Michael Kube

Summary

Affiliation: Max Planck Institute for Molecular Genetics
Country: Germany

Publications

  1. pmc Classification and identification of bacteria by mass spectrometry and computational analysis
    Sascha Sauer
    Max Planck Institute for Molecular Genetics, Berlin, Germany
    PLoS ONE 3:e2843. 2008
  2. pmc A second generation genetic map of the bumblebee Bombus terrestris (Linnaeus, 1758) reveals slow genome and chromosome evolution in the Apidae
    Eckart Stolle
    Institut fur Biologie, Martin Luther Universitat Halle Wittenberg, Halle Saale, Germany
    BMC Genomics 12:48. 2011
  3. pmc Analysis of a normalised expressed sequence tag (EST) library from a key pollinator, the bumblebee Bombus terrestris
    Ben M Sadd
    Institute of Integrative Biology IBZ, ETH Zurich, Universitatsstrasse 16, 8092 Zurich, Switzerland
    BMC Genomics 11:110. 2010
  4. pmc Surviving extreme polar winters by desiccation: clues from Arctic springtail (Onychiurus arcticus) EST libraries
    Melody S Clark
    British Antarctic Survey, Natural Environment Research Council, High Cross, Madingley Road, Cambridge, CB3 0ET, UK
    BMC Genomics 8:475. 2007
  5. pmc Discovering genes associated with dormancy in the monogonont rotifer Brachionus plicatilis
    Nadav Y Denekamp
    Israel Oceanographic and Limnological Research, Haifa 31080, Israel
    BMC Genomics 10:108. 2009
  6. pmc Analysis of the goldfish Carassius auratus olfactory epithelium transcriptome reveals the presence of numerous non-olfactory GPCR and putative receptors for progestin pheromones
    Nikolay N Kolmakov
    Centro de Ciencias do Mar, Universidade do Algarve, Campus de Gambelas, 8005 139 Faro, Portugal
    BMC Genomics 9:429. 2008
  7. pmc The linear chromosome of the plant-pathogenic mycoplasma 'Candidatus Phytoplasma mali'
    Michael Kube
    Max Planck Institute for Molecular Genetics, Ihnestr, 63, D 14195 Berlin, Germany
    BMC Genomics 9:306. 2008
  8. doi request reprint The genome of Erwinia tasmaniensis strain Et1/99, a non-pathogenic bacterium in the genus Erwinia
    Michael Kube
    Max Planck Institute for Molecular Genetics, Berlin, Germany
    Environ Microbiol 10:2211-22. 2008
  9. pmc Genome comparison of the epiphytic bacteria Erwinia billingiae and E. tasmaniensis with the pear pathogen E. pyrifoliae
    Michael Kube
    Max Planck Institute for Molecular Genetics, htpt group, Ihnestr, 63, D 14195 Berlin, Germany
    BMC Genomics 11:393. 2010
  10. pmc Analysis of expressed genes of the bacterium 'Candidatus phytoplasma Mali' highlights key features of virulence and metabolism
    Christin Siewert
    Division Phytomedicine, Department of Crop and Animal Sciences, Humboldt Universitat zu Berlin, Berlin, Germany
    PLoS ONE 9:e94391. 2014

