Jochen Blom

Summary

Affiliation: University of Bielefeld
Country: Germany

Publications

  1. ncbi Complete genome and comparative analysis of Streptococcus gallolyticus subsp. gallolyticus, an emerging pathogen of infective endocarditis
    Dennis Hinse
    Institut fur Laboratoriums und Transfusionsmedizin, Herz und Diabeteszentrum Nordrhein Westfalen, Universitatsklinik der Ruhr Universitat Bochum, 32545 Bad Oeynhausen, Germany
    BMC Genomics 12:400. 2011
  2. ncbi Complete genome sequence and lifestyle of black-pigmented Corynebacterium aurimucosum ATCC 700975 (formerly C. nigricans CN-1) isolated from a vaginal swab of a woman with spontaneous abortion
    Eva Trost
    Institut für Genomforschung und Systembiologie, Centrum für Biotechnologie, Universitat Bielefeld, Universitätsstrasse 27, D 33615 Bielefeld, Germany
    BMC Genomics 11:91. 2010
  3. ncbi EDGAR: a software framework for the comparative analysis of prokaryotic genomes
    Jochen Blom
    Computational Genomics, Center for Biotechnology CeBiTec, Bielefeld University, Bielefeld, Germany
    BMC Bioinformatics 10:154. 2009
  4. ncbi Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming
    Jochen Blom
    Computational Genomics, Bielefeld University, Bielefeld, Germany
    Bioinformatics 27:1351-8. 2011
  5. ncbi The complete genome sequence of the dominant Sinorhizobium meliloti field isolate SM11 extends the S. meliloti pan-genome
    Susanne Schneiker-Bekel
    Center for Biotechnology CeBiTec, Bielefeld University, Institute for Genome Research and Systems Biology, Universitatsstr 27, D 33615 Bielefeld, Germany
    J Biotechnol 155:20-33. 2011
  6. ncbi The ubiquitous plasmid pXap41 in the invasive phytopathogen Xanthomonas arboricola pv. pruni: complete sequence and comparative genomic analysis
    Joël F Pothier
    Agroscope Changins Wädenswil ACW, Plant Protection Division, Wädenswil, SwitzerlandCeBiTec, Bielefeld University, Bielefeld, Germany
    FEMS Microbiol Lett 323:52-60. 2011
  7. ncbi Complete genome sequencing of Agrobacterium sp. H13-3, the former Rhizobium lupini H13-3, reveals a tripartite genome consisting of a circular and a linear chromosome and an accessory plasmid but lacking a tumor-inducing Ti-plasmid
    Daniel Wibberg
    Institute for Genome Research and Systems Biology, CeBiTec, Bielefeld University, D 33501 Bielefeld, Germany
    J Biotechnol 155:50-62. 2011
  8. ncbi Ultrafast pyrosequencing of Corynebacterium kroppenstedtii DSM44385 revealed insights into the physiology of a lipophilic corynebacterium that lacks mycolic acids
    Andreas Tauch
    Institut für Genomforschung und Systembiologie, Centrum für Biotechnologie, Universitat Bielefeld, Universitatsstrasse 25, D 33615 Bielefeld, Germany
    J Biotechnol 136:22-30. 2008
  9. ncbi RAPYD--rapid annotation platform for yeast data
    Jessica Schneider
    Computational Genomics, Institute for Bioinformatics, Center for Biotechnology, Bielefeld University, Bielefeld, Germany
    J Biotechnol 155:118-26. 2011
  10. ncbi Sequencing and comparative analysis of IncP-1? antibiotic resistance plasmids reveal a highly conserved backbone and differences within accessory regions
    Rafael Szczepanowski
    Institute for Genome Research and Systems Biology, Center for Biotechnology, Bielefeld University, D 33594 Bielefeld, Germany
    J Biotechnol 155:95-103. 2011

