@phdthesis{Subramanian2011,
  author    = {Subramanian, Narayan},
  title     = {Role of NaV1.9 in activity dependent axon growth in embryonic cultured motoneurons},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-57536},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {Spontaneous neural activity has been shown to regulate crucial events in neurite growth including axonal branching and path finding. In animal models of spinal muscular atrophy (SMA) cultured embryonic mouse motoneurons show distinct defect in axon elongation and neural activity. This defect is governed by abnormal clustering of Ca2+ channels in the axonal regions and the protruding growth cone area. The mechanisms that regulate the opening of calcium channels in developing motoneurons are not yet clear. The question was addressed by blocking neural activity in embryonic cultured motoneurons by pharmacological inhibition of voltage-gated sodium channels (VGSC) by saxitoxin (STX) and tetrodotoxin (TTX). Low dosages of STX resulted in significant reduction of axon growth and neural activity in cultured motoneurons. This pharmacological treatment did not affect survival of motoneurons in comparison to control motoneurons that was grown in the presence of survival neurotrophic factors BDNF and CNTF. It was also found that STX was 10 times more potent than TTX a common inhibitor of VGSC with a reduced activity on the TTX-insensitive sodium channels NaV1.5, NaV1.8 and NaV1.9. Reverse Transcriptase-PCR experiments revealed the presence of NaV1.9 as the likely candidate that begins to express from embryonic stage sixteen in the mouse spinal cord. Immunolabelling experiments showed that the channel is expressed in the axonal compartments and axonal growth cones in cultured motoneurons. Suppression of NaV1.9 in cultured motoneurons by lentivirus mediated short hairpin-RNA (shRNA) resulted in shorter axon length in comparison with uninfected and scrambled constructs. Further, embryonic motoneurons cultured from NaV1.9 knockout mice also showed a significant reduction in neural activity and axon growth. The findings of this work highlight the role of NaV1.9 as an important contender in regulating activity dependent axon growth in embryonic cultured motoneurons. NaV1.9 could therefore be considered as a prospective molecule that could play an important role in regulating axon growth in motoneuron disease models like spinal muscular atrophy (SMA).},
  subject      = {Axon},
  language  = {en}
}
@phdthesis{Shkumatov2011,
  author    = {Shkumatov, Alexander V.},
  title     = {Methods for hybrid modeling of solution scattering data and their application},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-65044},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2011},
  abstract  = {Small-angle X-ray scattering (SAXS) is a universal low-resolution method to study proteins in solution and to analyze structural changes in response to variations of conditions (pH, temperature, ionic strength etc). SAXS is hardly limited by the particle size, being applicable to the smallest proteins and to huge macromolecular machines like ribosomes and viruses. SAXS experiments are usually fast and require a moderate amount of purified material. Traditionally, SAXS is employed to study the size and shape of globular proteins, but recent developments have made it possible to quantitatively characterize the structure and structural transitions of metastable systems, e.g. partially or completely unfolded proteins. In the absence of complementary information, low-resolution macromolecular shapes can be reconstructed ab initio and overall characteristics of the systems can be extracted. If a high or low-resolution structure or a predicted model is available, it can be validated against the experimental SAXS data. If the measured sample is polydisperse, the oligomeric state and/or oligomeric composition in solution can be determined. One of the most important approaches for macromolecular complexes is a combined ab initio/rigid body modeling, when the structures (either complete or partial) of individual subunits are available and SAXS data is employed to build the entire complex. Moreover, this method can be effectively combined with information from other structural, computational and biochemical methods. All the above approaches are covered in a comprehensive program suite ATSAS for SAXS data analysis, which has been developed at the EMBL-Hamburg. In order to meet the growing demands of the structural biology community, methods for SAXS data analysis must be further developed. This thesis describes the development of two new modules, RANLOGS and EM2DAM, which became part of ATSAS suite. The former program can be employed for constructing libraries of linkers and loops de novo and became a part of a combined ab initio/rigid body modeling program CORAL. EM2DAM can be employed to convert electron microscopy maps to bead models, which can be used for modeling or structure validation. Moreover, the