Jörg Soppa

Summary

Affiliation: Frankfurt am Main
Country: Germany

Publications

  1. ncbi request reprint The TATA-box-binding protein (TBP) of Halobacterium salinarum. Cloning of the tbp gene, heterologous production of TBP and folding of TBP into a native conformation
    J Soppa
    Max Planck Institut fur Biochemie, Martinsried, Germany
    Eur J Biochem 249:318-24. 1997
  2. ncbi request reprint From genomes to function: haloarchaea as model organisms
    Jörg Soppa
    Goethe University, Biocentre, Institute for Microbiology, D 60439 Frankfurt, Germany
    Microbiology 152:585-90. 2006
  3. ncbi request reprint From replication to cultivation: hot news from Haloarchaea
    Jörg Soppa
    Goethe University, Biocentre, Institute for Microbiology, Marie Curie Str 9, D 60439, Germany
    Curr Opin Microbiol 8:737-44. 2005
  4. ncbi request reprint Discovery of two novel families of proteins that are proposed to interact with prokaryotic SMC proteins, and characterization of the Bacillus subtilis family members ScpA and ScpB
    Jörg Soppa
    J W Goethe Universitat, Biozentrum, Institut fur Mikrobiologie, Franfurt, Germany
    Mol Microbiol 45:59-71. 2002
  5. ncbi request reprint Prokaryotic structural maintenance of chromosomes (SMC) proteins: distribution, phylogeny, and comparison with MukBs and additional prokaryotic and eukaryotic coiled-coil proteins
    J Soppa
    Institut fur Mikrobiologie, Biozentrum Niederursel, Marie Curie Strasse 9, D 60439 Frankfurt, Germany
    Gene 278:253-64. 2001
  6. ncbi request reprint Transcription initiation in Archaea: facts, factors and future aspects
    J Soppa
    Universitat Frankfurt, Biozentrum Niederursel, Institut fur Mikrobiologie, Germany
    Mol Microbiol 31:1295-305. 1999
  7. doi request reprint Small RNAs of the halophilic archaeon Haloferax volcanii
    Jörg Soppa
    Goethe University, Biocentre, Institute of Molecular Biosciences, Max von Laue Strasse 9, D 60438 Frankfurt, Germany
    Biochem Soc Trans 37:133-6. 2009
  8. ncbi request reprint Bioinformatic prediction and experimental verification of sRNAs in the haloarchaeon Haloferax volcanii
    Julia Babski
    Institute for Molecular Biosciences, Biocentre, Goethe University, Frankfurt, Germany
    RNA Biol 8:806-16. 2011
  9. doi request reprint A 2-oxoacid dehydrogenase complex of Haloferax volcanii is essential for growth on isoleucine but not on other branched-chain amino acids
    Marco Sisignano
    Goethe University, Biocentre, Institute for Molecular Biosciences, Max von Laue Str 9, D 60438 Frankfurt, Germany
    Microbiology 156:521-9. 2010
  10. ncbi request reprint Construction and usage of a onefold-coverage shotgun DNA microarray to characterize the metabolism of the archaeon Haloferax volcanii
    Alexander Zaigler
    J W Goethe Universitat, Biozentrum Niederursel, Institut fur Mikrobiologie, Marie Curie Str 9, D 60439 Frankfurt, Germany
    Mol Microbiol 48:1089-105. 2003

