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)cY
 Glutamic acid1 (1)Y
 Glutamine1 (1)Y
 Glycine1 (1)Y
 Lysine6 (7)dY
 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)dY
 Folate7 (10)dY
 Molybdopterin8 (9)cY
 Panothenate4 (4)Y
 Protoheme10 (10)Y
 Pyridine nucleotides3 (5)dY
 Pyridoxial phosphate3 (?)dY
 Riboflavin6 (7)cY
 Thiamine3 (9)c, dY
 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)hY
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).