A. Marais, G. Mendz, S. Hazell, F. Mégraud (1999)
Metabolism and Genetics of Helicobacter pylori: the Genome EraMicrobiology and Molecular Biology Reviews, 63
N. Price, J. Papin, B. Palsson (2002)
Determination of redundancy and systems properties of the metabolic network of Helicobacter pylori using genome-scale extreme pathway analysis.Genome research, 12 5
AQB—Sense of " was determined " OK? If not, please explain. AQC—Please give name and year of meeting
B. Marshall (2001)
One hundred years of discovery and rediscovery of Helicobacter pylori and its association with peptic ulcer disease
Mobley Hlt, G. Mendz, S. Hazell (2001)
Nucleotide Metabolism -- Helicobacter pylori: Physiology and Genetics
D. McGee, F. Radcliff, G. Mendz, R. Ferrero, H. Mobley (1999)
Helicobacter pylori rocF Is Required for Arginase Activity and Acid Protection In Vitro but Is Not Essential for Colonization of Mice or for Urease ActivityJournal of Bacteriology, 181
G. Mendz, D. Meek, S. Hazell (1998)
Characterization of Fumarate Transport in Helicobacter pyloriThe Journal of Membrane Biology, 165
F. Arigoni, F. Talabot, M. Peitsch, M. Edgerton, E. Meldrum, E. Allet, R. Fish, T. Jamotte, M. Curchod, H. Loferer (1998)
A genome-based approach for the identification of essential bacterial genesNature Biotechnology, 16
G. Mendz, Andrew Shepley, S. Hazell, Mark Smith (1997)
Purine metabolism and the microaerophily of Helicobacter pyloriArchives of Microbiology, 168
P. Doig, B. Jonge, R. Alm, E. Brown, M. Uría-Nickelsen, B. Noonan, S. Mills, P. Tummino, G. Carmel, B. Guild, D. Moir, G. Vovis, T. Trust (1999)
Helicobacter pylori Physiology Predicted from Genomic Comparison of Two StrainsMicrobiology and Molecular Biology Reviews, 63
J. Varner, D. Ramkrishna (1999)
Mathematical models of metabolic pathways.Current opinion in biotechnology, 10 2
J. Edwards, B. Palsson (2000)
The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities.Proceedings of the National Academy of Sciences of the United States of America, 97 10
G. Mendz, S. Hazell (1993)
Fumarate catabolism in Helicobacter pylori.Biochemistry and molecular biology international, 31 2
Mobley Hlt, Mendz Gl, S. Hazell (2001)
Microaerobic Physiology: Aerobic Respiration, Anaerobic Respiration, and Carbon Dioxide Metabolism -- Helicobacter pylori: Physiology and Genetics
Christoph Giersch (2000)
Mathematical modelling of metabolism.Current opinion in plant biology, 3 3
F. Devaux, Philippe Marc, C. Jacq (2001)
Transcriptomes, transcription activators and microarraysFEBS Letters, 498
H. Bonarius, G. Schmid, J. Tramper (1997)
Flux analysis of underdetermined metabolic networks: the quest for the missing constraints.Trends in Biotechnology, 15
P. Hoffman, Avery Goodwin, Jon Johnsen, K. Magee, Sander Veldhuyzen, van, Zanten (1996)
Metabolic activities of metronidazole-sensitive and -resistant strains of Helicobacter pylori: repression of pyruvate oxidoreductase and expression of isocitrate lyase activity correlate with resistanceJournal of Bacteriology, 178
G. Mendz, B. Jimenez, S. Hazell, A. Gero, W. O'Sullivan (1994)
Salvage synthesis of purine nucleotides by Helicobacter pylori.The Journal of applied bacteriology, 77 6
G. Mendz, B. Jimenez, S. Hazell, A. Gero, W. O'Sullivan (1994)
De novo synthesis of pyrimidine nucleotides by Helicobacter pylori.The Journal of applied bacteriology, 77 1
AQK-"g-" as meant? Please clarify
G. Mendz, B. Burns, S. Hazell (1995)
Characterisation of glucose transport in Helicobacter pylori.Biochimica et biophysica acta, 1244 2-3
