N Glansdorff

Summary

Affiliation: Vrije Universiteit Brussel
Country: Belgium

Publications

  1. pmc Retrieving sequences of enzymes experimentally characterized but erroneously annotated : the case of the putrescine carbamoyltransferase
    Daniil G Naumoff
    Institut de Genetique et Microbiologie, CNRS UMR 8621, Universite Paris Sud, Batiment 409, 91405 Orsay Cedex, France
    BMC Genomics 5:52. 2004
  2. pmc Bioinformatic analysis of an unusual gene-enzyme relationship in the arginine biosynthetic pathway among marine gamma proteobacteria: implications concerning the formation of N-acetylated intermediates in prokaryotes
    Ying Xu
    Marine Sciences Research Center, State University of New York at Stony Brook, Stony Brook, New York 11794 5000, USA
    BMC Genomics 7:4. 2006
  3. doi request reprint The origin of life and the last universal common ancestor: do we need a change of perspective?
    Nicolas Glansdorff
    JM Wiame Research Institute for Microbiology, Vrije Universiteit Brussel, 1 ave E Gryzon, B 1070 Brussels, Belgium
    Res Microbiol 160:522-8. 2009
  4. ncbi request reprint About the last common ancestor, the universal life-tree and lateral gene transfer: a reappraisal
    N Glansdorff
    Microbiology, Free University of Brussels VUB, Flanders Interuniversity Institute and J M Wiame Microbiological Research Institute, Brussels B 1070, Belgium
    Mol Microbiol 38:177-85. 2000
  5. pmc The last universal common ancestor: emergence, constitution and genetic legacy of an elusive forerunner
    Nicolas Glansdorff
    JM Wiame Research Institute for Microbiology and Vrije Universiteit Brussel, 1 ave E Gryzon, B 1070 Brussels, Belgium
    Biol Direct 3:29. 2008
  6. ncbi request reprint Was our ancestor a hyperthermophilic procaryote?
    Ying Xu
    Microbiology, Free University of Brussels VUB, JM Wiame Institute for Microbiology, 1 avenue Emile Gryzon, B 1070, Brussels, Belgium
    Comp Biochem Physiol A Mol Integr Physiol 133:677-88. 2002
  7. ncbi request reprint Arginine regulon of Escherichia coli K-12. A study of repressor-operator interactions and of in vitro binding affinities versus in vivo repression
    D Charlier
    Research Institute of the CERIA COOVI, Brussels, Belgium
    J Mol Biol 226:367-86. 1992
  8. ncbi request reprint Pyrimidine regulation of the Escherichia coli and Salmonella typhimurium carAB operons: CarP and integration host factor (IHF) modulate the methylation status of a GATC site present in the control region
    D Charlier
    Research Institute of the CERIA COOVI, Brussels, Belgium
    J Mol Biol 250:383-91. 1995
  9. ncbi request reprint carP, involved in pyrimidine regulation of the Escherichia coli carbamoylphosphate synthetase operon encodes a sequence-specific DNA-binding protein identical to XerB and PepA, also required for resolution of ColEI multimers
    D Charlier
    Research Institute of the CERIA COOVI, Brussels, Belgium
    J Mol Biol 250:392-406. 1995
  10. ncbi request reprint pyrH-encoded UMP-kinase directly participates in pyrimidine-specific modulation of promoter activity in Escherichia coli
    A Kholti
    Laboratoire de Microbiologie, Universite Libre de Bruxelles, 1 av E Gryson, Brussels, B 1070, Belgium
    J Mol Biol 280:571-82. 1998

Collaborators

  • D Charlier
  • Ying Xu
  • Bernard Labedan
  • Y Nakamura
  • R Cunin
  • Jan Massant
  • D G Naumoff
  • J Wouters
  • G Feller
  • P Cornelis
  • Yuichi Nogi
  • Filip Van Petegem
  • M Roovers
  • Daniel Gigot
  • C Legrain
  • Dirk De Vos
  • Christianne Legrain
  • Valérie Wilquet
  • R Sanchez
  • M Van de Casteele
  • Hui Song
  • Thia Lin Thia-Toong
  • Julius Enoru-Eta
  • J Enoru-Eta
  • D Gigot
  • A Kholti
  • P Chen
  • Jozef J Van Beeumen
