Dual diaminopimelate biosynthesis pathways in Bacteroides fragilis and Clostridium thermocellum

André O. Hudson, Ayelet Klartag, Charles Gilvarg, Renwick C.J. Dobson, Felipe Garbelini Marques, Thomas Leustek

Research output: Contribution to journalArticlepeer-review

12 Scopus citations


Bacteroides fragilis and Clostridium thermocellum were recently found to synthesize diaminopimelate (DAP) by way of LL-DAP aminotransferase. Both species also contain an ortholog of meso-diaminopimelate dehydrogenase (Ddh), suggesting that they may have redundant pathways for DAP biosynthesis. The B. fragilis Ddh ortholog shows low homology with other examples of Ddh and this species belongs to a phylum, the Bacteriodetes, not previously known to contain this enzyme. By contrast, the C. thermocellum ortholog is well conserved with known examples of Ddh. Using in vitro and in vivo assays both the B. fragilis and C. thermocellum enzymes were found to be authentic examples of Ddh, displaying kinetic properties typical of this enzyme. The result indicates that B. fragilis contains a sequence diverged form of Ddh. Phylogenomic analysis of the microbial genome database revealed that 77% of species with a Ddh ortholog also contain a second pathway for DAP biosynthesis suggesting that Ddh evolved as an ancillary mechanism for DAP biosynthesis.

Original languageEnglish (US)
Pages (from-to)1162-1168
Number of pages7
JournalBiochimica et Biophysica Acta - Proteins and Proteomics
Issue number9
StatePublished - Sep 2011

All Science Journal Classification (ASJC) codes

  • Analytical Chemistry
  • Biophysics
  • Biochemistry
  • Molecular Biology


  • Dehydrogenase
  • Diaminipimelate
  • Lysine
  • Phylogenomics


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