Comprehensive Detection of Genes Causing a Phenotype using Phenotype Sequencing and Pathway Analysis

Discovering all the genetic causes of a phenotype is an important goal in functional genomics. In this paper we combine an experimental design for multiple independent detections of the genetic causes of a phenotype, with a high-throughput sequencing analysis that maximizes sensitivity for comprehensively identifying them. Testing this approach on a set of 24 mutant strains generated for a metabolic phenotype with many known genetic causes, we show that this pathway-based phenotype sequencing analysis greatly improves sensitivity of detection compared with previous methods, and reveals a wide range of pathways that can cause this phenotype. We demonstrate our approach on a metabolic re-engineering phenotype, the PEP/OAA metabolic node in E. coli, which is crucial to a substantial number of metabolic pathways and under renewed interest for biofuel research. Out of 2157 mutations in these strains, pathway-phenoseq discriminated just five gene groups (12 genes) as statistically significant causes of the phenotype. Experimentally, these five gene groups, and the next two high-scoring pathway-phenoseq groups, either have a clear connection to the PEP metabolite level or offer an alternative path of producing oxaloacetate (OAA), and thus clearly explain the phenotype. These high-scoring gene groups also show strong evidence of positive selection pressure, compared with strictly neutral selection in the rest of the genome

Visual processing in the central bee brain

Visual scenes comprise enormous amounts of information from which nervous systems extract behaviorally relevant cues. In most model systems, little is known about the transformation of visual information as it occurs along visual pathways. We examined how visual information is transformed physiologically as it is communicated from the eye to higher-order brain centers using bumblebees, which are known for their visual capabilities. We recorded intracellularly in vivo from 30 neurons in the central bumblebee brain (the lateral protocerebrum) and compared these neurons to 132 neurons from more distal areas along the visual pathway, namely the medulla and the lobula. In these three brain regions (medulla, lobula, and central brain), we examined correlations between the neurons' branching patterns and their responses primarily to color, but also to motion stimuli. Visual neurons projecting to the anterior central brain were generally color sensitive, while neurons projecting to the posterior central brain were predominantly motion sensitive. The temporal response properties differed significantly between these areas, with an increase in spike time precision across trials and a decrease in average reliable spiking as visual information processing progressed from the periphery to the central brain. These data suggest that neurons along the visual pathway to the central brain not only are segregated with regard to the physical features of the stimuli (e.g., color and motion), but also differ in the way they encode stimuli, possibly to allow for efficient parallel processing to occur

Responses of Drosophila giant descending neurons to visual and mechanical stimuli

In Drosophila, the paired giant descending neurons (GDNs), also known as giant fibers, and the paired giant antennal mechanosensory descending neurons (GAMDNs), are supplied by visual and mechanosensory inputs. Both neurons have the largest cell bodies in the brain and both supply slender axons to the neck connective. The GDN axon thereafter widens to become the largest axon in the thoracic ganglia, supplying information to leg extensor and wing depressor muscles. The GAMDN axon remains slender, interacting with other descending neuron axons medially. GDN and GAMDN dendrites are partitioned to receive inputs from antennal mechanosensory afferents and inputs from the optic lobes. Although GDN anatomy has been well studied in Musca domestica, less is known about the Drosophila homolog, including electrophysiological responses to sensory stimuli. Here we provide detailed anatomical comparisons of the GDN and the GAMDN, characterizing their sensory inputs. The GDN showed responses to light-on and light-off stimuli, expanding stimuli that result in luminance decrease, mechanical stimulation of the antennae, and combined mechanical and visual stimulation. We show that ensembles of lobula columnar neurons (type Col A) and mechanosensory antennal afferents are likely responsible for these responses. The reluctance of the GDN to spike in response to stimulation confirms observations of the Musca GDN. That this reluctance may be a unique property of the GDN is suggested by comparisons with the GAMDN, in which action potentials are readily elicited by mechanical and visual stimuli. The results are discussed in the context of descending pathways involved in multimodal integration and escape responses

Exploring Complementary Approaches in Electron Microscopy for Neuromorphic Devices

