@article{FrankeScheer1972,
  author    = {Franke, Werner W. and Scheer, Ulrich},
  title     = {Structural details of dictyosomal pores},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-32155},
  year      = {1972},
  abstract  = {Structural details of the dictyosomal pores in several plant cell types are described from tangential and cross sections of Golgi cisternae. Frequency distributions of the sizes of such Golgi pores are given and compared with the corresponding values of nuclear pores in the same cells. Golgi pore inner diameters are less homogeneously distributed and can be as small as 100 A or less. They are not simply cisterna I holes, but are often associated with centrally located electron dense granules or rods and with inner pore filaments. This organization, which is very common in dictyosomal pores in plant and animal cells, has some similarities with the structural architecture of nuclear envelope and annulate lamellar pore complexes. The particulate material associated with the dictyosomal pores shows spatial and structural relationship to cytoplasmic ribosomes. Possible modes of Golgi pore formation and some consequences of these observations for interpretation of nuclear pore structures are discussed.},
  language  = {en}
}
@article{Scheer1982,
  author    = {Scheer, Ulrich},
  title     = {Biologische Objekte im Transmissions-Elektronenmikroskop (Teil 4): Spreitungstechniken},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39652},
  year      = {1982},
  abstract  = {Visualizing nucleic acids (DNA, RNA), nucleoprotein complexes and chromatin requires the use of special electron microscopicspreading techniques. In part 4 (27 refs.), methods are outlined for spreading DNA and RNA molecules for electron microscopic observation, these methods using modifications of the basic protein film method developed by A. Kleinschmidt and R. K. Zahn (1959). Hybridization techniques that allow the observation of heteroduplexes formed between two DNA molecules or between DNA and RNA molecules are reviewed, with special emphasis being placed on the DNA-RNA hybrids as a tool for elucidating RNA splicing. Techniques for studying DNA-protein interactions without the use of a protein monolayer film are mentioned. Finally, the "Miller spreading technique" for visualizing the nucleosomal organization of eukaryotic chromatin as well as the transcription of genes is discribed and illustrated.},
  language  = {de}
}
@article{ScheerKnecht1971,
  author    = {Scheer, Ulrich and Knecht, Sigrid},
  title     = {Die V{\"o}gel der Azoren},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39668},
  year      = {1971},
  abstract  = {W{\"a}hrend einer viermonatigen Reise zu allen neun Azoreninseln wurde der gesamte Brutvogelbestand dieses Archipels untersucht. Die Befunde sind in einer detaillierten Artenliste zusammengefaßt, erg{\"a}nzt durch {\"o}kologische und brutbiologische Anmerkungen. Zahlreiche Beobachtungen lassen vermuten, daß vor allem Stieglitz und Kanarienvogel t{\"a}gliche und auch jahreszeitlich bedingte interinsulare Fl{\"u}ge unternehmen. Die Laut{\"a}ußerungen sechs verschiedener Vogel arten sind in Klangspektrogrammen dargestellt. Ein mathematischer Ansatz zeigt, daß sich die Anzahl der auf einer bestimmten Insel br{\"u}tenden Landvogelarten umgekehrt proportional zur Entfernung zum europ{\"a}ischen Festland und proportional zum Logarithmus naturalis der Inselfl{\"a}che verh{\"a}lt. Die abgeleitete Formel l{\"a}ßt sich prinzipiell auch auf andere Atlantikinseln anwenden, die weitgehend vom Festland isoliert sind.},
  language  = {de}
}
@article{FrankeScheerSpringetal.1976,
  author    = {Franke, Werner W. and Scheer, Ulrich and Spring, Herbert and Trendelenburg, Michael F. and Krohne, G.},
  title     = {Morphology of transcriptional units of rDNA: evidence for transcription in apparent spacer intercepts and cleavages in the elongating nascent RNA},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39681},
  year      = {1976},
  abstract  = {Several types of "irregular" structures in the arrangement of lateral fibrils were noted in electron microscopic preparations of transcriptionally active nucleolar chromatin from various plant and animal cells. Such forms include: I. Disproportionately long lateral fibrils which occur either as individual fibrils or in groups; 2. "Prelude complexes" and other arrangements of lateral fibrils in apparent spacer intercepts; 3. Thickening of the rDNA chromatin axis at the starting end of pre-rRNA matrix units; 4. Extremely long matrix units , the length of which exceeds that of the rDNA (double-strand) sequence complementary to the specific pre-rRN A (for abbreviations see text). In addition, the stability of high molecular weight RNAs contained in the nucleolar ribonucleoproteins during the preparation for electron microscopy was demonstrated by gel electrophoresis. The observations indicate that the morphological starting point of a pre-rRNA matrix unit is not necessarily identical with the initiation site for synthesis of pre-rRNA, but they rather suggest that the start of the transcriptional unit is located at least O.2-D.8 JLm before the matrix unit and that parts of the "apparent spacer" are transcribed. It is proposed that the pre-rRN A molecules do not represent the primary product of rDNA transcription but rather relatively stable intermediate products that have already been processed during transcription.},
  language  = {en}
}
@article{Linsenmair1979,
  author    = {Linsenmair, Karl Eduard},
  title     = {Untersuchungen zur Soziobiologie der W{\"u}stenassel Hemilepistus reaumuri und verwandter Isopodenarten (Isopoda, Oniscoidea): Paarbildung und Evolution der Monogamie},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-30854},
  year      = {1979},
