sequencing capacities academic company based microarray facilities academic

1. Genome Research on Bacteria relevant for Agriculture, Environment and Biotechnology Genome Research on bacterial biodiversity / develpment of new production processes Genome Research on Pathogenic Bacteria sequencing capacities academic company based microarray facilities academic company based bioinformatics academic proteomic facilities acedemic

2. Complete bacterial genomes deciphered: • Listeria ivanovii Universities of Würzburg and Giessen, GBF Braunschweig in cooperation with Institut Pasteur, • Listeria grayi Universität Würzburg, in cooperation with Institut Pasteur • Listeria welshimeri Universities of Würzburg and Giessen • Listeria seeligeri Universities of Würzburg and Giessen/Universität • Neisseria meningitidis University of Würzburg (together with MWG) in cooperation with University of Oxford • endosymbiotic TU München, University of Vienna, MPI-IB, BerlinChlamydia sp. (together with MWG) • Streptococcus mitis University of Kaiserslautern • Staph. carnosusUniversity of Tübingen • Bordetella petrii Universities of Würzburg, Berlin, GBF Braunschweig

3. Microarrays available for: • Neisseria meningitidis • Helicobacter pylori • Listeria monocytogenes • Mycobacterium tuberculosis • Staphylococcus aureus • Staphylococcus epidermidis • Streptococcus pneumoniae • Streptococcus pyogenes • Chlamydophila pneumoniae

4. Nosocomial infections • Pathogens addressed include Staphylococcus spp., Enterococcus spp., Pseudomonas aeruginosa, Enterobacteriaceae, fungi (Candida and Aspergillus) • Pneumonia and other respiratory tract infections • Pathogens addressed include Mycobacterium tuberculosis, S. pneumoniae, Chlamydophila pneumoniae, Staphylococcus aureus, group A streptococci, Bordetella spp., Haemophilus influenzae and Aspergillus spp. • Intestinal infections and food contaminations • caused by Salmonella enterica, Campylobacter jejuni,Yersinia enterocolitica, E. coli, L. monocytogenes, S. aureus, Bacillus cereus, Clostridium difficile and C. perfringens • Meningitiscaused by meningococci, pneumococci, group B streptococci, H. influenzae b, E. coli and Listeria monocytogenes • Microorganisms, causing secondary pathologies(cancer, chronic inflammation)Helicobacter spp.,Chlamydiae spp. • Polymicrobial diseasesin particular parodontitis and inflammatory intestinal diseases

5. Novel tools for diagnosis and typing Genome research on pathogenic bacteria Targets for anti- infective therapy Vaccine antigens

6. Novel tools for diagnosis and typing Infection biology of pathogens Host-pathogen interactions Development and improvement of methods Genome research on pathogenic bacteria Targets for anti- infective therapy Vaccine antigens

7. the biology of pathogens • the microbial ecology and the composition of mixed populations including metagenomic approaches • the metabolism of the pathogens and their host cells under the condition of the infection • regulatory networks of virulence genes • the evolution of microbial pathogenicity and antibiotic resistance • the formation of biofilms as well as microbial microcolonies and aggregates • the genome plasticity and the coverage of the pool of virulence genes • the antigenic diversity • in vitro and in vivo gene expression investigations using the high-throughput methods trancriptomics, proteomics, metabolomics, interactomics as well as siRNA-technology and new imaging methods.

8. interaction of pathogens and the hosts • studies of microbial pathogenicity under in vivo conditions using appropriate animal and tissue-(surrogate)-models and in vivo imaging methods • the elucidation of the mechanisms allowing the penetration of epithelial and endothelial barriers (blood-brain-barrier; intestinal epithelium; pulmonary epithelium; placenta). Central aspects should address the receptors and other cell surface structures of the host cell and the corresponding structures on the surface of the microbial partners, as well as the cell-to-cell communication initiated within the two partners • metabolic activities leading to the adaptation of the microorganisms to their favoured compartment within the host • mechanisms of the evasion of the host immune response by different pathogens • the correlation of bacterial pathotyps with the genetically fixed disposition of the host • commensalisms and nosocomial infections (pathotyps) • mechanisms of secondary pathologies, like cancer and chronical inflammation, triggered by microorganims in the infected host. • .

9. development and improvement of methods • the development of new bioassays for the identification of targets for therapy (including structural analysis of target proteins) and the development of new in vivo screening techniques for the identification of genes relevant to infection and bacterial metabolism • the development of new diagnostic strategies, in particular genome-based methods • prebiotics and probiotics for therapy and prevention • the determination of reproducible metagenomes of microbial communities like the intestinal flora and the flora of the mucosae and the skin • the improvement of bioluminescence- and other imaging methods to monitor infections in vivo • the development of new animal models with the help of transgenic techniques • the establishment of extensive strain- and tissue collections • the further development of bioinformatical techniques and methods

10. Research infrastructure e.g. Listeria genome project, Legionella & E. coli microarrays Würzburg – Institute Pasteur Research projects Chlamydia Listeria Würzburg – Institute Pasteur Berlin MPI – University Vienna Helicobacter Medical School – Karolinska Hannover Institute Teaching Würzburg – Umea Würzburg – Helsinki/ Turku in preparation Hannover – Karolinska Institute in preparation