programs CRYSOL and CRYSON, for computing X-ray and neutron scattering patterns from atomic models, respectively, were refurbished to work faster and new options were added to them. Two programs, to be contributed to future releases of the ATSAS package, were also developed. The first program generates a large pool of possible models using rigid body modeling program SASREF, selects and refines models with lowest discrepancy to experimental SAXS data using a docking program HADDOCK. The second program refines binary protein-protein complexes using the SAXS data and the high-resolution models of unbound subunits. Some results and conclusions from this work are presented here. The developed approaches detailed in this thesis, together with existing ATSAS modules were additionally employed in a number of collaborative projects. New insights into the "structural memory" of natively unfolded tau protein were gained and supramodular structure of RhoA-specific guanidine nucleotide exchange factor was reconstructed. Moreover, high resolution structures of several hematopoietic cytokine-receptor complexes were validated and re-modeled using the SAXS data. Important information about the oligomeric state of yeast frataxin in solution was derived from the scattering patterns recorded under different conditions and its flexibility was quantitatively characterized using the Ensemble Optimization Method (EOM).},
  subject      = {R{\"o}ntgen-Kleinwinkelstreuung},
  language  = {en}
}
@article{GottschlichTisonMalecotetal.2011,
  author    = {Gottschlich, G{\"u}nter and Tison, Jean-Marc and Malecot, Val{\´e}ry and Rouillard, Thomas},
  title     = {Typification of names in genus Hieracium based on original herbariummaterial of Alexis Jordan and Alexandre Boreau},
  doi       = {10.3264/FG.2011.0301},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-55533},
  year      = {2011},
  abstract  = {181 names of Hieracium species going back to original herbarium material of Alexis Jordan or Alexandre Boreau are lectotypified, 27 are neotypified. The study is based on herbarium specimens of the Universit{\´e} Catholique de Lyon (LY) and Ville d'Angers (ANG), Martrin-Donos's herbarium at the Institut Botanique de Montpellier (MPUTarn) and Arvet-Touvet's herbarium at the Mus{\´e}e d'Histoire Naturelle de Grenoble (GRM-AT). The type specimens are illustrated by photographs of the entire herbarium sheets with some detail views of flower heads and leaves. Usual nomenclatural synonyms are given for each taxon.},
  subject      = {Botanik},
  language  = {en}
}
@misc{OPUS4-5162,
  title     = {einBlick - Ausgabe 36 - 11. Oktober 2011},
  volume    = {36/2011},
  organization    = {Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-65576},
  year      = {2011},
  abstract  = {Nachrichten aus der Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  subject      = {W{\"u}rzburg},
  language  = {de}
}
@misc{OPUS4-5169,
  title     = {einBlick - Ausgabe 37 - 18. Oktober 2011},
  volume    = {37/2011},
  organization    = {Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-65689},
  year      = {2011},
  abstract  = {Nachrichten aus der Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  subject      = {W{\"u}rzburg},
  language  = {de}
}
@misc{OPUS4-5197,
  title     = {einBlick - Ausgabe 38 - 25. Oktober 2011},
  volume    = {28/2011},
  organization    = {Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-65855},
  year      = {2011},
  abstract  = {Nachrichten aus der Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  subject      = {W{\"u}rzburg},
  language  = {de}
}
@misc{OPUS4-5146,
  title     = {einBlick - Ausgabe 34 - 27. September 2011},
  volume    = {34/2011},
  organization    = {Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-65417},
  year      = {2011},
  abstract  = {Nachrichten aus der Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  subject      = {W{\"u}rzburg},
  language  = {de}
}
@misc{OPUS4-5151,
  title     = {einBlick - Ausgabe 35 - 04. Oktober 2011},
  volume    = {35/2011},
  organization    = {Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-65470},
  year      = {2011},
  abstract  = {Nachrichten aus der Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  subject      = {W{\"u}rzburg},
  language  = {de}
}
@misc{OPUS4-4922,
  title     = {einBlick - Ausgabe 29 - 26. Juli 2011},
  volume    = {29/2011},
  organization    = {Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-64740},
  year      = {2011},
  abstract  = {Nachrichten aus der Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  subject      = {W{\"u}rzburg},
  language  = {de}
}
@misc{OPUS4-4928,
  title     = {einBlick - Ausgabe 30 - 02. August 2011},
  volume    = {30/2011},
  organization    = {Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-64808},
  year      = {2011},
  abstract  = {Nachrichten aus der Julius-Maximilians-Universit{\"a}t W{\"u}rzburg},
  subject      = {W{\"u}rzburg},
  language  = {de}
}