Neuromorphic hardware, inspired by the architecture and functionality of the human brain, aims to emulate cognitive processes efficiently and accurately. Electron microscopy (EM) has emerged as a powerful tool for the characterization of neuromorphic devices, providing insights into the structural, morphological and chemical properties critical for understanding device performance and behavior. In first place, recent advancements and challenges in characterization by EM are critically discussed, highlighting the importance of interdisciplinary collaboration between materials scientists and electrical engineers. Although EM offers one of the highest lateral resolutions available, the standard techniques reach their limitations in neuromorphic devices, where the processes involved may occur spatially and temporally localized. In this thesis, distinct complementary EM approaches have been used to address this issue and to access higher level information to correlate structural and spectroscopic features with electrical performance. One approach is to combine different perspectives (e.g., plan-view and cross-section) that provide qualitatively distinct information. In a second approach, complementary spectroscopic methods were combined for a neuromorphic device made of several very thin oxide layers (HfO2, Al2O3 and NbOx) to build a purely electronic switching model based on charging and discharging of trap states in HfO2. A third approach is the combination of the advanced in situ SEM methods active voltage contrast and resistive contrast imaging. These techniques provide the possibility to correlate the critical spiking dynamics of a self-organized nanoparticle network at the percolation threshold with the evolving current path. These methods revealed a changing potential distribution during spiking and a changing position of nano-gaps in the current path after spiking

Investigating neural mechanisms underlying division of labor in Temnothorax ants.

O patrocínio é uma forma especial de publicidade, um instrumento de promoção da “imagem empresarial” do patrocinador, isto é, de um “instrumento da política de imagem” das empresas, mediante associação de um seu sinal distintivo, maxime a marca, à fama ou celebridade de uma pessoa e/ou à notoriedade do evento patrocinados, participando na repercussão mediática do seu êxito (“transferência de imagem por associação”). Este estudo analisa implicações jurídicas do patrocínio desportivo

Alometría cerebral y plasticidad neuronal en el abejorro Bombus occidentalis

Brain plasticity is a common phenomenon across animals and in many cases it is associated with behavioral transitions. In social insects, such as bees, wasps and ants, plasticity in a particular brain compartment involved in multisensory integration (the mushroom body) has been associated with transitions between tasks differing in cognitive demands. However, in most of these cases, transitions between tasks are age-related, requiring the experimental manipulation of the age structure in the studied colonies to distinguish age and experience-dependent effects. To better understand the interplay between brain plasticity and behavioral performance it would therefore be advantageous to study species whose division of labor is not age-dependent. Here, we focus on brain plasticity in the bumblebee Bombus occidentalis, in which division of labor is strongly affected by the individual’s body size instead of age. We show that, like in vertebrates, body size strongly correlates with brain size. We also show that foraging experience, but not age, significantly correlates with the increase in the size of the mushroom body, and in particular one of its components, the medial calyx. Our results support previous findings from other social insects suggesting that the mushroom body plays a key role in experience-based decision making. We also discuss the use of bumblebees as models to analyze neural plasticity and the association between brain size and behavioral performance

Learning of bimodal versus unimodal signals in restrained bumble bees

Q2Q1Similar to animal communication displays, flowers emit complex signals that attract pollinators. Signal complexity could lead to higher cognitive load for pollinators, impairing performance, or might benefit them by facilitating learning, memory and decision making. Here, we evaluated learning and memory in foragers of the bumble bee Bombus impatiens trained to simple (unimodal) versus complex (bimodal) signals under restrained conditions. Use of a proboscis extension response protocol enabled us to control the timing and duration of stimuli presented during absolute and differential learning tasks. Overall, we observed broad variation in performance under the two conditions, with bees trained to compound bimodal signals learning and remembering as well as, better than or more poorly than bees trained to unimodal signals. Interestingly, the outcome of training was affected by the specific colour–odour combination. Among unimodal stimuli, the performance with odour stimuli was higher than with colour stimuli, suggesting that olfactory signals played a more significant role in the compound bimodal condition. This was supported by the fact that after 24 h, most bimodal-treatment bees responded to odour but not visual stimuli. We did not observe differences in latency of response, suggesting that signal composition affected decision accuracy, not speed. We conclude that restrained bumble bee workers exhibit broad variation of responses to bimodal stimuli and that components of the bimodal signal may not be used equivalently. The analysis of bee performance under restrained conditions enables accurate control of the multimodal stimuli provided to individuals and to study the interaction of individual components within a compound.http://orcid.org/0000-0001-7928-1885Revista Nacional - Indexad