of both activation and steady state inactivation: with maturity, sodium currents activate at more negative potentials, while steady state inactivation of INa occurs at less negative potentials; and (3) a decrease in decay time constants of the Na current, at membrane potentials negative to -15 mV. These developmental changes were largely restricted to the period of axon ingrowth (E30-E38), suggesting that maturation of INa is not the limiting factor for the onset of activity-dependent restructuring of retinofugal projections.