Genome-scale metabolic model of Helicobacter pylori 26695

Journal of Bacteriology

Volumn 184, Issue 16, 2002, Pages 4582-4593

  Schilling, Christophe H ^a   Covert, Markus W ^a   Famili, Iman ^a   Church, George M ^a   Edwards, Jeremy S ^a   Palsson, Bernhard O ^a  

^a GENOMATICA INC   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL GENOME; BACTERIAL METABOLISM; BIOMASS; CONTROLLED STUDY; GENE CONSTRUCT; GENE DELETION; GENE IDENTIFICATION; GENE SEQUENCE; HAEMOPHILUS INFLUENZAE; HELICOBACTER PYLORI; IN VITRO STUDY; MODEL; NONHUMAN; OPEN READING FRAME; PRIORITY JOURNAL; REACTION ANALYSIS;

AMINO ACIDS; BACTERIAL PROTEINS; ENERGY METABOLISM; ENZYMES; GENE DELETION; GENOME, BACTERIAL; HELICOBACTER PYLORI; OPEN READING FRAMES;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; HAEMOPHILUS; HAEMOPHILUS INFLUENZAE; HELICOBACTER; HELICOBACTER PYLORI; HELICOBACTER PYLORI 26695; PROKARYOTA;

EID: 0036330798     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.184.16.4582-4593.2002     Document Type: Article

References (69)

1. Comparative genomics of Helicobacter pylori: Analysis of the outer membrane protein families
2. A genome-based approach for the identification of essential bacterial genes
3. Molecular characterization of two-component systems of Helicobacter pylori
4. Gen Bank
5. Fumarate reductase of Helicobacter pylori - An immunogenic protein
6. Flux analysis of underdetermined metabolic networks: The quest for the missing constraints
7. 2 for growth
8. A novel mechanism for resistance to the antimetabolite N-phosphonoacetyl-L-aspartate by Helicobacter pylori
9. 13C NMR spectroscopy
10. Syst. identification of selective essential genes in Helicobacter pylori by genome prioritization and allelic replacement mutagenesis
11. Characterization of the respiratory chain of Helicobacter pylori
12. Cloning and characterization of Helicobacter pylori succinyl CoA:acetoacetate CoA-transferase, a novel prokaryotic member of the CoA-transferase family
13. Metabolic modeling of microbial strains in silico
14. The Helicobacter pylori ureC gene codes for a phosphoglucosamine mutase
15. Transcriptomes, transcription activators and microarrays
16. Helicobacter pylori physiology predicted from genomic comparison of two strains
17. Systems properties of the Haemophilus influenzae Rd metabolic genotype
18. In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data
19. The Escherichia coli MG1655 in silico metabolic genotype: Its definition, characteristics, and capabilities
20. Metabolic flux balance analysis
21. Does NADH play a central role in energy metabolism in Helicobacter pylori?
22. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd
23. The Helicobacter pylori gene encoding phosphatidylserine synthase: Sequence, expression, and insertional mutagenesis
24. Mathematical modelling of metabolism
25. How Helicobacter pylori works: An overview of the metabolism of Helicobacter pylori
26. Metabolic activities of metronidazole-sensitive and -resistant strains of Helicobacter pylori: Repression of pyruvate oxidoreductase and expression of isocitrate lyase activity correlate with resistance
27. Identification of carboxylation enzymes and characterization of a novel four-subunit pyruvate:flavodoxin oxidoreductase from Helicobacter pylori
28. Helicobacter pylori porCDAB and oorDABC genes encode distinct pyruvate:flavodoxin and 2-oxoglutarate:acceptor oxidoreductases which mediate electron transport to NADP
29. The mode of action of metronidazole in Helicobacter pylori: Futile cycling or reduction?
30. Another unusual type of citric acid cycle enzyme in Helicobacter pylori: The malate:quinone oxidoreductase
31. The physiology and metabolism of the human gastric pathogen Helicobacter pylori
32. Microaerobic physiology: Aerobic respiration, anaerobic respiration, and carbon dioxide metabolism
33. Metabolism and genetics of Helicobacter pylori: The genome era
34. The respiratory chain of Helicobacter pylori: Identification of cytochromes and the effects of oxygen on cytochrome and menaquinone levels
35. One hundred years of discovery and rediscovery of Helicobacterpylori and its association with peptic ulcer disease
36. Helicobacter pylori rocF is required for arginase activity and acid protection in vitro but is not essential for colonization of mice or for urease activity
37. Nucleotide metabolism
38. Characterisation of glucose transport in Helicobacter pylori
39. Aminoacid utilization by Helicobacter pylori
40. Evidence for a pentose phosphate pathway in Helicobacterpylori
41. Fumarate catabolism in Helicobacter pylori
42. Glucose phosphorylation in Helicobacter pylori
43. The Entner-Doudoroff pathway in Helicobacter pylori
44. Glucose utilization and lactate production by Helicobacterpylori
45. Fumarate reductase: A target for therapeutic intervention against Helicobacter pylori
46. Pyruvate metabolism in Helicobacter pylori
47. De novo synthesis of pyrimidine nucleotides by Helicobacter pylori
48. Salvage synthesis of purine nucleotides by Helicobacter pylori
49. Characterization of fumarate transport in Helicobacter pylori
50. Purine metabolism and the microaerophily of Helicobacter pylori
51. Epidemiology of infection
52. Nutritional requirements for growth of Helicobacter pylori
53. The tricarboxylic acid cycle of Helicobacter pylori
54. Determination of redundancy and systems properties of the metabolic network of Helicobacter pylori using genome-scale extreme pathway analysis
55. Characteristics of Helicobacter pylori growth in a defined medium and determination of its amino acid requirements
56. Combining pathway analysis with flux balance analysis for the comprehensive study of metabolic systems
57. Towards metabolic phenomics: Analysis of genomic data using flux balances
58. Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway-oriented perspective
59. Assessment of the metabolic capabilities of Haemophilus influenzae Rd through a genome-scale pathway analysis
60. The underlying pathway structure of biochemical reaction networks
61. Identification and characterization of an aliphatic amidase in Helicobacter pylori
62. The Helicobacter pylori UreI protein is not involved in urease activity but is essential for bacterial survival in vivo
63. Physiology and biochemistry, of Helicobacter pylori
64. Amino acid utilisation and deamination of glutamine and asparagine by Helicobacter pylori
65. The complete genome sequence of the gastric pathogen Helicobacter pylori
66. Metabolic flux balancing: Basic concepts, scientific and practical use
67. Mathematical models of metabolic pathways