Collaborators

Detail Information

Publications32

  1. ncbi request reprint The TATA-box-binding protein (TBP) of Halobacterium salinarum. Cloning of the tbp gene, heterologous production of TBP and folding of TBP into a native conformation
    J Soppa
    Max Planck Institut fur Biochemie, Martinsried, Germany
    Eur J Biochem 249:318-24. 1997
    ..Properly folded TBP was shown to bind to a halobacterial TATA-box-containing DNA fragment, indicating that the fusion protein can be used to characterize DNA recognition by the halobacterial TBP...
  2. ncbi request reprint From genomes to function: haloarchaea as model organisms
    Jörg Soppa
    Goethe University, Biocentre, Institute for Microbiology, D 60439 Frankfurt, Germany
    Microbiology 152:585-90. 2006
    ..Taken together, the wealth of techniques available make haloarchaea excellent archaeal model species...
  3. ncbi request reprint From replication to cultivation: hot news from Haloarchaea
    Jörg Soppa
    Goethe University, Biocentre, Institute for Microbiology, Marie Curie Str 9, D 60439, Germany
    Curr Opin Microbiol 8:737-44. 2005
    ..Halophilic Archaea were found in low-salt environments and are thus more widespread than previously thought...
  4. ncbi request reprint Discovery of two novel families of proteins that are proposed to interact with prokaryotic SMC proteins, and characterization of the Bacillus subtilis family members ScpA and ScpB
    Jörg Soppa
    J W Goethe Universitat, Biozentrum, Institut fur Mikrobiologie, Franfurt, Germany
    Mol Microbiol 45:59-71. 2002
    ....
  5. ncbi request reprint Prokaryotic structural maintenance of chromosomes (SMC) proteins: distribution, phylogeny, and comparison with MukBs and additional prokaryotic and eukaryotic coiled-coil proteins
    J Soppa
    Institut fur Mikrobiologie, Biozentrum Niederursel, Marie Curie Strasse 9, D 60439 Frankfurt, Germany
    Gene 278:253-64. 2001
    ..coli. A phylogenetic analysis was performed including the prokaryotic coiled-coil proteins as well as SMCs and Rad18 proteins from selected eukaryotes...
  6. ncbi request reprint Transcription initiation in Archaea: facts, factors and future aspects
    J Soppa
    Universitat Frankfurt, Biozentrum Niederursel, Institut fur Mikrobiologie, Germany
    Mol Microbiol 31:1295-305. 1999
    ..Furthermore, additional basal transcription factors and promoter elements seem to be crucial in subgroups of Archaea. Finally, some aspects of global as well as gene-specific transcriptional regulation are discussed...
  7. doi request reprint Small RNAs of the halophilic archaeon Haloferax volcanii
    Jörg Soppa
    Goethe University, Biocentre, Institute of Molecular Biosciences, Max von Laue Strasse 9, D 60438 Frankfurt, Germany
    Biochem Soc Trans 37:133-6. 2009
    ..Taken together, it could be shown that sRNAs are as abundant in H. volcanii as they are in well-studied bacterial species and that they fulfil important biological roles under specific conditions...
  8. ncbi request reprint Bioinformatic prediction and experimental verification of sRNAs in the haloarchaeon Haloferax volcanii
    Julia Babski
    Institute for Molecular Biosciences, Biocentre, Goethe University, Frankfurt, Germany
    RNA Biol 8:806-16. 2011
    ..Further analyses of the biological functions of selected sRNAs, including the construction of deletion mutants, are currently under way...
  9. doi request reprint A 2-oxoacid dehydrogenase complex of Haloferax volcanii is essential for growth on isoleucine but not on other branched-chain amino acids
    Marco Sisignano
    Goethe University, Biocentre, Institute for Molecular Biosciences, Max von Laue Str 9, D 60438 Frankfurt, Germany
    Microbiology 156:521-9. 2010
    ..Taken together, the results indicate that OADHC1 is a specialized BCDHC that uses only one (or maximally two) of the three branched-chain 2-oxoacids, in contrast to BCDHCs from other species...
  10. ncbi request reprint Construction and usage of a onefold-coverage shotgun DNA microarray to characterize the metabolism of the archaeon Haloferax volcanii
    Alexander Zaigler
    J W Goethe Universitat, Biozentrum Niederursel, Institut fur Mikrobiologie, Marie Curie Str 9, D 60439 Frankfurt, Germany
    Mol Microbiol 48:1089-105. 2003
    ..Analysis of the results revealed that onefold-coverage shotgun DNA microarrays are well suited to characterize the regulation of metabolic pathways as well as protein complexes in response to changes in environmental conditions...
  11. doi request reprint A novel mechanism for translation initiation operates in haloarchaea
    Oliver Hering
