Neurogenetics: singing in the brain

The fruitless gene is well-known to play a key role in determining the sexual identity of the fruitfly's nervous system, but new results show that doublesex is also required in thoracic neurons to generate normal male lovesongs.     

Neurogenetics and the "fly-stampede": dissecting neural circuits involved in visual behaviors

A central goal of systems neuroscience is to understand how neural circuits represent quantitative aspects of the outside world and transform these signals into the motor code for behavior. By contrast to olfactory perception in which odors are encoded by a population of ligand-binding receptors at the input stage, the visual system extracts complex information about color, form and movement from just a few types of photoreceptor inputs. The algorithms for many of these transformations are poorly understood. We designed a high throughput real-time quantitative testing system, the "fly-stampede", to evaluate behavioral responses to light and motion cues in Drosophila. With this system, we identified a neural circuit that does not participate in sensing light but is crucial for computing visual motion. When neurons of this circuit are genetically inactivated, the flies show normal walking phototaxis, but are completely motion blind. Using neurogenetics to study the circuits mediating sophisticated animal behaviors is currently a field of intense study. This extra view attempts to summarize our work within historical background of fly biocybernetics and other recent advances.     

Community-based participatory research and integrated knowledge translation: advancing the co-creation of knowledge

Background

Better use of research evidence (one form of “knowledge”) in health systems requires partnerships between researchers and those who contend with the real-world needs and constraints of health systems. Community-based participatory research (CBPR) and integrated knowledge translation (IKT) are research approaches that emphasize the importance of creating partnerships between researchers and the people for whom the research is ultimately meant to be of use (“knowledge users”). There exist poor understandings of the ways in which these approaches converge and diverge. Better understanding of the similarities and differences between CBPR and IKT will enable researchers to use these approaches appropriately and to leverage best practices and knowledge from each. The co-creation of knowledge conveys promise of significant social impacts, and further understandings of how to engage and involve knowledge users in research are needed.

Main text

We examine the histories and traditions of CBPR and IKT, as well as their points of convergence and divergence. We critically evaluate the ways in which both have the potential to contribute to the development and integration of knowledge in health systems. As distinct research traditions, the underlying drivers and rationale for CBPR and IKT have similarities and differences across the areas of motivation, social location, and ethics; nevertheless, the practices of CBPR and IKT converge upon a common aim: the co-creation of knowledge that is the result of knowledge user and researcher expertise. We argue that while CBPR and IKT both have the potential to contribute evidence to implementation science and practices for collaborative research, clarity for the purpose of the research—social change or application—is a critical feature in the selection of an appropriate collaborative approach to build knowledge.

Conclusion

CBPR and IKT bring distinct strengths to a common aim: to foster democratic processes in the co-creation of knowledge. As research approaches, they create opportunities to challenge assumptions about for whom, how, and what is defined as knowledge, and to develop and integrate research findings into health systems. When used appropriately, CBPR and IKT both have the potential to contribute to and advance implementation science about the conduct of collaborative health systems research.

     

The Ixodes scapularis Genome Project: an opportunity for advancing tick research

The Ixodes scapularis Genome Project (IGP), the first to sequence a tick genome, will provide an unparalleled resource for studying tick biology and tick-host-pathogen relationships, and identifying novel targets for tick and tick-borne disease control. The IGP will be the first genomic analysis of a member of the subphylum Chelicerata and will accelerate the pace of tick research. The challenge for scientists is to translate IGP data into public health benefits.     

二代测序技术在结核分枝杆菌研究中的应用进展

结核病是由结核分枝杆菌引起的全球第二大传染病。二代测序技术为从基因组水平研究结核分枝杆菌提供了重要的研究方法。本文从结核病流行病学、结核分枝杆菌耐药和进化及相关生物信息学等方面,介绍二代测序技术在结核分枝杆菌研究中的应用进展。     

Quantum-like brain: "Interference of minds"

We present a contextualist statistical realistic model for quantum-like representations in physics, cognitive science, and psychology. We apply this model to describe cognitive experiments to check quantum-like structures of mental processes. The crucial role is played by interference of probabilities for mental observables. Recently one such experiment based on recognition of images was performed. This experiment confirmed our prediction on the quantum-like behavior of mind. In our approach "quantumness of mind" has no direct relation to the fact that the brain (as any physical body) is composed of quantum particles. We invented a new terminology "quantum-like (QL) mind." Cognitive QL-behavior is characterized by a nonzero coefficient of interference lambda. This coefficient can be found on the basis of statistical data. There are predicted not only cos theta-interference of probabilities, but also hyperbolic cosh theta-interference. This interference was never observed for physical systems, but we could not exclude this possibility for cognitive systems. We propose a model of brain functioning as a QL-computer (there is a discussion on the difference between quantum and QL computers).     

RADSeq: next-generation population genetics

Next-generation sequencing technologies are making a substantial impact on many areas of biology, including the analysis of genetic diversity in populations. However, genome-scale population genetic studies have been accessible only to well-funded model systems. Restriction-site associated DNA sequencing, a method that samples at reduced complexity across target genomes, promises to deliver high resolution population genomic data-thousands of sequenced markers across many individuals-for any organism at reasonable costs. It has found application in wild populations and non-traditional study species, and promises to become an important technology for ecological population genomics.     

GenomeView: a next-generation genome browser

Due to ongoing advances in sequencing technologies, billions of nucleotide sequences are now produced on a daily basis. A major challenge is to visualize these data for further downstream analysis. To this end, we present GenomeView, a stand-alone genome browser specifically designed to visualize and manipulate a multitude of genomics data. GenomeView enables users to dynamically browse high volumes of aligned short-read data, with dynamic navigation and semantic zooming, from the whole genome level to the single nucleotide. At the same time, the tool enables visualization of whole genome alignments of dozens of genomes relative to a reference sequence. GenomeView is unique in its capability to interactively handle huge data sets consisting of tens of aligned genomes, thousands of annotation features and millions of mapped short reads both as viewer and editor. GenomeView is freely available as an open source software package.