Table 4.

Predicted biosynthetic abilities and auxotrophies ofH. pylori

Category and CompoundNo. of genes presentaPredicted synthetic abilityb
Amino acids
 Aspartic acid2 (2)Y
 Cysteine2 (3)c Y
 Glutamic acid1 (1)Y
 Glutamine1 (1)Y
 Glycine1 (1)Y
 Lysine6 (7)d Y
 Threonine5 (5)Y
 Tryptophan5 (5)Y
 Alanine1 (2)N
 Arginine0 (9)N
 Histidine0 (8)N
 Isoleucine2 (9)N
 Leucine1 (6)N
 Methionine1 (7)N
 Phenylalanine1 (3)N
 Proline1 (3)N
 Valine2 (9)N
 Asparagine0 (2)e ?
 Serine2 (3)?
 Tyrosine1 (3)?
Cofactors and vitamins
 Biotin4 (4)Y
 CoA0 (5)d Y
 Folate7 (10)d Y
 Molybdopterin8 (9)c Y
 Panothenate4 (4)Y
 Protoheme10 (10)Y
 Pyridine nucleotides3 (5)d Y
 Pyridoxial phosphate3 (?)d Y
 Riboflavin6 (7)c Y
 Thiamine3 (9)c,d Y
 Thioredoxin2 (2)Y
 B12
 Glutathione0 (2)N
 Siroheme0 (1)N
 Ubiquinone3 (8)?
 Menaquinone0 (6)?f
Polyamines
 Agmatine1 (1)Y
 Putrescine1 (3)N
 Spermidine3 (5)?g
Pyrimidines11 (10)h Y
Purines3 (10)Ni
  • a Number of genes assigned in E. coli shown in parentheses. Data from reference119.

  • b Y, yes; N, no; ?, not clear.

  • c H. pylori has a gene for each step in the biosynthetic pathway. The number of genes in E. coliis larger due to redundancy.

  • d Not all genes in this pathway have been identified in E. coli.

  • e Synthesis may occur via tRNA (see the text).

  • f The presence of menaquinones in H. pylori has been demonstrated (see the text).

  • g Spermidine synthesis may be mediated by NapC.

  • h Two copies of pyrC were found inH. pylori.

  • i Salvage pathway is present (see the text).