  • V Durbecq
  • Han Remaut
  • Mark Van De Casteele
  • Diliana Dimova
  • Virginie Durbecq
  • Haifeng Wang
  • Martine Roovers
  • Vehary Sakanyan
  • F Van Vliet
  • T L Thia-Toong
  • A Pierard
  • N Huysveld
  • M Thomm
  • C Hethke
  • M Baetens
  • A Boyen
  • V Wilquet
  • M Crabeel
  • I Mett
  • V Sakanyan
  • G Weyens
  • H Heimberg
  • J Charlier
  • C Tricot
  • F Holemans
  • W Lissens
  • S Seneca
  • A Feller
  • P Falmagne
  • K Devos
  • S Baumberg
  • V Stalon

Detail Information

Publications43

  1. pmc Retrieving sequences of enzymes experimentally characterized but erroneously annotated : the case of the putrescine carbamoyltransferase
    Daniil G Naumoff
    Institut de Genetique et Microbiologie, CNRS UMR 8621, Universite Paris Sud, Batiment 409, 91405 Orsay Cedex, France
    BMC Genomics 5:52. 2004
    ..Mistakes or gaps in such a complex process may occur when relevant knowledge is ignored, whether lost, forgotten or overlooked. This paper exemplifies an approach which could help to resuscitate such meaningful data...
  2. pmc Bioinformatic analysis of an unusual gene-enzyme relationship in the arginine biosynthetic pathway among marine gamma proteobacteria: implications concerning the formation of N-acetylated intermediates in prokaryotes
    Ying Xu
    Marine Sciences Research Center, State University of New York at Stony Brook, Stony Brook, New York 11794 5000, USA
    BMC Genomics 7:4. 2006
    ..We have investigated the two prokaryotic Domains for patterns of gene-enzyme relationships in the first committed step of arginine biosynthesis...
  3. doi request reprint The origin of life and the last universal common ancestor: do we need a change of perspective?
    Nicolas Glansdorff
    JM Wiame Research Institute for Microbiology, Vrije Universiteit Brussel, 1 ave E Gryzon, B 1070 Brussels, Belgium
    Res Microbiol 160:522-8. 2009
    ..Catalytic closure of a mixture of prebiotic polymers is a heuristic alternative to the RNA world. Conjectures about emergence of life in an infinite multiverse should not confuse probability with possibility...
  4. ncbi request reprint About the last common ancestor, the universal life-tree and lateral gene transfer: a reappraisal
    N Glansdorff
    Microbiology, Free University of Brussels VUB, Flanders Interuniversity Institute and J M Wiame Microbiological Research Institute, Brussels B 1070, Belgium
    Mol Microbiol 38:177-85. 2000
    ....
  5. pmc The last universal common ancestor: emergence, constitution and genetic legacy of an elusive forerunner
    Nicolas Glansdorff
    JM Wiame Research Institute for Microbiology and Vrije Universiteit Brussel, 1 ave E Gryzon, B 1070 Brussels, Belgium
    Biol Direct 3:29. 2008
    ....
  6. ncbi request reprint Was our ancestor a hyperthermophilic procaryote?
    Ying Xu
    Microbiology, Free University of Brussels VUB, JM Wiame Institute for Microbiology, 1 avenue Emile Gryzon, B 1070, Brussels, Belgium
    Comp Biochem Physiol A Mol Integr Physiol 133:677-88. 2002
    ....
  7. ncbi request reprint Arginine regulon of Escherichia coli K-12. A study of repressor-operator interactions and of in vitro binding affinities versus in vivo repression
    D Charlier
    Research Institute of the CERIA COOVI, Brussels, Belgium
    J Mol Biol 226:367-86. 1992
    ..The significance of this lack of correlation is discussed...
  8. ncbi request reprint Pyrimidine regulation of the Escherichia coli and Salmonella typhimurium carAB operons: CarP and integration host factor (IHF) modulate the methylation status of a GATC site present in the control region
    D Charlier
    Research Institute of the CERIA COOVI, Brussels, Belgium
    J Mol Biol 250:383-91. 1995
    ....
