F O Glöckner

Summary

Affiliation: Max Planck Institute for Marine Microbiology
Country: Germany

Publications

  1. pmc The SILVA and "All-species Living Tree Project (LTP)" taxonomic frameworks
    Pelin Yilmaz
    Microbial Genomics and Bioinformatics Research Group, Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany, Department of Botany, University of British Columbia, Vancouver V6T 1Z4, Canada, Department of Zoology, University of British Columbia, Vancouver V6T 1Z4, Canada, Ribocon GmbH, D 28359 Bremen, Germany, School of Engineering and Science, Jacobs University Bremen gGmbH, D 28759 Bremen, Germany and Lehrstuhl für Mikrobiologie, Technische Universitat Munchen, D 853530 Freising, Germany
    Nucleic Acids Res 42:D643-8. 2014
  2. pmc Megx.net--database resources for marine ecological genomics
    Thierry Lombardot
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany
    Nucleic Acids Res 34:D390-3. 2006
  3. pmc CDinFusion--submission-ready, on-line integration of sequence and contextual data
    Wolfgang Hankeln
    Max Planck Institute for Marine Microbiology, Bremen, Germany
    PLoS ONE 6:e24797. 2011
  4. pmc Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies
    Anna Klindworth
    Max Planck Institute for Marine Microbiology, Microbial Genomics and Bioinformatics Research Group, Celsiusstr 1, 28359 Bremen, Germany
    Nucleic Acids Res 41:e1. 2013
  5. pmc The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
    Christian Quast
    Microbial Genomics and Bioinformatics Research Group, Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany
    Nucleic Acids Res 41:D590-6. 2013
  6. pmc SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
    Elmar Pruesse
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology
    Nucleic Acids Res 35:7188-96. 2007
  7. pmc Quantifying the effect of environment stability on the transcription factor repertoire of marine microbes
    Ivaylo Kostadinov
    Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359 Bremen, Germany
    Microb Inform Exp 1:9. 2011
  8. pmc Transcriptional response of the model planctomycete Rhodopirellula baltica SH1(T) to changing environmental conditions
    Patricia Wecker
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology, Microbial Genomics Group, Celsiusstr 1, Bremen 28359, Germany
    BMC Genomics 10:410. 2009
  9. pmc MetaLook: a 3D visualisation software for marine ecological genomics
    Thierry Lombardot
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany
    BMC Bioinformatics 8:406. 2007
  10. pmc MetaMine--a tool to detect and analyse gene patterns in their environmental context
    Uta Bohnebeck
    ttz Bremerhaven, Bremerhaven, Germany
    BMC Bioinformatics 9:459. 2008