M. Jorgensen, Jim Manos, G. Mendz, S. Hazell (1998)
The mode of action of metronidazole in Helicobacter pylori: futile cycling or reduction?The Journal of antimicrobial chemotherapy, 41 1
R. Fleischmann, M. Adams, O. White, R. Clayton, E. Kirkness, A. Kerlavage, C. Bult, J. Tomb, B. Dougherty, J. Merrick, K. Mckenney, G. Sutton, W. FitzHugh, C. Fields, Jeannie Gocyne, J. Scott, R. Shirley, Li-ing Liu, A. Glodek, J. Kelley, J. Weidman, C. Phillips, T. Spriggs, Eva Hedblom, M. Cotton (1995)
Whole-genome random sequencing and assembly of Haemophilus influenzae Rd.Science, 269 5223
Also, check changes to " / " twice in this sentence; if sense not as meant, please explain
Nicky Hughes, C. Clayton, P. Chalk, D. Kelly (1998)
Helicobacter pylori porCDAB and oorDABCGenes Encode Distinct Pyruvate:Flavodoxin and 2-Oxoglutarate:Acceptor Oxidoreductases Which Mediate Electron Transport to NADPJournal of Bacteriology, 180
G. Mendz, S. Hazell, L. Gorkom (2004)
Pyruvate metabolism in Helicobacter pyloriArchives of Microbiology, 162
Christophe Schilling, J. Edwards, David Letscher, Bernhard Palsson (2000)
Combining pathway analysis with flux balance analysis for the comprehensive study of metabolic systems.Biotechnology and bioengineering, 71 4
B. Burns, S. Hazell, G. Mendz (1995)
Acetyl-CoA carboxylase activity in Helicobacter pylori and the requirement of increased CO2 for growth.Microbiology, 141 ( Pt 12)
Nicky Hughes, P. Chalk, C. Clayton, D. Kelly (1995)
Identification of carboxylation enzymes and characterization of a novel four-subunit pyruvate:flavodoxin oxidoreductase from Helicobacter pyloriJournal of Bacteriology, 177
AQQ—Pls. check changes to caption & ftnts carefully
A. Chalker, H. Minehart, Nicky Hughes, K. Koretke, M. Lonetto, K. Brinkman, P. Warren, A. Lupas, M. Stanhope, James Brown, P. Hoffman (2001)
Systematic Identification of Selective Essential Genes in Helicobacter pylori by Genome Prioritization and Allelic Replacement MutagenesisJournal of Bacteriology, 183
Z. Ge, D. Taylor (1997)
The Helicobacter pylori gene encoding phosphatidylserine synthase: sequence, expression, and insertional mutagenesisJournal of Bacteriology, 179
J. Edwards, R. Ibarra, B. Palsson (2001)
In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental dataNature Biotechnology, 19
B. Burns, G. Mendz, S. Hazell (1998)
A Novel Mechanism for Resistance to the Antimetabolite N -Phosphonoacetyl-l-Aspartate by Helicobacter pyloriJournal of Bacteriology, 180
G. Mendz, S. Hazell, B. Burns (1994)
The Entner-Doudoroff pathway in Helicobacter pylori.Archives of biochemistry and biophysics, 312 2
Mobley Hlt, G. Mendz, S. Hazell (2001)
Epidemiology of Infection -- Helicobacter pylori: Physiology and Genetics
C. Schilling, J. Edwards, B. Palsson (1999)
Toward Metabolic Phenomics: Analysis of Genomic Data Using Flux BalancesBiotechnology Progress, 15
H. deReuse, A. Labigne, D. Mengin-Lecreulx (1997)
The Helicobacter pylori ureC gene codes for a phosphoglucosamine mutaseJournal of Bacteriology, 179
S. Hazell, G. Mendz (1997)
How Helicobacter pylori Works: An Overview of the Metabolism of Helicobacter pyloriHelicobacter, 2
G. Mendz, S. Hazell (1995)
Aminoacid utilization by Helicobacter pylori.The international journal of biochemistry & cell biology, 27 10
C. Schilling, B. Palsson (2000)
Assessment of the metabolic capabilities of Haemophilus influenzae Rd through a genome-scale pathway analysis.Journal of theoretical biology, 203 3