    Goethe University, Department of Biosciences, Biocentre, Institute for Molecular Biosciences, Max von Laue Str 9, D 60438 Frankfurt, Germany
    Mol Microbiol 71:1451-63. 2009
    ..Taken together, operation of a scanning mechanism was excluded and the results indicate that a novel mechanism for translation initiation operates at least in haloarchaea...
  12. pmc Experimental characterization of Cis-acting elements important for translation and transcription in halophilic archaea
    Mariam Brenneis
    Institute for Molecular Biosciences, Goethe University, Frankfurt, Germany
    PLoS Genet 3:e229. 2007
    ..Taken together, either a scanning mechanism similar to the mechanism of translation initiation operating in eukaryotes or a novel mechanism must operate on most leadered haloarchaeal transcripts...
  13. pmc Regulation of translation in haloarchaea: 5'- and 3'-UTRs are essential and have to functionally interact in vivo
    Mariam Brenneis
    Goethe University, Institute for Molecular Biosciences, Frankfurt, Germany
    PLoS ONE 4:e4484. 2009
    ..The current results indicate that 3'-UTR-dependent translational control had already evolved before capping and polyadenylation of transcripts were invented, which are essential for circularization of transcripts in eukaryotes...
  14. ncbi request reprint Small RNAs in haloarchaea: identification, differential expression and biological function
    Julia Straub
    Institute of Molecular Biosciences, Goethe University, Frankfurt, Germany
    RNA Biol 6:281-92. 2009
    ..Taken together, we showed that haloarchaea encode sRNAs, some of which are differentially expressed and which have the potential to fulfil important biological functions in vivo...
  15. pmc Functional role for a 2-oxo acid dehydrogenase in the halophilic archaeon Haloferax volcanii
    Christian Wanner
    Biozentrum Niederursel, Goethe University, D 60439 Frankfurt, Germany
    J Bacteriol 184:3114-21. 2002
    ..Growth potentials of the mutant were markedly different in media with a single carbon source versus media with mixed carbon sources...
  16. ncbi request reprint Cell cycle-dependent expression of an essential SMC-like protein and dynamic chromosome localization in the archaeon Halobacterium salinarum
    Ute Herrmann
    J W Goethe Universitat, Biozentrum Niederusel, Institut fur Mikrobiologie, Frankfurt, Germany
    Mol Microbiol 46:395-409. 2002
    ..The Sph1 concentration is elevated when segregation of the new chromosomes is nearly complete; therefore, it is proposed to play a role in a late step of replication, e.g. DNA repair, similar to eukaryotic Rad18 proteins...
  17. ncbi request reprint Characterization of a Haloferax volcanii member of the enolase superfamily: deletion mutant construction, expression analysis, and transcriptome comparison
    Michael Dambeck
    Biocentre, Institute for Molecular Biosciences, Goethe University, Max von Laue Str 9, 60438 Frankfurt, Germany
    Arch Microbiol 190:341-53. 2008
    ..Taken together, the results indicate that IftA might have a dual function, i.e., transiently after transition to fresh medium and permanently during growth in glucose medium...
  18. pmc Functional genomic and advanced genetic studies reveal novel insights into the metabolism, regulation, and biology of Haloferax volcanii
    Jörg Soppa
    Institute for Molecular Biosciences, Goethe University Frankfurt, Biocentre, Frankfurt, Germany
    Archaea 2011:602408. 2011
    ..volcanii a bona fide archaeal model species, which has enabled the generation of important results in recent years and will most likely generate further breakthroughs in the future...
  19. pmc Microarray analysis in the archaeon Halobacterium salinarum strain R1
    Jens Twellmeyer
    Max Planck Institute of Biochemistry, Membrane Biochemistry, Martinsried, Germany
    PLoS ONE 2:e1064. 2007
    ..The tool of choice to record transcriptional profiles is the DNA microarray technique. However, the technique is still rarely used for transcriptome analysis in archaea...
  20. pmc Transcriptome changes and cAMP oscillations in an archaeal cell cycle
    Anke Baumann
    Goethe University, Institute for Molecular Biosciences, Biocentre, Frankfurt, Germany
    BMC Cell Biol 8:21. 2007
    ..Similarly, oscillations of small signaling molecules have been identified in very few eukaryotic species, but not in any prokaryote...
  21. doi request reprint Ploidy and gene conversion in Archaea
    Jörg Soppa
    Goethe University, Biocentre, Institute for Molecular Biosciences, Max von Laue Strasse 9, D 60438 Frankfurt, Germany
    Biochem Soc Trans 39:150-4. 2011
