A future for systems and computational neuroscience in France?

This special issue of the Journal of Physiology, Paris, is an outcome of NeuroComp'06, the first French conference in Computational Neuroscience. The preparation for this conference, held at Pont-à-Mousson in October 2006, was accompanied by a survey which has resulted in an up-to-date inventory of human resources and labs in France concerned with this emerging new field of research (see team directory in http://neurocomp.risc.cnrs.fr/). This thematic JPP issue gathers some of the key scientific presentations made on the occasion of this first interdisciplinary meeting, which should soon become recognized as a yearly national conference representative of a new scientific community. The present introductory paper presents the general scientific context of the conference and reviews some of the historical and conceptual foundations of Systems and Computational Neuroscience in France.     

Form and function in manganese-oxidizing bacteria

Summary Stalked, budding bacteria of the genus Hyphomicrobium are shown to be responsible for manganese deposition in freshwater pipelines. The attachment of the cells to the pipe surface is considered from the point of view of electrostatic attraction and the production of holdfast material. Electrophoretic studies indicate that Hyphomicrobium cells are negatively charged and that their surface ionogenic groups are carboxylic. It is postulated that the curious morphology and mode of reproduction of hyphomicrobia accounts for their efficiency in producing, or coexisting with, the manganese oxides they produce.

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Zusammenfassung Die gestielte Bakteriengattung der Hyphomikroben wird für die Manganschlammablagerungen in Süßwasserdruckrohrleitungen verantwortlich gemacht. Die Bindung der Zellen an die Rohroberfläche soll durch elektrostatische Anziehungskraft und Bildung von Haftmaterial bewirkt werden. Die elektrophoretischen Versuche zeigen, daß die Hyphomicrobium-Zellen negativ geladen und die Ionen-Gruppen der Oberfläche Carboxyle sind. Es wird postuliert, daß die eigentümliche Morphologie und Vermehrungsweise der Hyphomikroben verantwortlich sind für ihre Fähigkeit, Manganoxyde zu bilden und mit ihnen gemeinsam zu existieren.

     

A genetically tractable jellyfish model for systems and evolutionary neuroscience

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Form and function in the trypanosomal secretory pathway

Recent advances in secretory biology of African trypanosomes reveal both similarities and striking differences with other model eukaryotic organisms. Secretion is streamlined for rapid and selective transport of the major cargo, VSG. Selectivity in the early and post-Golgi compartments is dependent on glycosylphosphatidyl inositol anchors. Streamlining includes reduced organellar abundance, and close association of ER exit sites with Golgi and with unique flagellar cytoskeletal elements that govern organellar replication and segregation. These elements include a novel centrin containing bilobe structure. Innate signals for post-Golgi sorting of biosynthetic lysosomal cargo trafficking have been defined, as have pathways for both biosynthetic and endocytic trafficking to the lysosome. Less well-defined secretory organelles such as the multivesicular body and acidocalcisomes are receiving closer scrutiny.     

Form and function of tentacles in pteriomorphian bivalves

Tentacles are remarkable anatomical structures in invertebrates for their diversity of form and function. In bivalves, tentacular organs are commonly associated with protective, secretory, and sensory roles. However, anatomical details are available for only a few species, rendering the diversity and evolution of bivalve tentacles still obscure. In Pteriomorphia, a clade including oysters, scallops, pearl oysters, and relatives, tentacles are abundant and diverse. We investigated tentacle anatomy in the group to understand variation, infer functions, and investigate patterns in tentacle diversity. Six species from four pteriomorphian families (Ostreidae, Pinnidae, Pteriidae, and Spondylidae) were collected and thoroughly investigated with integrative microscopy techniques, including histology, scanning electron microscopy, and confocal microscopy. Tentacles can be classified as middle fold tentacles (MFT) and inner fold tentacles (IFT) according to their position with respect to the folds of the mantle margin. While MFT morphology indicates intense secretion of mucosubstances, no evidence for secretory activity was found for IFT. However, both tentacle types have appropriate ciliary distribution and length to promote mucus transportation for cleaning and lubrication. Protective and sensory functions are discussed based on different lines of evidence, including secretion, cilia distribution, musculature, and innervation. Our results support the homology of MFT and IFT only for Pterioidea and Ostreoidea, considering their morphology, the presence of ciliated receptors at the tips, and branched innervation pattern. This is in accordance with recent phylogenetic hypotheses that support the close relationship between these superfamilies. In contrast, major structural differences indicate that MFT and IFT are probably not homologous across all pteriomorphians. By applying integrative microscopy, we were able to reveal anatomical elements that are essential for the understanding of homology and function when dealing with such superficially similar structures.     