Collaborators

Detail Information

Publications10

  1. ncbi Complete genome and comparative analysis of Streptococcus gallolyticus subsp. gallolyticus, an emerging pathogen of infective endocarditis
    Dennis Hinse
    Institut fur Laboratoriums und Transfusionsmedizin, Herz und Diabeteszentrum Nordrhein Westfalen, Universitatsklinik der Ruhr Universitat Bochum, 32545 Bad Oeynhausen, Germany
    BMC Genomics 12:400. 2011
    ..To gain insight into the pathomechanisms and the underlying genetic elements for lateral gene transfer, we sequenced the entire genome of this pathogen...
  2. ncbi Complete genome sequence and lifestyle of black-pigmented Corynebacterium aurimucosum ATCC 700975 (formerly C. nigricans CN-1) isolated from a vaginal swab of a woman with spontaneous abortion
    Eva Trost
    Institut für Genomforschung und Systembiologie, Centrum für Biotechnologie, Universitat Bielefeld, Universitätsstrasse 27, D 33615 Bielefeld, Germany
    BMC Genomics 11:91. 2010
    ..For a better understanding of the physiology and lifestyle of this potential urogenital pathogen, the complete genome sequence of C. aurimucosum ATCC 700975 was determined...
  3. ncbi EDGAR: a software framework for the comparative analysis of prokaryotic genomes
    Jochen Blom
    Computational Genomics, Center for Biotechnology CeBiTec, Bielefeld University, Bielefeld, Germany
    BMC Bioinformatics 10:154. 2009
    ..A main task in comparative genomics is the identification of orthologous genes in different genomes and the classification of genes as core genes or singletons...
  4. ncbi Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming
    Jochen Blom
    Computational Genomics, Bielefeld University, Bielefeld, Germany
    Bioinformatics 27:1351-8. 2011
    ..Furthermore, most approaches return only one best hit for every query sequence, thus losing the potentially valuable information of alternative alignment positions with identical scores...
  5. ncbi The complete genome sequence of the dominant Sinorhizobium meliloti field isolate SM11 extends the S. meliloti pan-genome
    Susanne Schneiker-Bekel
    Center for Biotechnology CeBiTec, Bielefeld University, Institute for Genome Research and Systems Biology, Universitatsstr 27, D 33615 Bielefeld, Germany
    J Biotechnol 155:20-33. 2011
    ..Most remarkably, pSmeSM11b contains a new gene cluster predicted to be involved in polysaccharide biosynthesis. Compilation of the S. meliloti SM11 genome sequence contributes to an extension of the S. meliloti pan-genome...
  6. ncbi The ubiquitous plasmid pXap41 in the invasive phytopathogen Xanthomonas arboricola pv. pruni: complete sequence and comparative genomic analysis
    Joël F Pothier
    Agroscope Changins Wädenswil ACW, Plant Protection Division, Wädenswil, SwitzerlandCeBiTec, Bielefeld University, Bielefeld, Germany
    FEMS Microbiol Lett 323:52-60. 2011
    ..This plasmid was not detected in any other X. arboricola pathovars (n=12), indicating the potential for the application of the pXap41 PCR method as a pathovar-level detection and identification tool...
  7. ncbi Complete genome sequencing of Agrobacterium sp. H13-3, the former Rhizobium lupini H13-3, reveals a tripartite genome consisting of a circular and a linear chromosome and an accessory plasmid but lacking a tumor-inducing Ti-plasmid
    Daniel Wibberg
    Institute for Genome Research and Systems Biology, CeBiTec, Bielefeld University, D 33501 Bielefeld, Germany
    J Biotechnol 155:50-62. 2011
    ..6 Mb) is only distantly related to the plasmid pAtC58 of A. tumefaciens C58 and shows a mosaic structure. A tumor-inducing Ti-plasmid is missing in the sequenced strain H13-3 indicating that it is a non-virulent isolate...
  8. ncbi Ultrafast pyrosequencing of Corynebacterium kroppenstedtii DSM44385 revealed insights into the physiology of a lipophilic corynebacterium that lacks mycolic acids
    Andreas Tauch
    Institut für Genomforschung und Systembiologie, Centrum für Biotechnologie, Universitat Bielefeld, Universitatsstrasse 25, D 33615 Bielefeld, Germany
    J Biotechnol 136:22-30. 2008
    ..A complete beta-oxidation pathway involved in the degradation of fatty acids is present in the genome. Evaluation of the genomic data indicated that lipophilism is the dominant feature involved in pathogenicity of C. kroppenstedtii...
  9. ncbi RAPYD--rapid annotation platform for yeast data
    Jessica Schneider
    Computational Genomics, Institute for Bioinformatics, Center for Biotechnology, Bielefeld University, Bielefeld, Germany
    J Biotechnol 155:118-26. 2011
    ..An in-depth application example of the yeast Meyerozyma guilliermondii illustrates the functionality of RAPYD. A user-friendly web interface is available at https://rapyd.cebitec.uni-bielefeld.de...
  10. ncbi Sequencing and comparative analysis of IncP-1? antibiotic resistance plasmids reveal a highly conserved backbone and differences within accessory regions
    Rafael Szczepanowski
    Institute for Genome Research and Systems Biology, Center for Biotechnology, Bielefeld University, D 33594 Bielefeld, Germany
    J Biotechnol 155:95-103. 2011
    ..The striking backbone conservation among the six completely sequenced IncP-1? plasmids is in contrast to the much higher diversity within the IncP-1? subgroup...