  9. ncbi request reprint carP, involved in pyrimidine regulation of the Escherichia coli carbamoylphosphate synthetase operon encodes a sequence-specific DNA-binding protein identical to XerB and PepA, also required for resolution of ColEI multimers
    D Charlier
    Research Institute of the CERIA COOVI, Brussels, Belgium
    J Mol Biol 250:392-406. 1995
    ..We propose that integration host factor and CarP/PepA-induced structural modifications in the carAB control region cause conformational changes required to assemble a pyrimidine-specific nucleo-protein regulatory complex...
  10. ncbi request reprint pyrH-encoded UMP-kinase directly participates in pyrimidine-specific modulation of promoter activity in Escherichia coli
    A Kholti
    Laboratoire de Microbiologie, Universite Libre de Bruxelles, 1 av E Gryson, Brussels, B 1070, Belgium
    J Mol Biol 280:571-82. 1998
    ....
  11. ncbi request reprint Metabolic channelling of carbamoyl phosphate in the hyperthermophilic archaeon Pyrococcus furiosus: dynamic enzyme-enzyme interactions involved in the formation of the channelling complex
    J Massant
    Laboratorium voor Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, Pleinlaan 2, B 1050 Brussels, Belgium
    Biochem Soc Trans 32:306-9. 2004
    ....
  12. ncbi request reprint Integration host factor (IHF) modulates the expression of the pyrimidine-specific promoter of the carAB operons of Escherichia coli K12 and Salmonella typhimurium LT2
    D Charlier
    Research Institute, CERIA COOVI, Brussels, Belgium
    Mol Gen Genet 237:273-86. 1993
    ..IHF thus appears to be required for maximal expression as well as for establishment of full repression. IHF could exert this function by modulating the binding of a pyrimidine-specific regulatory molecule...
  13. ncbi request reprint Mutational analysis of Escherichia coli PepA, a multifunctional DNA-binding aminopeptidase
    D Charlier
    Microbiologie en Erfelijkheidsleer, Vrije Universiteit Brussel and Microbiology Department of the Flanders Interuniversity Institute for Biotechnology, 1 av E Gryson, Brussels, B 1070, Belgium
    J Mol Biol 302:411-26. 2000
    ....
  14. pmc Aspartate transcarbamylase from the hyperthermophilic eubacterium Thermotoga maritima: fused catalytic and regulatory polypeptides form an allosteric enzyme
    P Chen
    Laboratory for Genetics and Microbiology, Vrije Universiteit Brussel, Brussels, Belgium
    J Bacteriol 180:6389-91. 1998
    ..The ATCases from T. maritima and Treponema denticola present intriguing similarities, suggesting horizontal gene transfer...
  15. pmc Purification and characterization of Sa-lrp, a DNA-binding protein from the extreme thermoacidophilic archaeon Sulfolobus acidocaldarius homologous to the bacterial global transcriptional regulator Lrp
    J Enoru-Eta
    Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, and Department of Microbiology, The Flanders Interuniversity Institute for Biotechnology, Universite Libre de Bruxelles, Brussels, Belgium
    J Bacteriol 182:3661-72. 2000
    ..The DNA-binding capacity of purified Sa-Lrp was found to be more resistant to irreversible heat inactivation in the presence of L-leucine, suggesting a potential physiological role of the amino acid as a cofactor...
  16. ncbi request reprint carP, a novel gene regulating the transcription of the carbamoylphosphate synthetase operon of Escherichia coli
    M Roovers
    Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, Belgium
    J Mol Biol 204:857-65. 1988
    ..We have isolated two operator-constitutive mutations that specifically affect P2; both map in the upstream ARG box at a strongly conserved position...
  17. pmc The carbamate kinase-like carbamoyl phosphate synthetase of the hyperthermophilic archaeon Pyrococcus furiosus, a missing link in the evolution of carbamoyl phosphate biosynthesis
    V Durbecq
    Laboratoire de Microbiologie, Universite Libre de Bruxelles, Brussels, Belgium
    Proc Natl Acad Sci U S A 94:12803-8. 1997
    ..The gene coding for this CK-like CPS was called cpkA...