  abstract  = {The desert isopod, Hemilepistus reaumuri, extremely common in the arid regions of North Africa and Asia Minor, depends upon the burrows it itself digs for survival during the hotter parts of the year. The dig-ging of new burrows is limited by chmatic conditions to a short period during the spring. Burrows must be constantly defendet - especially against roving eonspecifics. The decisive problem of a connnuous burrow defense is solved through cooperative behavior: the adult woodlice form monogamous pairs whose partners recognize one another individually. Here, questions on the binding of partners, especially the problem of the binding of male to female will be treated upon, along with questions on the evolution of monogamy, wherein the purely maternal families of Porcellio species will be taken as models for intermedi{\"a}re stages. At first, males olHemilepistus are not permitted to copulate at all; later, for a relatively long period, they are only permitted incomplete copulations, the females alone have control over the partunal ecdysis; they alone determine the moment of final copulations. Under the thermal conditions prevalent during the season of pair formation, a female irreversibly induces a parturial ecdysis only when it has spent a minimum of sev-eral days in her own burrow with a specific male. At higher average temperatures, the number of females which undergo parturial ecdyses without these preconditions increases sharply. Males cannot greatly lnrlu-ence the willingness of females to reproduce with the investment they make in the digging of burrows; the factors deciding this are the male's presence and its role as guard. The first condition necessary for the genesis of monogamy might have been the evolution of a stnc{\"u}y lo-cation-dependent copulatory behavior, which guaranteed the male exclusive mating pnveliges with the female whose location - the burrow - he acheived control of. A male must, under these conditions, serve guard duty in his own interest, and defend the burrow against competitors (Cf or 2) seeking an already-dug burrow. The decisive advantage for the female in the beginning of the development was probably that she could leave the burrow for extended feeding excursions, whereas alone it would have to either completely forego nourishment or, as is the case with the Porcellio species mentioned, must greatly restrict the spectrum of food that it can use (to that which is to be found only a short distance from the burrow and which can eas-ily be carried inside the burrow). This could be a disadvantage, especially during egg production. Necessary to the male's successful defense of the burrow is that he recognises his female. Studies of the Canary Island Porcellio species have shown over which pathways and under what selection pressures the recopinon of individuals, as is realized mHemilepistus, could have evolved. Females can bind males longer, the longer the period of their attraction is extended: Females olHemilepistus reaumuri have been proven to be al·ready att-ractive before they are ready to copulate and still remain attractive after they have copulated. The conse-quences of the last fact will be discussed. The question of why the males remain with the females after the parturial ecdysis will also be discussed: The great danger to the male's investment resulting from a tooi early abandoning, and the low probability of successfully finding another partner after a later abandomng should prevent a positive balance in the males' cost-effecriveness calculations.},
  language  = {de}
}
@article{FialaLinsenmairMaschwitz1994,
  author    = {Fiala, Brigitte and Linsenmair, Karl Eduard and Maschwitz, Ulrich},
  title     = {Diversit{\"a}t von Interaktionen zwischen Ameisen und Pflanzen im s{\"u}dostasiatischen Regenwald},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-32894},
  year      = {1994},
  abstract  = {Assoziationen von Ameisen mit Pflanzen (und oft noch mit pflanzensaugenden Insekten als drittem Partner) d{\"u}rften eine Ursache des Artenreichtums und der hohen Abundanzen tropischer Formicidae sein. Die von den Ameisen genutzten Pflanzen bieten entweder Nahrung an, {\"u}ber extraflorale Nektarien und/oder N{\"a}hrk{\"o}rperchen, oder aber - bei den eigentlichen Myrmekophyten - Nistraum und z.T. auch Nahrung. Diese Beziehungen zeichnen sich durch unterschiedliche Nutzungsweisen und Nutzungsintensit{\"a}ten und damit stark differierende Abh{\"a}ngigkeit der Partner voneinander aus. Ein besonders breites Spektrum von Ameisen-Pflanzen-Assoziationen finden wir in der pal{\"a}otropischen Baumgattung Macaranga (Euphorbiaceae), die sich daher als Modellsystem f{\"u}r vergleichende Untersuchungen hervorragend eignet. Die Grundfrage unserer Untersuchungen an diesem System lautet: Verl{\"a}uft aufgrund der ausgepr{\"a}gt mosaikartigen Verteilung der von den myrmekophilen Pflanzen angebotenen Nahrungs- und Nistraumressourcen die Neu- und Wiederbesiedlung von Habitaten durch die Ameisen in Form von Zufallsprozessen? Oder werden, im Gegenteil, durch diesen Umstand Spezialisierungen seitens der Ameisen gef{\"o}rdert und die Zusammensetzung der Lebensgemeinschaften dadurch st{\"a}rker deterministisch gepr{\"a}gt? Unsere bisherigen Untersuchungen zeigen, daß beide Prinzipien wirken. Bei der alleinigen Nutzung von Nahrungsressourcen fehlen spezialisierte Beziehungen weitgehend und stochastische Ereignisse d{\"u}rften sehr h{\"a}ufig die Pflanzen-Ameisen-Assoziation bestimmen. Bei den eigentlichen Myrmekophyten hingegen ist die Auswahl der assozierten Ameisen viel st{\"a}rker determiniert, ganz besonders dann, wenn der Wohnraum, den die Pflanze offeriert, nur durch aktives {\"O}ffnen seitens der Ameisen erschlossen werden kann.},
  language  = {de}
}
@article{ScheerSommervilleMueller1980,