AQH— " one other within " as meant? If not, please explain
G. Mendz, S. Hazell, S. Srinivasan (1995)
Fumarate reductase: a target for therapeutic intervention against Helicobacter pylori.Archives of biochemistry and biophysics, 321 1
Christophe Schilling, Bernhard Palsson (1998)
The underlying pathway structure of biochemical reaction networks.Proceedings of the National Academy of Sciences of the United States of America, 95 8
J. Edwards, B. Palsson (1999)
Systems Properties of the Haemophilus influenzaeRd Metabolic Genotype*The Journal of Biological Chemistry, 274
AQM-If you mean strategies that model systems, please change to "system-modeling
J. Bacteriol
A. Varma, B. Palsson (1994)
Metabolic Flux Balancing: Basic Concepts, Scientific and Practical UseBio/Technology, 12
P. Nedenskov (1994)
Nutritional requirements for growth of Helicobacter pyloriApplied and Environmental Microbiology, 60
AQA-Please check renumbered references t'out
AQI-Please spell out FADH
S. Skouloubris, A. Labigne, H. Reuse (1997)
Identification and characterization of an aliphatic amidase in Helicobacter pyloriMolecular Microbiology, 25
S. Marcelli, H. Chang, T. Chapman, P. Chalk, R. Miles, R. Poole (1996)
The respiratory chain of Helicobacter pylori: identification of cytochromes and the effects of oxygen on cytochrome and menaquinone levels.FEMS microbiology letters, 138 1
G. Mendz, S. Hazell (1993)
Glucose phosphorylation in Helicobacter pylori.Archives of biochemistry and biophysics, 300 1
AQD-Subsystem abbreviations deleted here since not used t'out text (defined in table footnotes)
not OK, please clarify— capable of what? AQG—Use of
(1999)
Metabolism VOL
M. Finel (1998)
Does NADH play a central role in energy metabolism in Helicobacter pylori?Trends in biochemical sciences, 23 11
I. Corthésy-Theulaz, G. Bergonzelli, Hughes Henry, D. Bachmann, D. Schorderet, A. Blum, L. Ornston (1997)
Cloning and Characterization of Helicobacter pyloriSuccinyl CoA:Acetoacetate CoA-transferase, a Novel Prokaryotic Member of the CoA-transferase Family*The Journal of Biological Chemistry, 272
(1998)
GenBank. Nucleic Acids Res
AQE—If combination of linear programming and optimization not meant, please explain
R. Alm, J. Bina, B. Andrews, P. Doig, R. Hancock, T. Trust (2000)
Comparative Genomics of Helicobacter pylori: Analysis of the Outer Membrane Protein FamiliesInfection and Immunity, 68
H. Mitchell (2001)
Epidemiology of Infection
(2002)
METABOLIC MODEL OF H. PYLORI 4593
Mobley Hlt, Mendz Gl, S. Hazell (2001)
One Hundred Years of Discovery and Rediscovery of Helicobacter pylori and Its Association with Peptic Ulcer Disease -- Helicobacter pylori: Physiology and Genetics
G. Mendz, S. Hazell (1991)
Evidence for a pentose phosphate pathway in Helicobacter pyloriFems Microbiology Letters, 84
R. Stark, J. Greenman, M. Millar (1995)
Physiology and biochemistry of Helicobacter pylori.British journal of biomedical science, 52 4
D. Kelly (1998)
The physiology and metabolism of the human gastric pathogen Helicobacter pylori.Advances in microbial physiology, 40
Mobley Hlt, Mendz Gl, S. Hazell (2001)
Helicobacter Pylori: Physiology and Genetics
Many of these abbr's are also in Table 6 or 7, so better to introduce in a footnote there and refer to the footnote in this legend
D. Beier, R. Frank (2000)
Molecular Characterization of Two-Component Systems of Helicobacter pyloriJournal of Bacteriology, 182
(2001)
Nucleotide metabolism, p. 147–158
(1999)
Metabolic flux balance analysis, p. 13–57