  18. ncbi request reprint Ornithine carbamoyltransferase from the extreme thermophile Thermus thermophilus--analysis of the gene and characterisation of the protein
    R Sanchez
    Laboratorium voor Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, Brussels, Belgium
    Eur J Biochem 248:466-74. 1997
    ..In the presence of its substrates the half-life time was several hours at 85 degrees C. Ionic and hydrophobic interactions contribute to the stability. The expression of T. thermophilus OTC was negatively regulated by arginine...
  19. ncbi request reprint Isolation of the gene encoding Pyrococcus furiosus ornithine carbamoyltransferase and study of its expression profile in vivo and in vitro
    M Roovers
    Laboratorium voor Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, Brussels, Belgium
    Eur J Biochem 247:1038-45. 1997
    ..Upstream from argF is a putative gene for diphthine synthetase, a eukaryotic enzyme assumed to occur also in archaea but not in bacteria...
  20. pmc Experimental evolution of enzyme temperature activity profile: selection in vivo and characterization of low-temperature-adapted mutants of Pyrococcus furiosus ornithine carbamoyltransferase
    M Roovers
    Department of Microbiology, Flanders Interuniversity Institute for Biotechnology VIB, B 1070 Brussels, Belgium
    J Bacteriol 183:1101-5. 2001
    ..The mutants were double ones, still complementing at 15 degrees C, a temperature already in the psychrophilic range. Their kinetic analysis is reported...
  21. ncbi request reprint The dihydrofolate reductase-encoding gene dyrA of the hyperthermophilic bacterium Thermotoga maritima
    M Van de Casteele
    Laboratorium voor Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, Belgium
    Gene 158:101-5. 1995
    ..Important structural features are conserved among all bacterial DHFR, yet the DHFR of T. maritima appears unique in a number of insertions and deletions, some of which are reminiscent of eukaryotic DHFR...
  22. ncbi request reprint Cloning and identification of the Sulfolobus solfataricus lrp gene encoding an archaeal homologue of the eubacterial leucine-responsive global transcriptional regulator Lrp
    D Charlier
    Research Institute of the CERIA COOVI, Brussels, Belgium
    Gene 201:63-8. 1997
    ....
  23. ncbi request reprint Sequences of the genes encoding argininosuccinate synthetase in Escherichia coli and Saccharomyces cerevisiae: comparison with methanogenic archaebacteria and mammals
    F Van Vliet
    Vrije Universiteit Brussel, Belgium
    Gene 95:99-104. 1990
    ..EMBO J. 1 (1982) 945-951] and are therefore candidates for ATP-binding sites. The third region shows some similarity to a short portion of the N-proximal part of the PurA enzyme which catalyses an analogous reaction...
  24. ncbi request reprint Escherichia coli and Saccharomyces cerevisiae acetylornithine aminotransferase: evolutionary relationship with ornithine aminotransferase
    H Heimberg
    Vrije Universiteit Brussel, Belgium
    Gene 90:69-78. 1990
    ..e., ornithine)-specific, S. cerevisiae ACOAT transaminates ornithine about as efficiently as E. coli does. The evolutionary relationship between ACOATs and OATs is discussed in terms of substrate ambiguity...
  25. ncbi request reprint Acetylornithine deacetylase, succinyldiaminopimelate desuccinylase and carboxypeptidase G2 are evolutionarily related
    A Boyen
    Laboratorium voor Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, Belgium
    Gene 116:1-6. 1992
    ..G2 carboxypeptidase (G2CP); this or a functionally related enzyme may be responsible for the minor AO activity found in organisms relying on ornithine acetyltransferase for ornithine biosynthesis...
  26. ncbi request reprint On the role of the Shine-Dalgarno sequence in determining the efficiency of translation initiation at a weak start codon in the car operon of Escherichia coli K12
    G Weyens
    Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, Belgium
    J Mol Biol 204:1045-8. 1988
    ..This result supports the view that extensive complementarity between the Shine-Dalgarno sequence and 16S RNA contributes significantly to the efficiency of translation when the latter starts at a weak initiation triplet...