  author    = {Scheer, Ulrich and Sommerville, John and M{\"u}ller, Ulrike},
  title     = {DNA is assembled into globular supranucleosomal chromatin structures by nuclear contents of amphibian oocytes},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39671},
  year      = {1980},
  abstract  = {The assembly of DNA into nucleosomal and supranucleosomal chromatin structures has been studied (i) by injection of circular DNA molecules (plasmids) into nuclei of Pleurodeles waltlii oocytes; and (ii) by in vitro incubation of plasmid molecules with the supernatant fraction from oocyte nuclei of Pleurodeles and Xenopus laevis, followed by purification of nucleoprotein structures formed with sucrose gradient centrifugation. [n both types of experiments , spread preparations of the newly assembled and transcriptionally inactive chromatin , examined by electron microscopy , show dense globular higher order (supranucleosomal) packing forms. Under partially relaxing (low salt) preparation conditions granular chromatin subunits of about 30 nm diameter can be seen either as widely spaced particles or in closely packed aggregates. The transcriptionally inactive endogenous chromatin of chromomeres of lampbrush chromosomes is arranged in similar higher order chromatin units. A correlation is found between the sizes of the DN A molecule probes used and the numbers of nucleosomes and higher order globules in the assembled chromatin structures. After prolonged dispersion in low salt buffers , these globular chromatin units unfold into chains of7-12 nucleosomes. The results support the concept that chromatin is arranged , under physiological ion concentrations as they are present in the nucleus , in supranucleosomal units of globular morphology.},
  language  = {en}
}
@article{HuegleHazanScheeretal.1985,
  author    = {H{\"u}gle, Barbara and Hazan, Rachel and Scheer, Ulrich and Franke, Werner W.},
  title     = {Localization of ribosomal protein S1 in the granular component of the interphase nucleolus and its distribution during mitosis},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39695},
  year      = {1985},
  abstract  = {Using antibodies to various nucleolar and ribosomal proteins, we define, by immunolocalization in situ, the distribution of nucleolar proteins in the different morphological nucleolar subcompartments. In the present study we describe the nucleolar localization of a specific ribosomal protein (51) by immunofluorescence and immunoelectron microscopy using a monoclonal antibody (R5 1-105). In immunoblotting experiments, this antibody reacts specifically with the largest and most acidic protein of the small ribosomal subunit (51) and shows wide interspecies cross-reactivity from amphibia to man. Beside its localization in cytoplasmic ribosomes, this protein is found to be specifically localized in the granular component of the nucleolus and in distinct granular aggregates scattered over the nucleoplasm. This indicates that ribosomal protein 51, in contrast to reports on other ribosomal proteins, is not bound to nascent pre-rRNA transcripts but attaches to preribosomes at later stages of rRNA processing and maturation. This protein is not detected in the residual nucleolar structures of cells inactive in rRNA synthesis such as amphibian and avian erythrocytes. During mitosis, the nucleolar material containing ribosomal protein 51 undergoes a remarkable transition and shows a distribution distinct from that of several other nucleolar proteins. In prophase, the nucleolus disintegrates and protein 51 appears in numerous small granules scattered throughout the prophase nucleus. During metaphase and anaphase, a considerable amount of this protein is found in association with the surfaces of all chromosomes and finely dispersed in the cell plasm. In telophase, protein 51-containing material reaccumulates in granular particles in the nucleoplasm of the newly formed nuclei and, finally, in the re-forming nucleoli. These observations indicate that the nucleolus-derived particles containing ribosomal protein 51 are different from cytoplasmic ribosomes and, in the living cell, are selectively recollected after mitosis into the newly formed nuclei and translocated into a specific nucleolar subcompartment, i.e ., the granular component. The nucleolar location of ribosomal protein 51 and its rearrangement du'ring mitosis is discussed in relation to the distribution of other nucleolar proteins.},
  subject      = {Cytologie},
  language  = {en}
}
@article{ScheerHinssenFrankeetal.1984,
  author    = {Scheer, Ulrich and Hinssen, Horst and Franke, Werner W. and Jockusch, Brigitte M.},
  title     = {Microinjection of actin-binding proteins and actin antibodies demonstrates involvement of nuclear actin in transcription of lampbrush chromosomes},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39706},
  year      = {1984},
  abstract  = {Nuclei of amphibian oocytes contain large amounts of actin, mostly in unpolymerized or short-polymer form. When antibodies to actin or actin-binding proteins (fragmin and the actin modulator from mammalian smooth muscle) are injected into nuclei of living oocytes of Pleurodeles waltlii, transcription of the lampbrush chromosomes, but not of the rRNA genes, is inhibited. When transcription is repressed by drugs or RNA is digested by microinjection of RNAase into oocyte nuclei, an extensive meshwork of actin filament bundles is seen in association with the isolated lampbrush chromosomes. These observations indicate a close relationship between the state of nuclear actin and transcriptional activity and suggest that nuclear actin may be involved in transcriptional events concerning protein-coding genes.},
  language  = {en}
}
@article{ScheerHansmannFalketal.1986,
  author    = {Scheer, Ulrich and Hansmann, Paul and Falk, Heinz and Sitte, Peter},