Form and function of arabinogalactans and arabinogalactan-proteins

The occurrence, isolation, chemistry and physico-chemistry of plant arabino-3,6-galactans and arabino-3,6-galactan-proteins is reviewed. The structural relationships between arabino-3,6-galactans from gymnosperm wood, gum exudates of Acacia and other trees, and from plant callus cells and whole tissues are discussed. The nature of these proteoglycans is compared with the arabinose and galactose containing cell wall glycoproteins. Interactions of the arabino-3,6-galactan proteoglycans with carbohydrate binding proteins and with Yariv antigens are described. The utility of these reactions for both cellular and subcellular localization of the proteoglycans is discussed. The possible biological roles of the arabinogalactans and the arabinogalactan-proteins are reviewed.     

The cognitive neuroscience of sleep: neuronal systems,consciousness and learning

Sleep can be addressed across the entire hierarchy of biological organization. We discuss neuronal-network and regional forebrain activity during sleep, and its consequences for consciousness and cognition. Complex interactions in thalamocortical circuits maintain the electroencephalographic oscillations of non-rapid eye movement (NREM) sleep. Functional neuroimaging affords views of the human brain in both NREM and REM sleep, and has informed new concepts of the neural basis of dreaming during REM sleep -- a state that is characterized by illogic, hallucinosis and emotionality compared with waking. Replay of waking neuronal activity during sleep in the rodent hippocampus and in functional images of human brains indicates possible roles for sleep in neuroplasticity. Different forms and stages of learning and memory might benefit from different stages of sleep and be subserved by different forebrain regions.     

Mathematical neuroscience: from neurons to circuits to systems.

Applications of mathematics and computational techniques to our understanding of neuronal systems are provided. Reduction of membrane models to simplified canonical models demonstrates how neuronal spike-time statistics follow from simple properties of neurons. Averaging over space allows one to derive a simple model for the whisker barrel circuit and use this to explain and suggest several experiments. Spatio-temporal pattern formation methods are applied to explain the patterns seen in the early stages of drug-induced visual hallucinations.     

Form and function of fungal spore appendages

A wide variety of fungi have spores with appendages or mucilaginous sheaths, which are most elaborate in aquatic ascomycetes, especially marine species. The form and structure of a wide range of appendaged spores are documented from both taxonomic and ecological fungal groups, and their role in nature is discussed. The effect of environmental factors on appendage development and how ascospores are adapted for release from asci are reviewed. How fungi evolved such a variety of appendages in form and structure is also discussed. This article is dedicated to the late Professor Keisuke Tubaki for his invaluable contribution to mycology and for all his encouragement and support to the author over many years. I appreciate the invitation of the Japanese Mycological Society to write on the above subject, congratulate the society on their 50th anniversary, and wish it well in the coming years.     

XRCC1 protein; Form and function

The human gene that encodes XRCC1 was cloned nearly thirty years ago but experimental analysis of this fascinating protein is still unveiling new insights into the DNA damage response. XRCC1 is a molecular scaffold protein that interacts with multiple enzymatic components of DNA single-strand break repair (SSBR) including DNA kinase, DNA phosphatase, DNA polymerase, DNA deadenylase, and DNA ligase activities that collectively are capable of accelerating the repair of a broad range of DNA single-strand breaks (SSBs). Arguably the most exciting aspect of XRCC1 function that has emerged in the last few years is its intimate relationship with PARP1 activity and critical role in preventing hereditary neurodegenerative disease. Here, I provide an update on our current understanding of XRCC1, and on the impact of hereditary mutations in this protein and its protein partners on human disease.     

Integrating recent advances in neuroscience into undergraduate neuroscience and physiology courses

Neuroscience has enjoyed tremendous growth over the past 20 years, including a substantial increase in the number of neuroscience departments, programs, and courses at the undergraduate level. To meet the need of new neuroscience courses, there has also been growth in the number of introductory neuroscience textbooks designed for undergraduates. However, textbooks typically trail current knowledge by five to ten years, especially in neuroscience where our understanding is increasing rapidly. Consequently, it is often important to supplement neuroscience and physiology textbooks with information about recent findings in neuroscience. To design supplementary educational material, it is essential first to identify the educational objectives of the program and the characteristics of the learners, which can differ dramatically between undergraduate and graduate or professional students. Four principles that may serve the selection and design of supplementary material for undergraduate neuroscience and physiology courses are that (1) material must be interesting to the undergraduates, (2) material should reinforce previously learned concepts, (3) students must be adequately prepared, and (4) the teacher and student must have sufficient appropriate resources.     

Informatics in neuroscience

The application of informatics to neuroscience goes far beyond 'traditional' bioinformatics modalities such as DNA sequences. In this review, we describe how informatics is being used to study the nervous system at multiple levels, spanning scales from molecules to behavior. The continuing development of standards for data exchange and interoperability, together with increasing awareness and acceptance of the importance of data sharing, are among the key efforts required to advance the field.