  27. ncbi request reprint Arginine repression of the Saccharomyces cerevisiae ARG1 gene. Comparison of the ARG1 and ARG3 control regions
    M Crabeel
    Laboratory of Microbiology, Vrije Universiteit Brussel, Belgium
    Curr Genet 13:113-24. 1988
    ..Neither of these two regions are thus part of the primary repressor target site. In addition, in terms of post-transcriptional regulation, the latter result indicates that no sequence specificity is required in the RNA recognition step...
  28. pmc New experimental approaches for investigating interactions between Pyrococcus furiosus carbamate kinase and carbamoyltransferases, enzymes involved in the channeling of thermolabile carbamoyl phosphate
    Jan Massant
    Laboratorium voor Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, Pleinlaan 2, B 1050 Brussel, Belgium
    Archaea 1:365-73. 2005
    ....
  29. ncbi request reprint Using quaternary structures to assess the evolutionary history of proteins: the case of the aspartate carbamoyltransferase
    Bernard Labedan
    Institut de Genetique et Microbiologie, Universite Paris Sud, Orsay, France
    Mol Biol Evol 21:364-73. 2004
    ..Our approach integrating data obtained from the separate fields of structural biology and molecular evolution could be useful in other cases where pure statistical data need to receive independent confirmation...
  30. pmc Surprising arginine biosynthesis: a reappraisal of the enzymology and evolution of the pathway in microorganisms
    Ying Xu
    Institut de Genetique et Microbiologie, CNRS UMR 8621, Universite Paris Sud, Batiment 400, 91405 Orsay Cedex, France
    Microbiol Mol Biol Rev 71:36-47. 2007
    ..This review insists on the biochemical and evolutionary implications of these findings...
  31. ncbi request reprint Crystal structure of T state aspartate carbamoyltransferase of the hyperthermophilic archaeon Sulfolobus acidocaldarius
    Dirk De Vos
    Laboratorium voor Eiwitbiochemie en Eiwitengineering, Universiteit Gent, Ghent, Belgium
    J Mol Biol 339:887-900. 2004
    ..The structural rearrangement of this thermophilic ATCase may well promote its thermal stability at the expense of changes in the allosteric behavior...
  32. ncbi request reprint Refined structure of Pyrococcus furiosus ornithine carbamoyltransferase at 1.87 A
    Jan Massant
    Department of Microbiology, Vrije Universiteit Brussel, B 1070 Brussels, Belgium
    Acta Crystallogr D Biol Crystallogr 59:2140-9. 2003
    ..However, the interfaces between catalytic trimers in the dodecameric oligomer are mainly hydrophobic and also involve aromatic-aromatic and cation-pi interactions...
  33. pmc Moritella cold-active dihydrofolate reductase: are there natural limits to optimization of catalytic efficiency at low temperature?
    Ying Xu
    J M Wiame Research Institute, Microbiology, Free University of Brussels VUB, B 1070 Brussels, Belgium
    J Bacteriol 185:5519-26. 2003
    ..The kinetic features of this psychrophilic protein suggest that enzyme adaptation to low temperature may be constrained by natural limits to optimization of catalytic efficiency...
  34. ncbi request reprint Transcription regulation in thermophilic bacteria: high resolution contact probing of Bacillus stearothermophilus and Thermotoga neapolitana arginine repressor-operator interactions
    Hui Song
    Microbiologie en Erfelijkheidsleer, Vrije Universiteit Brussel, 1 av E Gryson B 1070, Brussels, Belgium
    J Mol Biol 315:255-74. 2002
    ..Our findings are discussed in view of the crystal structure of the arginine repressor from B. stearothermophilus...
  35. ncbi request reprint Metabolic channeling of carbamoyl phosphate, a thermolabile intermediate: evidence for physical interaction between carbamate kinase-like carbamoyl-phosphate synthetase and ornithine carbamoyltransferase from the hyperthermophile Pyrococcus furiosus
    Jan Massant
    Department of Microbiology, Vrije Universiteit Brussel, Flanders Interuniversity Institute for Biotechnology, Universite Libre de Bruxelles, Belgium
    J Biol Chem 277:18517-22. 2002
    ..Therefore, by physically interacting with each other, CKase and OTCase prevent the thermodenaturation of carbamoyl phosphate in the aqueous cytoplasmic environment...