  title     = {Ultrastructural localization of DNA in two Cryptomonas species by use of a monoclonal DNA-antibody},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39746},
  year      = {1986},
  abstract  = {Immunogold cytochemistry - DNA localization - Cryptomonas nucleomorph The distribution and subcellular localization of DNA in the unicellular alga Cryptomonas has been investigated electron-microscopically by indirect immunocytochemistry, using a monoclonal DNA antibody and a gold-Iabeled secondary antibody. This technique proved to be very sensitive and entirely specific. DNA could be demonstrated in four different compartments (nucleus, nucleomorph, plastid, and mitochondrion). Within the plastid, DNA is concentrated in stroma regions that are localized preferentially around the center of the organelle. The mitochondrion contains several isolated DNA-containing regions (nucleoids). Within the nucleus, most of the DNA is localized in the 'condensed' chromatin. DNA was also detectable in small areas of the nucleolus, whereas the interchromatin space of the nucleus appeared almost devoid of DNA. Within the nucleomorph, DNA is distributed inhomogeneously in the matrix. DNA could furthermore be detected in restricted areas of the 'fibrillogranular body' of the nucleomorph, resembling the situation encountered in the nucleol us. The presence of DNA and its characteristic distribution in the nucleomorph provide additional, strong evidence in favour of the interpretation of that organelle as the residual nucleus of a eukaryotic endosymbiont in Cryptomonas.},
  subject      = {Cytologie},
  language  = {en}
}
@article{Scheer1978,
  author    = {Scheer, Ulrich},
  title     = {Changes of nucleosome frequency in nucleolar and non-nucleolar chromatin as a function of transcription: an electron microscopic study},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39750},
  year      = {1978},
  abstract  = {The morphology of nucleolar and non-nucleolar (Iampbrush chromosome loops) chromatin was studied in the electron microscope during states of reduced transcriptional activity in amphibian oocytes (Xenopus laevis, Triturus alpestris, T. cristatus). Reduced transcriptional activity was observed in maturing stages of oocyte development and after treatment with an inhibitor, actinomycin D. Strands of nucleolar chromatin appear smooth and thin, and contain only few, if any, nucleosomal particles in the transcribed units. This is true whether they are densely or only sparsely covered with lateral ribonucleoprotein fibrils. This smooth and non-nucleosomal character is also predominant in the interspersed, apparently nontranscribed rDNA spacer regions. During inactivation, however, nucleolar chromatin frequently and progressively assumes a beaded appearance in extended fibril-free-that is, apparently nontranscribed - regions. I n either fUll-grown 00- cytes or late after drug treatment, most of the nucleolar chromatin is no longer smooth and thin, but rather shows a beaded configuration indistinguishable from inactive non - nucleolar chromatin. In many chromatin strands, transitions of fibril-associated regions of smooth character into beaded regions wihout lateral fibrils are seen. Similarly, in the non-nucleolar chromatin of the retracting lampbrush chromosome loops, reduced transcriptional activity is correlated with a change from smooth to beaded morphology. Here, however, beaded regions are also commonly found interspersed between the more or less distant bases of the lateral fibrils, the putative transcriptional complexes. I n both sorts of chromatin, detergents (in particular Sarkosyl) that remove most of the chromatin proteins including histones from the DNA axis but leave the RNA polymerases of the transcriptional complexes attached were used to discriminate between polymerases and nucleosomal particles. The results suggest that nucleosomes are absent in heavily transcribed chromatin regions but are reformed after inactivation. In contrast to the findings with inactivated nucleolar genes, in lampbrush chromosome loops the beaded nucleosomal configuration appears to be assumed also in regions within transcriptional units that, perhaps temporarily, are not involved in transcription.},
  language  = {en}
}
@incollection{ScheerFranke1974,
  author    = {Scheer, Ulrich and Franke, Werner W.},
  title     = {Structures and functions of the nuclear envelope},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39777},
  publisher      = {Universit{\"a}t W{\"u}rzburg},
  year      = {1974},
  abstract  = {No abstract available},
  subject      = {Zellkern},
  language  = {en}
}
@article{ScheerSommerville1981,
  author    = {Scheer, Ulrich and Sommerville, J.},
  title     = {Structural organization of nascent transcripts and hnRNA molecules in amphibian oocytes},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39765},
  year      = {1981},
  abstract  = {Comparisons ofrelative lengths oflampbrush loops, nascent RNP transcripts and hnRNA molecules from oocytes of amphibia with different C-values show that there is an increasing trend in loop, and transcriptional unit, length with increase in genome size but no increasing trend with respect to RN A contour length.The formation of duplex regions and circles in RNP fibrils indicates that RNA processing may occur within the nascent fibrils. The hnRNA molecules from oocytes of the various amphibia readily form intermolecular duplex structures. These complementary sequences have a low kinetic complexity and are transcribed from highly repetitive sequences distributed throughout the genome. Their possible function is considered.},
  language  = {en}
}
@article{ScheerSchmidtZachmannHuegleetal.1984,
  author    = {Scheer, Ulrich and Schmidt-Zachmann, Marion S. and H{\"u}gle, Barbara and Franke, Werner W.},