Detail Information

Publications37

  1. pmc Classification and identification of bacteria by mass spectrometry and computational analysis
    Sascha Sauer
    Max Planck Institute for Molecular Genetics, Berlin, Germany
    PLoS ONE 3:e2843. 2008
    ..Novel technologies for bacterial detection and analysis can therefore help microbiologists in minimising their efforts in developing a number of microbiological applications...
  2. pmc A second generation genetic map of the bumblebee Bombus terrestris (Linnaeus, 1758) reveals slow genome and chromosome evolution in the Apidae
    Eckart Stolle
    Institut fur Biologie, Martin Luther Universitat Halle Wittenberg, Halle Saale, Germany
    BMC Genomics 12:48. 2011
    ..This genome-wide comparison allows insights into structural conservations and rearrangements and thus the evolution on a chromosomal level...
  3. pmc Analysis of a normalised expressed sequence tag (EST) library from a key pollinator, the bumblebee Bombus terrestris
    Ben M Sadd
    Institute of Integrative Biology IBZ, ETH Zurich, Universitatsstrasse 16, 8092 Zurich, Switzerland
    BMC Genomics 11:110. 2010
    ..The objective of this project was to create a B. terrestris EST resource that will prove to be valuable in obtaining a deeper understanding of this significant social insect...
  4. pmc Surviving extreme polar winters by desiccation: clues from Arctic springtail (Onychiurus arcticus) EST libraries
    Melody S Clark
    British Antarctic Survey, Natural Environment Research Council, High Cross, Madingley Road, Cambridge, CB3 0ET, UK
    BMC Genomics 8:475. 2007
    ..The aim of this project was to generate clones and sequence data in the form of ESTs to provide a platform for the future molecular characterisation of the processes involved in protective dehydration...
  5. pmc Discovering genes associated with dormancy in the monogonont rotifer Brachionus plicatilis
    Nadav Y Denekamp
    Israel Oceanographic and Limnological Research, Haifa 31080, Israel
    BMC Genomics 10:108. 2009
    ..The aim of this study was to generate Expressed Sequence Tags (ESTs) for molecular characterisation of processes associated with the formation of resting eggs, their survival during dormancy and hatching...
  6. pmc Analysis of the goldfish Carassius auratus olfactory epithelium transcriptome reveals the presence of numerous non-olfactory GPCR and putative receptors for progestin pheromones
    Nikolay N Kolmakov
    Centro de Ciencias do Mar, Universidade do Algarve, Campus de Gambelas, 8005 139 Faro, Portugal
    BMC Genomics 9:429. 2008
    ....
  7. pmc The linear chromosome of the plant-pathogenic mycoplasma 'Candidatus Phytoplasma mali'
    Michael Kube
    Max Planck Institute for Molecular Genetics, Ihnestr, 63, D 14195 Berlin, Germany
    BMC Genomics 9:306. 2008
    ..All mycoplasmas, including strains of 'Candidatus (Ca.) Phytoplasma asteris' and 'Ca. P. australiense', examined so far have circular chromosomes, as is the case for almost all walled bacteria...
  8. doi request reprint The genome of Erwinia tasmaniensis strain Et1/99, a non-pathogenic bacterium in the genus Erwinia
    Michael Kube
    Max Planck Institute for Molecular Genetics, Berlin, Germany
    Environ Microbiol 10:2211-22. 2008
    ..The presence of other virulence-associated factors in strain Et1/99 indicates the ancestral genomic background of many plant-associated bacteria...
  9. pmc Genome comparison of the epiphytic bacteria Erwinia billingiae and E. tasmaniensis with the pear pathogen E. pyrifoliae
    Michael Kube
    Max Planck Institute for Molecular Genetics, htpt group, Ihnestr, 63, D 14195 Berlin, Germany
    BMC Genomics 11:393. 2010
    ..The presence of genes that are putatively involved in virulence in E. amylovora and E. pyrifoliae is of special interest for these species in consequence...
  10. pmc Analysis of expressed genes of the bacterium 'Candidatus phytoplasma Mali' highlights key features of virulence and metabolism
    Christin Siewert
    Division Phytomedicine, Department of Crop and Animal Sciences, Humboldt Universitat zu Berlin, Berlin, Germany
    PLoS ONE 9:e94391. 2014
    ....
  11. doi request reprint Analysis of the complete genomes of Acholeplasma brassicae, A. palmae and A. laidlawii and their comparison to the obligate parasites from 'Candidatus Phytoplasma'
    Michael Kube
    Division Phytomedicine, Department of Crop and Animal Sciences, Humboldt Universitat zu Berlin, Berlin, Germany
    J Mol Microbiol Biotechnol 24:19-36. 2014
    ....
  12. pmc Genome sequence and functional genomic analysis of the oil-degrading bacterium Oleispira antarctica
    Michael Kube
    Max Planck Institute for Molecular Genetics, Berlin Dahlem D 14195, Germany
    Nat Commun 4:2156. 2013
    ..Our findings are relevant in the context of microbial cold-adaptation mechanisms and the development of strategies for oil-spill mitigation in cold environments...