  36. pmc Genes of de novo pyrimidine biosynthesis from the hyperthermoacidophilic crenarchaeote Sulfolobus acidocaldarius: novel organization in a bipolar operon
    Thia Lin Thia-Toong
    Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, B 1070 Brussels, Belgium
    J Bacteriol 184:4430-41. 2002
    ..In contrast, the pyrE-pyrB promoter/control region harbors direct repeats and imperfect palindromes reminiscent of target sites for the binding of a hypothetical regulatory protein(s)...
  37. ncbi request reprint High resolution contact probing of the Lrp-like DNA-binding protein Ss-Lrp from the hyperthermoacidophilic crenarchaeote Sulfolobus solfataricus P2
    Julius Enoru-Eta
    Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussels, Belgium
    Mol Microbiol 45:1541-55. 2002
    ..Moreover, the results demonstrate profound Ss-Lrp induced structural alterations of sequence stretches flanking the core contact site, and reveal that the deformability of these regions significantly contributes to binding selectivity...
  38. ncbi request reprint Regulation of arginine biosynthesis in the psychropiezophilic bacterium Moritella profunda: in vivo repressibility and in vitro repressor-operator contact probing
    Ying Xu
    Erfelijkheidsleer en Microbiologie, Vrije Universiteit Brussel, 1 av E Gryson B 1070 Brussels, Belgium
    J Mol Biol 326:353-69. 2003
    ..A close inspection of sequence conservation and of single base-pair O(c)-type mutations indicate that the same conclusion can be generalized to E.coli operators...
  39. pmc Metabolic enzymes from psychrophilic bacteria: challenge of adaptation to low temperatures in ornithine carbamoyltransferase from Moritella abyssi
    Ying Xu
    J M Wiame Research Institute, Microbiology, Free University of Brussels, B 1070 Brussels
    J Bacteriol 185:2161-8. 2003
    ..OTCase(Mab) adaptation to cold indicates a trade-off between affinity and catalytic velocity, suggesting that optimization of key metabolic enzymes at low temperatures may be constrained by natural limits...
  40. ncbi request reprint Psychromonas profunda sp. nov., a psychropiezophilic bacterium from deep Atlantic sediments
    Ying Xu
    J M Wiame Research Institute for Microbiology, Free University of Brussels VUB, 1 ave E Gryson, B 1070 Brussels, Belgium
    Int J Syst Evol Microbiol 53:527-32. 2003
    ..The piezophily of P. profunda is intermediate between that of the type species, Psychromonas antarctica, which is not piezophilic, and that of Psychromonas kaikoae, which is an obligate piezophile...
  41. ncbi request reprint Moritella profunda sp. nov. and Moritella abyssi sp. nov., two psychropiezophilic organisms isolated from deep Atlantic sediments
    Ying Xu
    J M Wiame Research Institute for Microbiology, Free University of Brussels VUB, 1, ave E Gryson, B 1070 Brussels, Belgium
    Int J Syst Evol Microbiol 53:533-8. 2003
    ..profunda) or 14 degrees C (M. abyssi). The optimal pressure is lower than that at the site of isolation, and raising the temperature to 10 degrees C makes the organisms more piezophilic...
  42. pmc Dihydropteridine reductase as an alternative to dihydrofolate reductase for synthesis of tetrahydrofolate in Thermus thermophilus
    Valérie Wilquet
    Microbiology, Universite Libre de Bruxelles, B 1070 Brussels, Belgium
    J Bacteriol 186:351-5. 2004
    ....
  43. ncbi request reprint The difficulty of annotating genes: the case of putrescine carbamoyltransferase
    Daniil G Naumoff
    Institut de Genetique et Microbiologie, CNRS UMR 8621, Universite Paris Sud, Batiment 409, 91405 Orsay Cedex, France
    Microbiology 150:3908-11. 2004