  title     = {Identification and localization of a novel nucleolar protein of a high molecular weight by a monoclonal antibody},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39786},
  year      = {1984},
  abstract  = {A monoclonal murine antibody (No-I 14) is described which reacts specifically with a polypeptide of molecular weight (M,) 180000 present in low-speed nuclear pellets from oocytes and somatic cells of Xenopus laevis and X. borealis and in isolated amplified nucleoli. Two-dimensional gel electrophoresis has revealed the acidic nature of this polypeptide (isoelectric at pH of ca 4.2 in the presence of 9.5 M urea). A relatively large proportion of the protein is extracted at elevated ionic strength( i.e., at 0.4-0.5 M alkali salt) in a form sedimenting at approx. 7-8S , compatible with a monomeric state. It is also extracted by digestion with RNase but not with DNase. In immunofluorescence microscopy, antibody No-114 stains intensely nucleoli of oocytes and all somatic cells examined , including the residual nucleolar structure of Xenopus erythrocytes which are transcriptionally inactive. During mitosis the antigen does not remain associated with the nucleolar organizer regions (NOR) of chromosomes but is released and dispersed over the cytoplasm until telophase when it re-associates with the reforming interphase nucleoli. At higher resolution the immunofluorescent region is often resolved into a number of distinct subnucleolar components of varied size and shape. Immunoelectron microscopy using colloidal gold-coupled secondary antibodies reveals that the M, 180000 protein is confined to the dense fibrillar component of the nucleolus. This conclusion is also supported by its localization in the fibrillar part of segregated nucleoli of cells treated with actinomycin D. We conclude that nucleoli contain a prominent protein of M, 180000 which contributes to the general structure of the dense fibrillar component of the interphase nucleolus , independent of its specific transcriptional activity.},
  language  = {en}
}
@article{ThiryScheerGoessens1991,
  author    = {Thiry, Marc and Scheer, Ulrich and Goessens, Guy},
  title     = {Localization of nucleolar chromatin by immunocytochemistry and in situ hybridization at the electron microscopic level},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39289},
  year      = {1991},
  abstract  = {Nucleoli are the morphological expression of the activity of a defined set of chromosomal segments bearing rRNA genes. The topological distribution and composition of the intranucleolar chromatin as well as the definition of nucleolar structures in which enzymes of the rDNA transcription machinery reside have been investigated in mammalian cells by various immunogold labelling approaches at the ultrastructural level. The precise intranucleolar location of rRNA genes has been further specified by electron microscopic in situ hybridization with a non-autoradiographic procedure. Our results indicate that the fibrillar centers are the sole nucleolar structures where rDNA, core histones, RNA polymerase I and DNA to po isomerase I are located together. Taking into account the potential value and limitations of immunoelectron microscopic techniques, we propose that transcription of the rRNA genes takes place within the confines of the fibrillar centers, probably close to the boundary regions to the surrounding dense fibrillar component.},
  language  = {en}
}
@article{GesslerKoenigArdenetal.1994,
  author    = {Gessler, Manfred and K{\"o}nig, A. and Arden, K. and Grundy, P. and Orkin, S. H. and Sallan, S. and Peters, C. and Ruyle, S. and Mandell, J. and Li, F. and Cavenee, W. and Bruns, G. A.},
  title     = {Infrequent mutation of the WT1 gene in 77 Wilms' Tumors},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-34308},
  year      = {1994},
  abstract  = {Homozygous deletions in Wilms' tumor DNA have been a key step in the identification and isolation of the WTI gene. Several additional loci are also postulated to contribute to Wilms' tumor formation. To assess the frequency of WTI alterations we have analyzed the WTI locus in a panel of 77 Wilms' tumors. Eight tumors showed evidence for large deletions of several hundred or thousand kilobasepairs of DNA, some of which were also cytogenetically detected. Additional intragenic mutations were detected using more sensitive SSCP analyses to scan all 10 WTI exons. Most of these result in premature stop codons or missense mutations that inactivate the remaining WTI allele. The overall frequency of WTI alterations detected with these methods is less than 15\%. While some mutations may not be detectable with the methods employed, our results suggest that direct alterations of the WTI gene are present in only a small fraction of Wilms' tumors. Thus, mutations at other Wilms' tumor loci or disturbance of interactions between these genes likely play an important role in Wilms' tumor development.},
  language  = {en}
}
@phdthesis{Friedrich2009,
  author    = {Friedrich, Torben},
  title     = {New statistical Methods of Genome-Scale Data Analysis in Life Science - Applications to enterobacterial Diagnostics, Meta-Analysis of Arabidopsis thaliana Gene Expression and functional Sequence Annotation},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39858},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2009},