Collaborators

Detail Information

Publications22

  1. pmc The SILVA and "All-species Living Tree Project (LTP)" taxonomic frameworks
    Pelin Yilmaz
    Microbial Genomics and Bioinformatics Research Group, Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany, Department of Botany, University of British Columbia, Vancouver V6T 1Z4, Canada, Department of Zoology, University of British Columbia, Vancouver V6T 1Z4, Canada, Ribocon GmbH, D 28359 Bremen, Germany, School of Engineering and Science, Jacobs University Bremen gGmbH, D 28759 Bremen, Germany and Lehrstuhl für Mikrobiologie, Technische Universitat Munchen, D 853530 Freising, Germany
    Nucleic Acids Res 42:D643-8. 2014
    ..Our comparisons not only revealed a reasonable overlap between the taxa names, but also points to significant differences in both names and numbers of taxa between the three resources. ..
  2. pmc Megx.net--database resources for marine ecological genomics
    Thierry Lombardot
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany
    Nucleic Acids Res 34:D390-3. 2006
    ..These integrative databases and webserver will help researchers to generate a better understanding of the functioning of marine ecosystems. All resources are freely accessible at http://www.megx.net...
  3. pmc CDinFusion--submission-ready, on-line integration of sequence and contextual data
    Wolfgang Hankeln
    Max Planck Institute for Marine Microbiology, Bremen, Germany
    PLoS ONE 6:e24797. 2011
    ..megx.net/cdinfusion. The tool may also be installed locally using the open source code available at http://code.google.com/p/cdinfusion...
  4. pmc Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies
    Anna Klindworth
    Max Planck Institute for Marine Microbiology, Microbial Genomics and Bioinformatics Research Group, Celsiusstr 1, 28359 Bremen, Germany
    Nucleic Acids Res 41:e1. 2013
    ..The results of this study may be used as a guideline for selecting primer pairs with the best overall coverage and phylum spectrum for specific applications, therefore reducing the bias in PCR-based microbial diversity studies...
  5. pmc The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
    Christian Quast
    Microbial Genomics and Bioinformatics Research Group, Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany
    Nucleic Acids Res 41:D590-6. 2013
    ..Furthermore, the extensively curated SILVA taxonomy and the new non-redundant SILVA datasets provide an ideal reference for high-throughput classification of data from next-generation sequencing approaches...
  6. pmc SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
    Elmar Pruesse
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology
    Nucleic Acids Res 35:7188-96. 2007
    ..The latest publicly available database release 91 (August 2007) hosts 547 521 sequences split into 461 823 small subunit and 85 689 large subunit rRNAs...
  7. pmc Quantifying the effect of environment stability on the transcription factor repertoire of marine microbes
    Ivaylo Kostadinov
    Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359 Bremen, Germany
    Microb Inform Exp 1:9. 2011
    ..abstract:..
  8. pmc Transcriptional response of the model planctomycete Rhodopirellula baltica SH1(T) to changing environmental conditions
    Patricia Wecker
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology, Microbial Genomics Group, Celsiusstr 1, Bremen 28359, Germany
    BMC Genomics 10:410. 2009
    ..Its adaptation to environmental stressors was studied by transcriptional profiling using a whole genome microarray...
  9. pmc MetaLook: a 3D visualisation software for marine ecological genomics
    Thierry Lombardot
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany
    BMC Bioinformatics 8:406. 2007
    ..g. water depth, physical and chemical parameters. The creation of specialised software tools and databases is requisite to allow this new kind of integrated analysis...
  10. pmc MetaMine--a tool to detect and analyse gene patterns in their environmental context
    Uta Bohnebeck
    ttz Bremerhaven, Bremerhaven, Germany
    BMC Bioinformatics 9:459. 2008
    ..MetaMine was developed to approach the large pool of unclassified proteins by searching for recurrent gene patterns across habitats based on key genes...
  11. pmc TETRA: a web-service and a stand-alone program for the analysis and comparison of tetranucleotide usage patterns in DNA sequences
    Hanno Teeling
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany
    BMC Bioinformatics 5:163. 2004
    ..With this application in mind, the TETRA web-service and the TETRA stand-alone program have been developed, both of which automate the task of comparative tetranucleotide frequency analysis. Availability: http://www.megx.net/tetra...
  12. pmc JCoast - a biologist-centric software tool for data mining and comparison of prokaryotic (meta)genomes
    Michael Richter
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, D 28359 Bremen, Germany
    BMC Bioinformatics 9:177. 2008
    ....
  13. pmc Graphical representation of ribosomal RNA probe accessibility data using ARB software package
    Yadhu Kumar
    Lehrstuhl fur Mikrobiologie, Technische Universitat Munchen, D 85350 Freising, Germany
    BMC Bioinformatics 6:61. 2005
    ..Careful in silico design and evaluation of potential oligonucleotide probe targets is therefore crucial for performing successful hybridization experiments...
  14. pmc MetaBar - a tool for consistent contextual data acquisition and standards compliant submission
    Wolfgang Hankeln
    Max Planck Institute for Marine Microbiology, Bremen, Germany
    BMC Bioinformatics 11:358. 2010
    ..The consistent capture and structured submission of these data is crucial for integrated data analysis and ecosystems modeling. The application MetaBar has been developed, to support consistent contextual data acquisition...
  15. pmc Marine microbial genomics in Europe: current status and perspectives
    Frank Oliver Glöckner
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany
    Microb Biotechnol 3:523-30. 2010
    ..Marine ecosystems research is complex and challenging, but it also harbours the opportunity to cross the borders between disciplines and countries to finally create a rewarding marine research era that is more than the sum of its parts...
  16. pmc Comparative 16S rRNA analysis of lake bacterioplankton reveals globally distributed phylogenetic clusters including an abundant group of actinobacteria
    F O Glöckner
    Max Planck Institut für Marine Mikrobiologie, Bremen, Germany
    Appl Environ Microbiol 66:5053-65. 2000
    ....
  17. pmc Complete genome sequence of the marine planctomycete Pirellula sp. strain 1
    F O Glöckner
    Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, D 28359 Bremen, Germany
    Proc Natl Acad Sci U S A 100:8298-303. 2003
    ..Phylogenetic analysis of all relevant markers clearly affiliates the Planctomycetales to the domain Bacteria as a distinct phylum, but a deepest branching is not supported by our analyses...
  18. pmc Predator-specific enrichment of actinobacteria from a cosmopolitan freshwater clade in mixed continuous culture
    J Pernthaler
    Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, D 28359 Bremen, Germany
    Appl Environ Microbiol 67:2145-55. 2001
    ..The community structure of pelagic microbial assemblages can therefore be influenced by the taxonomic composition of the predator community...
  19. ncbi request reprint The genome of Desulfotalea psychrophila, a sulfate-reducing bacterium from permanently cold Arctic sediments
    R Rabus
    Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359 Bremen, Germany
    Environ Microbiol 6:887-902. 2004
    ..psychrophila's genome features with those of the only other published genome from a sulfate reducer, the hyperthermophilic archaeon Archaeoglobus fulgidus, revealed many striking differences, but only a few shared features...
  20. ncbi request reprint Identification of planctomycetes with order-, genus-, and strain-specific 16S rRNA-targeted probes
    D Gade
    Max Planck Institut für Marine Mikrobiologie, Celsiusstr 1, D 28359 Bremen, Germany
    Microb Ecol 47:243-51. 2004
    ..An unexpected result was the close phylogenetic relationship of the isolate from the sponge and the brackish water habitat Kiel Fjord as revealed by DNA/DNA hybridization...
  21. pmc Unlabeled helper oligonucleotides increase the in situ accessibility to 16S rRNA of fluorescently labeled oligonucleotide probes
    B M Fuchs
    Max Planck Institut für Marine Mikrobiologie, D 28359 Bremen, Germany
    Appl Environ Microbiol 66:3603-7. 2000
    ..We conclude that helpers can open inaccessible rRNA regions for FISH with oligonucleotide probes and will thereby further improve the applicability of this technique for in situ identification of microorganisms...