  13. ncbi request reprint Analyses of the vrl gene cluster in Desulfococcus multivorans: homologous to the virulence-associated locus of the ovine footrot pathogen Dichelobacter nodosus strain A198
    Florian Knaust
    Max Planck Institute for Molecular Genetics, Berlin, Germany
    J Mol Microbiol Biotechnol 13:156-64. 2007
    ..The latter is supported by the evidence for expression of the vrl genes in D. multivorans, which has not been described as pathogen or to be associated to any disease pattern before...
  14. doi request reprint SNP and haplotype mapping for genetic analysis in the rat
    Kathrin Saar
    Max Delbruck Center for Molecular Medicine, Robert Rossle Strae 10, 13125 Berlin, Germany
    Nat Genet 40:560-6. 2008
    ..We provide a detailed SNP map and demonstrate its utility for mapping of quantitative trait loci. This community resource is openly available and augments the genetic tools for this workhorse of physiological studies...
  15. pmc Characterization of a spontaneous nonmagnetic mutant of Magnetospirillum gryphiswaldense reveals a large deletion comprising a putative magnetosome island
    Sabrina Schübbe
    Max Planck Institut für Marine Mikrobiologie, 28359 Bremen, Germany
    J Bacteriol 185:5779-90. 2003
    ..Overall, these findings suggest the existence of a putative large magnetosome island in M. gryphiswaldense and other magnetotactic bacteria...
  16. ncbi request reprint Genes involved in the anaerobic degradation of ethylbenzene in a denitrifying bacterium, strain EbN1
    Ralf Rabus
    Max Planck Institut für Marine Mikrobiologie, Celsiusstrasse 1, 28359 Bremen, Germany
    Arch Microbiol 178:506-16. 2002
    ..The DNA fragment also included genes for regulatory systems; these were two sets of two-component systems, two LysR homologs, and a TetR homolog. Some of these proteins may be involved in ethylbenzene-dependent gene expression...
  17. pmc Genome analysis of the platypus reveals unique signatures of evolution
    Wesley C Warren
    Genome Sequencing Center, Washington University School of Medicine, Campus Box 8501, 4444 Forest Park Avenue, St Louis, Missouri 63108, USA
    Nature 453:175-83. 2008
    ..Sequencing of this genome now provides a valuable resource for deep mammalian comparative analyses, as well as for monotreme biology and conservation...
  18. pmc Comparative genome analysis of four magnetotactic bacteria reveals a complex set of group-specific genes implicated in magnetosome biomineralization and function
    Michael Richter
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, D 28359 Bremen, Germany
    J Bacteriol 189:4899-910. 2007
    ....
  19. ncbi request reprint Genome of Rice Cluster I archaea--the key methane producers in the rice rhizosphere
    Christoph Erkel
    Max Planck Institute for Terrestrial Microbiology, Karl von Frisch Strasse, 35043 Marburg, Germany
    Science 313:370-2. 2006
    ....
  20. ncbi request reprint A catabolic gene cluster for anaerobic benzoate degradation in methanotrophic microbial Black Sea mats
    Michael Kube
    Max Planck Institut fir Molekulare Genetik, Ihnestr 73, D 14129 Berlin, Germany
    Syst Appl Microbiol 28:287-94. 2005
    ....
  21. ncbi request reprint Genes involved in the anaerobic degradation of toluene in a denitrifying bacterium, strain EbN1
    Michael Kube
    Max Planck Institut fur Molekulare Genetik, Ihnestrasse 73, 14195 Berlin, Germany
    Arch Microbiol 181:182-94. 2004
    ..The genes between the bss and bbs operons and in the flanking regions differ between strain EbN1 and the other strains...
  22. ncbi request reprint Insights into the genomes of archaea mediating the anaerobic oxidation of methane
    Anke Meyerdierks
    Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359 Bremen, Germany
    Environ Microbiol 7:1937-51. 2005
    ....
  23. pmc First genome data from uncultured upland soil cluster alpha methanotrophs provide further evidence for a close phylogenetic relationship to Methylocapsa acidiphila B2 and for high-affinity methanotrophy involving particulate methane monooxygenase
    Peter Ricke
    Max Planck Institut fur terrestrische Mikrobiologie, Karl von Frisch Str, D 35043 Marburg, Germany
    Appl Environ Microbiol 71:7472-82. 2005
    ..A comparative analysis of the pmo operons of USC alpha and M. acidiphila corroborated previous reports that both the pmo operon structure and the predicted secondary structure of deduced pMMO are highly conserved among all MB...
  24. pmc Clustered genes related to sulfate respiration in uncultured prokaryotes support the theory of their concomitant horizontal transfer
    Marc Mussmann
    Max Planck Institute for Marine Microbiology, Celsiusstr 1, D 28359 Bremen, Germany
    J Bacteriol 187:7126-37. 2005
    ..The acquisition of an optimized gene set would enormously facilitate a successful implementation of a novel pathway...
  25. ncbi request reprint The genome sequence of an anaerobic aromatic-degrading denitrifying bacterium, strain EbN1
    Ralf Rabus