  abstract  = {Recent progresses and developments in molecular biology provide a wealth of new but insufficiently characterised data. This fund comprises amongst others biological data of genomic DNA, protein sequences, 3-dimensional protein structures as well as profiles of gene expression. In the present work, this information is used to develop new methods for the characterisation and classification of organisms and whole groups of organisms as well as to enhance the automated gain and transfer of information. The first two presented approaches (chapters 4 und 5) focus on the medically and scientifically important enterobacteria. Its impact in medicine and molecular biology is founded in versatile mechanisms of infection, their fundamental function as a commensal inhabitant of the intestinal tract and their use as model organisms as they are easy to cultivate. Despite many studies on single pathogroups with clinical distinguishable pathologies, the genotypic factors that contribute to their diversity are still partially unknown. The comprehensive genome comparison described in Chapter 4 was conducted with numerous enterobacterial strains, which cover nearly the whole range of clinically relevant diversity. The genome comparison constitutes the basis of a characterisation of the enterobacterial gene pool, of a reconstruction of evolutionary processes and of comprehensive analysis of specific protein families in enterobacterial subgroups. Correspondence analysis, which is applied for the first time in this context, yields qualitative statements to bacterial subgroups and the respective, exclusively present protein families. Specific protein families were identified for the three major subgroups of enterobacteria namely the genera Yersinia and Salmonella as well as to the group of Shigella and E. coli by applying statistical tests. In conclusion, the genome comparison-based methods provide new starting points to infer specific genotypic traits of bacterial groups from the transfer of functional annotation. Due to the high medical importance of enterobacterial isolates their classification according to pathogenicity has been in focus of many studies. The microarray technology offers a fast, reproducible and standardisable means of bacterial typing and has been proved in bacterial diagnostics, risk assessment and surveillance. The design of the diagnostic microarray of enterobacteria described in chapter 5 is based on the availability of numerous enterobacterial genome sequences. A novel probe selection strategy based on the highly efficient algorithm of string search, which considers both coding and non-coding regions of genomic DNA, enhances pathogroup detection. This principle reduces the risk of incorrect typing due to restrictions to virulence-associated capture probes. Additional capture probes extend the spectrum of applications of the microarray to simultaneous diagnostic or surveillance of antimicrobial resistance. Comprehensive test hybridisations largely confirm the reliability of the selected capture probes and its ability to robustly classify enterobacterial strains according to pathogenicity. Moreover, the tests constitute the basis of the training of a regression model for the classification of pathogroups and hybridised amounts of DNA. The regression model features a continuous learning capacity leading to an enhancement of the prediction accuracy in the process of its application. A fraction of the capture probes represents intergenic DNA and hence confirms the relevance of the underlying strategy. Interestingly, a large part of the capture probes represents poorly annotated genes suggesting the existence of yet unconsidered factors with importance to the formation of respective virulence phenotypes. Another major field of microarray applications is gene expression analysis. The size of gene expression databases rapidly increased in recent years. Although they provide a wealth of expression data, it remains challenging to integrate results from different studies. In chapter 6 the methodology of an unsupervised meta-analysis of genome-wide A. thaliana gene expression data sets is presented, which yields novel insights in function and regulation of genes. The application of kernel-based principal component analysis in combination with hierarchical clustering identified three major groups of contrasts each sharing overlapping expression profiles. Genes associated with two groups are known to play important roles in Indol-3 acetic acid (IAA) mediated plant growth and development as well as in pathogen defence. Yet uncharacterised serine-threonine kinases could be assigned to novel functions in pathogen defence by meta-analysis. In general, hidden interrelation between genes regulated under different conditions could be unravelled by the described approach. HMMs are applied to the functional characterisation of proteins or the detection of genes in genome sequences. Although HMMs are technically mature and widely applied in computational biology, I demonstrate the methodical optimisation with respect to the modelling accuracy on biological data with various distributions of sequence lengths. The subunits of these models, the states, are associated with a certain holding time being the link to length distributions of represented sequences. An adaptation of simple HMM topologies to bell-shaped length distributions described in chapter 7 was achieved by serial chain-linking of single states, while residing in the class of conventional HMMs. The impact of an optimisation of HMM topologies was underlined by performance evaluations with differently adjusted HMM topologies. In summary, a general methodology was introduced to improve the modelling behaviour of HMMs by topological optimisation with maximum likelihood and a fast and easily implementable moment estimator. Chapter 8 describes the application of HMMs to the prediction of interaction sites in protein domains. As previously demonstrated, these sites are not trivial to predict because of varying degree in conservation of their location and type within the domain family. The prediction of interaction sites in protein domains is achieved by a newly