M. Chen, L. Andersen, L. Zhai, A. Kharazmi (1999)
Characterization of the respiratory chain of Helicobacter pylori.FEMS immunology and medical microbiology, 24 2
R. Stark, M. Suleiman, I. Hassan, J. Greenman, M. Millar (1997)
Amino acid utilisation and deamination of glutamine and asparagine by Helicobacter pylori.Journal of medical microbiology, 46 9
(1999)
METABOLIC MODEL OF H. PYLORI 11 rich4/jb-jbac/jb-jbac/jb1602/jb0054d02a seayb Sϭ4 6/14/02 9:11 Art: and genetics of Helicobacter pylori: the genome era
G. Mendz, S. Hazell, B. Burns (1993)
Glucose utilization and lactate production by Helicobacter pylori.Journal of general microbiology, 139 12
S. Birkholz, U. Knipp, E. Lemma, A. Kröger, W. Opferkuch (1994)
Fumarate reductase of Helicobacter pylori--an immunogenic protein.Journal of medical microbiology, 41 1
AQN-If in press or published, please give updated info. Also for Papin et al. ref
S. Pitson, G. Mendz, S. Srinivasan, S. Hazell (1999)
The tricarboxylic acid cycle of Helicobacter pylori.European journal of biochemistry, 260 1
David Reynolds, Charles Penn (1994)
Characteristics of Helicobacter pylori growth in a defined medium and determination of its amino acid requirements.Microbiology, 140 ( Pt 10)
P. Chalk, A. Roberts, W. Blows (1994)
Metabolism of pyruvate and glucose by intact cells of Helicobacter pylori studied by 13C NMR spectroscopy.Microbiology, 140 ( Pt 8)
D. Kelly, Nicky Hughes, R. Poole (2001)
Microaerobic Physiology: Aerobic Respiration, Anaerobic Respiration, and Carbon Dioxide Metabolism
AUTHOR QUERIES PAGE: 2 SESS: 1 OUTPUT: Fri Jun 14 05:45:01 2002 /rich4/jbϪjbac/jbϪjbac/jb1602/jb0054d02a AQS—Shading not necessary since it applies to all minus signs; see change to ftnta
AQR-If sense of column head not OK, pls. clarify. AUTHOR QUERIES AUTHOR PLEASE ANSWER ALL QUERIES
M. Covert, C. Schilling, Iman Famili, J. Edwards, I. Goryanin, E. Selkov, B. Palsson (2001)
Metabolic modeling of microbial strains in silico.Trends in biochemical sciences, 26 3
J. Tomb, O. White, A. Kerlavage, R. Clayton, G. Sutton, R. Fleischmann, K. Ketchum, H. Klenk, S. Gill, B. Dougherty, K. Nelson, J. Quackenbush, Lixin Zhou, E. Kirkness, S. Peterson, B. Loftus, D. Richardson, R. Dodson, H. Khalak, A. Glodek, K. Mckenney, L. Fitzegerald, N. Lee, M. Adams, E. Hickey, D. Berg, Jeanine Gocayne, T. Utterback, J. Peterson, J. Kelley, M. Cotton, Janice Weidman, C. Fujii, C. Bowman, Larry Watthey, E. Wallin, W. Hayes, M. Borodovsky, P. Karp, Hamilton Smith, C. Fraser, J. Venter (1997)
The complete genome sequence of the gastric pathogen Helicobacter pyloriNature, 388
AQP—Please check units t'out stub. Also, pls. supply units for fluxes (no.?) & dimensions
AQO-In Fig. 2 legend, all abbreviations that are not used in text must be introduced
S. Skouloubris, J. Thiberge, A. Labigne, H. Reuse (1998)
The Helicobacter pylori UreI protein is not involved in urease activity but is essential for bacterial survival in vivo.Infection and immunity, 66 9
C. Schilling, D. Letscher, B. Palsson (2000)
Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway-oriented perspective.Journal of theoretical biology, 203 3
Birgit Kather, K. Stingl, M. Rest, K. Altendorf, D. Molenaar (2000)
Another Unusual Type of Citric Acid Cycle Enzyme inHelicobacter pylori: the Malate:Quinone OxidoreductaseJournal of Bacteriology, 182
J. Med. Microbiol
Journal of Bacteriology – Unpaywall
Published: Aug 15, 2002
Access the full text.
Sign up today, get DeepDyve free for 14 days.