    Max Planck Institut für Marine Mikrobiologie, Celsiusstrasse 1, 28359, Bremen, Germany
    Arch Microbiol 183:27-36. 2005
    ..Supplementary material on sequence and annotation are provided at the Web page http://www.micro-genomes.mpg.de/ebn1/...
  26. ncbi request reprint Genome sequence of the chlorinated compound-respiring bacterium Dehalococcoides species strain CBDB1
    Michael Kube
    Max Planck Institut fur Molekulare Genetik, Ihnestr 63 73, 14195 Berlin Dahlem, Germany
    Nat Biotechnol 23:1269-73. 2005
    ....
  27. pmc Substrate-dependent regulation of anaerobic degradation pathways for toluene and ethylbenzene in a denitrifying bacterium, strain EbN1
    Simon Kühner
    Max Planck Institute for Marine Microbiology, Celsiusstr 1, 28359 Bremen, Germany
    J Bacteriol 187:1493-503. 2005
    ....
  28. pmc A hypervariable 130-kilobase genomic region of Magnetospirillum gryphiswaldense comprises a magnetosome island which undergoes frequent rearrangements during stationary growth
    Susanne Ullrich
    MPI für Marine Mikrobiologie, Celsiusstr 1, 28359 Bremen, Germany
    J Bacteriol 187:7176-84. 2005
    ..This can be interpreted in terms of adaptation to physiological stress and might contribute to the genetic plasticity and mobilization of the magnetosome island...
  29. ncbi request reprint EST sequencing of Onychophora and phylogenomic analysis of Metazoa
    Falko Roeding
    Institute of Zoology and Zoological Museum, University of Hamburg, D 20146 Hamburg, Germany
    Mol Phylogenet Evol 45:942-51. 2007
    ..In agreement with previous studies, we have demonstrated that random sequencing of cDNAs results in sequence information suitable for phylogenomic approaches to resolve metazoan relationships...
  30. ncbi request reprint The DNA sequence, annotation and analysis of human chromosome 3
    Donna M Muzny
    Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA
    Nature 440:1194-8. 2006
    ....
  31. ncbi request reprint Retrieval of first genome data for rice cluster I methanogens by a combination of cultivation and molecular techniques
    Christoph Erkel
    Max Planck Institut fur terrestrische Mikrobiologie, Marburg, Germany
    FEMS Microbiol Ecol 53:187-204. 2005
    ..Trees exemplarily computed for the deduced amino acid sequences of eIF2a, dnaG, and priA corroborated a specific phylogenetic association of RC-I with the Methanosarcinales...
  32. ncbi request reprint Towards the proteome of the marine bacterium Rhodopirellula baltica: mapping the soluble proteins
    Dörte Gade
    Max Planck Institute for Marine Microbiology, Bremen, Germany
    Proteomics 5:3654-71. 2005
    ..The 2-DE reference map presented here will serve as framework for further experiments to study differential gene expression of R. baltica in response to external stimuli or cellular development and compartmentalization...
  33. pmc The genome of the kinetoplastid parasite, Leishmania major
    Alasdair C Ivens
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA, UK
    Science 309:436-42. 2005
    ..Abundant RNA-binding proteins are encoded in the Tritryp genomes, consistent with active posttranscriptional regulation of gene expression...
  34. pmc Inactivation of the flagellin gene flaA in Magnetospirillum gryphiswaldense results in nonmagnetotactic mutants lacking flagellar filaments
    Daniel Schultheiss
    Max Planck Institute for Marine Microbiology, 28359 Bremen, Germany
    Appl Environ Microbiol 70:3624-31. 2004
    ..The techniques described in this paper will make it possible to take full advantage of the forthcoming genome sequences of M. gryphiswaldense and other magnetotactic bacteria...
  35. pmc Comparative analysis of the conventional and novel pmo (particulate methane monooxygenase) operons from methylocystis strain SC2
    Peter Ricke
    Max Planck Institut fur terrestrische Mikrobiologie, D 35043 Marburg, Germany
    Appl Environ Microbiol 70:3055-63. 2004
    ..Immediately upstream of the transcriptional start sites of both pmoCAB1 and pmoCAB2, sequence motifs similar to Escherichia coli sigma(70) promoters were identified...
  36. ncbi request reprint A conspicuous nickel protein in microbial mats that oxidize methane anaerobically
    Martin Krüger
    Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359 Bremen, Germany
    Nature 426:878-81. 2003
    ..Sequence analyses revealed similarities to methyl-coenzyme M reductase from methanogenic archaea. The abundance of the nickel protein (7% of extracted proteins) in the mat suggests an important role in AOM...
  37. ncbi request reprint Analysis of N-acetylglucosamine metabolism in the marine bacterium Pirellula sp. strain 1 by a proteomic approach
    Ralf Rabus
    Max Planck Institut für Marine Mikrobiologie, Bremen, Germany
    Proteomics 2:649-55. 2002
    ..Thus the coding genes of three proteins expressed during growth of Pirellula sp. strain 1 on carbohydrates were identified and related by sequence similarity to carbohydrate metabolism...