defined HMM topology, which incorporates both sequence and structure information. Posterior decoding is applied to the prediction of interaction sites providing additional information of the probability of an interaction for all sequence positions. The implementation of interaction profile HMMs (ipHMMs) is based on the well established profile HMMs and inherits its known efficiency and sensitivity. The large-scale prediction of interaction sites by ipHMMs explained protein dysfunctions caused by mutations that are associated to inheritable diseases like different types of cancer or muscular dystrophy. As already demonstrated by profile HMMs, the ipHMMs are suitable for large-scale applications. Overall, the HMM-based method enhances the prediction quality of interaction sites and improves the understanding of the molecular background of inheritable diseases. With respect to current and future requirements I provide large-scale solutions for the characterisation of biological data in this work. All described methods feature a highly portable character, which allows for the transfer to related topics or organisms, respectively. Special emphasis was put on the knowledge transfer facilitated by a steadily increasing wealth of biological information. The applied and developed statistical methods largely provide learning capacities and hence benefit from the gain of knowledge resulting in increased prediction accuracies and reliability.},
  subject      = {Genomik},
  language  = {en}
}
@phdthesis{Basile2009,
  author    = {Basile, Rebecca},
  title     = {Thermoregulation and Resource Management in the Honeybee (Apis mellifera)},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39793},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2009},
  abstract  = {Ein grundlegender Faktor, der f{\"u}r das {\"U}berleben einer Kolonie sozialer Insekten ausschlaggebend ist, liegt in der F{\"a}higkeit Nahrung durch sogenannte „Trophallaxis" auszutauschen. Diese F{\"u}tterungskontakte sorgen f{\"u}r die gleichm{\"a}ßige Verteilung der Nahrung innerhalb der Kolonie und werden als einer der Grundpfeiler der Sozialit{\"a}t der Staatenbildenden Insekten erachtet. Im Fall der Honigbienen finden diese Kontakte in vollkommener Dunkelheit statt. Damit es in dieser Situation {\"u}berhaupt zum Nahrungsaustausch kommen kann, sind die Antennen von großer Wichtigkeit. Ein erster Schritt in den Verhaltensweisen, die der Rezipient eines trophallaktischen Kontaktes zeigt, ist der Kontakt einer Antennenspitze mit den Mundwerkzeugen des Donoren, da sich dort die regurgitierte Nahrung befindet. Diese Ber{\"u}hrung hat aufgrund der gustatorischen Sensibilit{\"a}t der Antenne den Zweck, das angebotene Futter zu „erschmecken". Die rechte Antenne wird vom Rezipienten eines trophallaktischen Kontakts signifikant h{\"a}ufiger eingesetzt als die linke Antenne. Die Pr{\"a}ferenz f{\"u}r die rechte Antenne bleibt dabei auch erhalten, wenn ein Teil der Antennengeisel abgetrennt wurde, also die sensorischen F{\"a}higkeiten der rechten Antenne stark beeintr{\"a}chtigt wurden. Der Grund f{\"u}r die Pr{\"a}ferenz der rechten Antenne k{\"o}nnte ihrer erh{\"o}hten Sensibilit{\"a}t gegen{\"u}ber Zuckerwasser zugrunde liegen, da die rechte Antenne im Laborversuch signifikant st{\"a}rker auf Stimulationen mit Zuckerwasser verschiedener Konzentrationen reagierte als die linke. Trophallaktische Kontakte sichern Individuen innerhalb einer Kolonie den Zugang zur lebenswichtigen Nahrung. Im Beispiel der Honigbienen ist st{\"a}ndige Zugriff auf Nahrung besonders wichtig, da es sich um ein heterothermes Tier handelt, das die F{\"a}higkeit besitzt, aktiv seine K{\"o}rpertemperatur zu regulieren. Obgleich jedes Individuum in der Lage ist, seine K{\"o}rpertemperatur den eigenen Bed{\"u}rfnissen anzupassen, ist diese F{\"a}higkeit streng durch den in der Nahrung aufgenommenen Zucker reguliert. Im Gegensatz zu den S{\"a}ugetieren oder V{\"o}geln, die f{\"u}r eine Erh{\"o}hung des Blutzuckerspiegels auch auf Fett- oder Eiweißressourcen zur{\"u}ckgreifen k{\"o}nnen, ist die Honigbiene auf die Glucose aus der aufgenommenen Nahrung angewiesen. Die Ergebnisse dieser Untersuchung zeigen, dass der Zuckergehalt der aufgenommenen Nahrung positiv mit der Thoraxtemperatur der Bienen korreliert. Dieser Zusammenhang tritt auf, selbst wenn keine W{\"a}rmeerzeugung f{\"u}r die Brutpflege oder f{\"u}r das Erw{\"a}rmen der Wintertraube notwendig ist und die Tiere außerhalb des Stockes ohne eigentliche Notwendigkeit f{\"u}r die W{\"a}rmeerzeugung in einem K{\"a}fig gehalten werden. Die Ergebnisse der Untersuchung zeigen, dass die Rezipienten beim Nahrungsaustausch eine signifikant h{\"o}here Thoraxtemperatur haben als die Donoren. Außerdem zeigen die Rezipienten nach der F{\"u}tterung signifikant h{\"a}ufiger Brutw{\"a}rmeverhalten als die Donoren. Letztere haben eine signifikant niedrigere Thoraxtemperatur als die Rezipienten und zeigen eine Verhaltenstendenz, h{\"a}ufig zwischen Brutbereich und Honiglager hin- und her zu pendeln. Dabei nehmen sie im Honiglager Honig in ihren Kropf auf und f{\"u}ttern mit dieser Nahrung danach Bienen im Brutbereich. Außerdem zeigen die Ergebnisse, dass es einen w{\"a}rmegesteuerten Ausl{\"o}semechanismus gibt, der den Donoren und Rezipienten des trophallaktischen Kontakts dazu verhilft, trotz der Dunkelheit des Stocks praktisch verz{\"o}gerungsfreie Nahrungs{\"u}bertragung am Ort des h{\"o}chsten Energieverbrauchs zu gew{\"a}hrleisten. Das Hervorw{\"u}rgen von Nahrung angesichts einer W{\"a}rmequelle k{\"o}nnte seinen Ursprung in einer Beschwichtigungsgeste haben. Aggressive Tiere zeigen neben sichtbaren aggressiven Verhalten auch durch ihre erh{\"o}hte K{\"o}rpertemperatur, dass sie bereit sind sich auf einen Kampf einzulassen. Die Temperaturerh{\"o}hung eines aggressiven