    ..In both cases, the genomes were rapidly equalized in the absence of selection, showing that gene conversion operates at least in halophilic and methanogenic Euryarchaea...
  22. pmc Quantification of ploidy in proteobacteria revealed the existence of monoploid, (mero-)oligoploid and polyploid species
    Vito Pecoraro
    Biocentre, Institute for Molecular Biosciences, Goethe University, Frankfurt, Germany
    PLoS ONE 6:e16392. 2011
    ..The ploidy level is not conserved within the groups of proteobacteria, and there are no obvious correlations between the ploidy levels with other parameters like genome size, optimal growth temperature or mode of life...
  23. doi request reprint Optimized generation of vectors for the construction of Haloferax volcanii deletion mutants
    M Hammelmann
    Institute for Molecular Biosciences, Biocentre, Goethe University, D 60438 Frankfurt, Germany
    J Microbiol Methods 75:201-4. 2008
    ..Taken together, the optimized procedure omits one cloning step and enhances both speed and efficiency of deletion vector construction considerably...
  24. ncbi request reprint Three 2-oxoacid dehydrogenase operons in Haloferax volcanii: expression, deletion mutants and evolution
    Jan van Ooyen
    Goethe University, Biocentre, Institute for Molecular Biosciences, Max von Laue Str 9, D 60438 Frankfurt, Germany
    Microbiology 153:3303-13. 2007
    ..This view is underscored by a phylogenetic tree of 33 archaeal and bacterial OADHCs...
  25. pmc Genome-wide analysis of growth phase-dependent translational and transcriptional regulation in halophilic archaea
    Christian Lange
    Institute for Molecular Biosciences, Johann Wolfgang Goethe University, Max von Laue Strasse 9, 60438 Frankfurt a, M, Germany
    BMC Genomics 8:415. 2007
    ..Additional species have not been investigated yet. Particularly, until now no global study of translational control with any prokaryotic species was available...
  26. pmc Generation and phenotyping of a collection of sRNA gene deletion mutants of the haloarchaeon Haloferax volcanii
    Katharina Jaschinski
    Goethe University, Institute for Molecular Biosciences, Frankfurt, Germany
    PLoS ONE 9:e90763. 2014
    ..Only 3 of the 27 genes are conserved in more than 10 haloarchaeal species. 22 of the 27 genes are confined to H. volcanii, indicating a fast evolution of haloarchaeal sRNA genes. ..
  27. doi request reprint Evolutionary advantages of polyploidy in halophilic archaea
    Jörg Soppa
    Institute for Molecular Biosciences, Biocentre, Goethe University, Senckenberganlage 31, 60325 Frankfurt am Main, Germany
    Biochem Soc Trans 41:339-43. 2013
    ..Experimental indications exist for all but one of these evolutionary advantages. Several of the advantages require gene conversion, which has been shown to be present and active in haloarchaea...
  28. doi request reprint Ploidy in cyanobacteria
    Marco Griese
    Institute for Molecular Biosciences, Biocentre, Goethe University, Frankfurt, Germany
    FEMS Microbiol Lett 323:124-31. 2011
    ..A compilation of the ploidy levels of all investigated cyanobacterial species gives an overview of the genome copy number distribution and shows that monoploid, oligoploid, and polyploid cyanobacteria exist...
  29. pmc Haloferax volcanii, a Prokaryotic Species that Does Not Use the Shine Dalgarno Mechanism for Translation Initiation at 5'-UTRs
    Piet Kramer
    Institute for Molecular Biosciences, Biocentre, Goethe University, Frankfurt, Germany
    PLoS ONE 9:e94979. 2014
    ..Possible biological functions for intragenic SD motifs are discussed, including re-initiation of translation at distal genes in operons. ..
  30. pmc DNA as a phosphate storage polymer and the alternative advantages of polyploidy for growth or survival
    Karolin Zerulla
    Institute for Molecular Biosciences, Biocentre, Goethe University, Frankfurt, Germany
    PLoS ONE 9:e94819. 2014
    ..The consequences of the usage of genomic DNA as phosphate storage polymer are discussed as well as the hypothesis that DNA might have initially evolved in evolution as a storage polymer, and the various genetic benefits evolved later. ..
  31. pmc Genome copy numbers and gene conversion in methanogenic archaea
    Catherina Hildenbrand
    Goethe University, Biocentre, Institute for Molecular Biosciences, Max von Laue Str 9, D 60438 Frankfurt, Germany
    J Bacteriol 193:734-43. 2011
    ..maripaludis took place probably via a gene conversion mechanism. In addition, it was shown that the velocity of this phenomenon is inversely correlated to the strength of selection...