Tieres beruht dabei auf der erh{\"o}hten Muskelaktivit{\"a}t, die vor allem bei Insekten dazu n{\"o}tig ist, einen entsprechende Reaktion im Falle eines Kampfes oder der Flucht zeigen zu k{\"o}nnen. Wird ein Individuum mit Aggression konfrontiert, so bleibt ihm die Wahl sich auf einen Kampf einzulassen, zu fl{\"u}chten oder durch eine Beschwichtigungsgeste eine Deeskalation der Situation einzuleiten. Besonders h{\"a}ufig wird f{\"u}r diesen Zweck Nahrung regurgitiert und dem dominanteren Tier angeboten, um einem Konflikt aus dem Weg zu gehen. Die F{\"a}higkeit, Arbeiterinnen mit kleinen Portionen konzentrierter Nahrung zu versorgen tr{\"a}gt zu einer {\"o}konomischen Verteilung der Ressourcen bei, die mit den physiologischen Bed{\"u}rfnissen der Honigbienen konform geht und die {\"o}kologischen Erfordernisse des Stockes erf{\"u}llt. Das daraus resultierende Managementsystem, welches sparsam mit den Ressourcen haushaltet und auf die individuellen Bed{\"u}rfnisse jeder einzelnen Biene einzugehen vermag, k{\"o}nnte ein Grund f{\"u}r die F{\"a}higkeit der Honigbienen zur Entwicklung mehrj{\"a}hriger Kolonien sein, die, anders als Hummeln oder Wespen, auch den Winter in gem{\"a}ßigten Zonen als Gemeinschaft zu {\"u}berstehen verm{\"o}gen.},
  subject      = {Biene},
  language  = {en}
}
@phdthesis{Mannefeld2009,
  author    = {Mannefeld, Mirijam},
  title     = {Role of the human LIN complex in DNA damage induced regulation of gene expression},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-39261},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2009},
  abstract  = {In jeder menschlichen Zelle entstehen t{\"a}glich ca. 10.000 - 150.000 endogene DNA Sch{\"a}den. Eine Anh{\"a}ufung dieser L{\"a}sionen kann zu genetischer Instabilit{\"a}t f{\"u}hren und dadurch zur Krebsentwicklung beitragen. Daher ist eine schnelle DNA Schadensantwort n{\"o}tig, um schwerwiegende Folgen f{\"u}r die Zelle zu vermeiden. Da bekannt ist, dass der Multiproteinkomplex LINC (auch humaner dREAM-Komplex genannt) an der transkriptionellen Regulation mitotischer und G2-spezifischer Gene beteiligt ist, sollte in dieser Arbeit seine Beteiligung an der DNA Schadensantwort genauer untersucht werden. In der vorliegenden Arbeit wird gezeigt, dass in normal wachsenden Zellen B-MYB an den LINC-Kernkomplex bindet, welcher sich aus 5 Proteinen zusammensetzt: LIN-9, LIN-54, LIN-52, LIN-37 und RbAp48. Treten DNA Sch{\"a}den auf, dissoziiert B-MYB vom LINC Kernkomplex wobei gleichzeitig die Bindung von p130 und E2F4 an LINC induziert wird. Zus{\"a}tzlich konnte gezeigt werden, dass der Signalweg, der die LINC Umlagerung vermittelt, sowohl p53- als auch p21-abh{\"a}ngig ist. p53 negative Zellen k{\"o}nnen nach Sch{\"a}digung der DNA weder einen G1 Block induzieren noch einen G2 Block langfristig aufrechterhalten. Eine Erkl{\"a}rung f{\"u}r diese Schw{\"a}chung des G2 Arrests liefern Daten dieser Arbeit: Da in DNA gesch{\"a}digten p53 -/- Zellen keine LINC Umlagerung beobachtet werden kann und zus{\"a}tzlich B-MYB verst{\"a}rkt an LINC und die Zielpromotoren bindet, kommt es zu einer erh{\"o}hten G2/M Genexpression. Dies resultiert h{\"a}ufig in einem verfr{\"u}hten Wiedereintritt in den Zellzyklus („checkpoint adaptation"). Eine Daten-Analyse prim{\"a}rer Brustkrebstumore zeigte außerdem, dass erh{\"o}hte B-MYB Genexpressionslevel mit einer erh{\"o}hte R{\"u}ckfallgefahr und einer schlechten Prognose korrelieren, was m{\"o}glicherweise auf die Funktion von B-MYB w{\"a}hrend der „checkpoint adaptation" zur{\"u}ckzuf{\"u}hren ist. Schlussendlich lassen die Ergebnisse dieser Arbeit vermuten, dass die Hemmung der B-MYB Funktion in solchen Tumoren, die p53 Mutationen tragen, die Wahrscheinlichkeit eines Behandlungserfolges vergr{\"o}ßern und die Wahrscheinlichkeit eines R{\"u}ckfalls senken k{\"o}nnte.},
  subject      = {Zellzyklus},
  language  = {en}
}
@phdthesis{Klaeckta2009,
  author    = {Kl{\"a}ckta, Christian},
  title     = {Biochemische und -physikalische Charakterisierung von rekombinanten Porinen aus den beiden pathogenen Bakterien Nocardia farcinica und Vibrio cholerae sowie von nativen Porinen aus drei Streptomyces Arten},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-38910},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2009},
  abstract  = {Die vorliegende Dissertation beschreibt detaillierte biochemische und biophysikalische Untersuchungen von rekombinanten Porinen aus den beiden pathogenen Bakterien Nocardia farcinica und Vibrio cholerae sowie von nativen Porinen aus drei Streptomyces Arten. F{\"u}r die beiden pathogenen Vertreter sind bereits impermebable Zellwandstrukturen beschrieben worden (Daffe et al., 1993; Rodriguez-Torres et al., 1993). F{\"u}r Streptomyces Arten ist keine vergeichbare, definierte {\"a}ußere Zellwandbarriere bekannt. Im Fall von S. griseus konnten dennoch undefinierte, kovalente Lipidverkn{\"u}pfungen mit der Peptidoglykanschicht nachgewiesen werden (Kim et al., 2001). Daher besteht die Notwendigkeit des Transports von N{\"a}hrstoffen und anderer Molek{\"u}le auch bei Streptomyces Arten durch porenformende Proteine, so genannte Porine. Unter Porinen versteht man wassergef{\"u}llte Kan{\"a}le, die in zwei Klassen unterteilt werden k{\"o}nnen: allgemeine Diffusionsporen und substratspezifische Porine. Allgemeine Diffusionsporen filtern entsprechend der molekularen Masse der gel{\"o}sten Substrate und weisen ein lineares Verh{\"a}ltnis zwischen Translokationsrate und Substratkonzentrationsgradient auf. Dagegen kann der Transport bestimmter Substanzen durch spezifische Porine mit einer Substrat-Bindestelle im Kanal durch die Michaelis-Menten-{\"a}hnliche Kinetik beschrieben werden. Diese Kan{\"a}le erm{\"o}glichen den schnellen Influx bestimmter Klassen von Substraten.},
  subject      = {Porine},
  language  = {de}
}