Publications of Metabolic thesaurus

2007

“Identification of the last unknown genes in the fermentation pathway of lysine”
  Kreimeyer A, Perret A, Lechaplais C, Vallenet D, Médigue C, Salanoubat M, Weissenbach J.
  J Biol Chem. 2007 Mar 9;282(10):7191-7.

2008

“A complete collection of single-gene deletion mutants of Acinetobacter baylyi ADP1”
  Véronique de Berardinis, David Vallenet, Vanina Castelli, Marielle Besnard, Agnès Pinet, Corinne Cruaud, Sumitta Samair, Christophe Lechaplais, Gabor Gyapay, Céline Richez, Maxime Durot, Annett Kreimeyer, François Le Fèvre, Vincent Schächter, Valérie Pezo, Volker Döring, Claude Scarpelli, Claudine Médigue, Georges N. Cohen, Philippe Marlière, Marcel Salanoubat, Jean Weissenbach.
  Molecular Systems Biology 4 Article number: 174 doi:10.1038/msb.2008.10

“New insights into the alternative D-glucarate degradation pathway.”
  Aghaie A, Lechaplais C, Sirven P, Tricot S, Besnard-Gonnet M, Muselet D, de Berardinis V, Kreimeyer A, Gyapay G, Salanoubat M, Perret A.
  J Biol Chem. 2008 Jun 6;283(23):15638-46. Epub 2008 Mar 25.

“Iterative reconstruction of a global metabolic model of Acinetobacter baylyi ADP1 using high-throughput growth phenotype and gene essentiality data.”
  Durot M, Le Fèvre F, de Berardinis V, Kreimeyer A, Vallenet D, Combe C, Smidtas S, Salanoubat M, Weissenbach J, Schachter V.
  BMC Syst Biol. 2008 Oct 7;2:85.

2009

“A conserved gene cluster rules anaerobic oxidative degradation of L-ornithine.”
  Fonknechten N, Perret A, Perchat N, Tricot S, Lechaplais C, Vallenet D, Vergne C, Zaparucha A, Le Paslier D, Weissenbach J, Salanoubat M.
  J Bacteriol. 2009 Feb 27.

“Acinetobacter baylyi ADP1 as a model for metabolic system biology.”
  de Berardinis, V., Durot, M., Weissenbach, J. & Salanoubat, M.
  Current Opinion in Microbiology. 2009. 12, 568-576.

2010

“Clostridium sticklandii, a specialist in amino acid degradation: revisiting its metabolism through its genome sequence.”
  Fonknechten, N., Chaussonnerie, S., Tricot, S., Lajus, A., Andreesen, J. R., Perchat, N., Pelletier, E., Gouyvenoux, M., Barbe, V., Salanoubat, M., Le Paslier, D., Weissenbach, J., Cohen, G. N. & Kreimeyer, A.
  BMC Genomics. 2010. 11.

2011

“Salt adaptation in Acinetobacter baylyi: identification and characterization of a secondary glycine betaine transporter.”
  Sand, M., de Berardinis, V., Mingote, A., Santos, H., Gottig, S., Muller, V. and Averhoff, B.
  Arch Microbiol. 2011. 193, 723-30

“3-Keto-5-aminohexanoate cleavage enzyme: a common fold for an uncommon Claisen-type condensation.”
  Bellinzoni, M., Bastard, K., Perret, A., Zaparucha, A., Perchat, N., Vergne, C., Wagner, T., de Melo-Minardi, R.C., Artiguenave, F., Cohen, G.N. , Weissenbach J, Salanoubat M., Alzari P.
  J Biol Chem. 2011. 286, 27399-405.

“A novel acyl-CoA beta-transaminase characterized from a metagenome.”
  Perret, A., Lechaplais, C., Tricot, S., Perchat, N., Vergne, C., Pelle, C., Bastard, K., Kreimeyer, A., Vallenet, D., Zaparucha, A., Weissenbach J., Salanoubat M.
  PLoS One. 2011. 6, e22918.

2012

“Surface-associated motility, a common trait of clinical isolates of Acinetobacter baumannii, depends on 1,3-diaminopropane”
  Skiebe, E., de Berardinis, V., Morczinek, P., Kerrinnes, T., Faber, F., Lepka, D., Hammer, B., Zimmermann, O., Ziesing, S., Wichelhaus, T., Hunfeld, KP., Borgmann, S., Gröbner, S., Higgins, P., Seifert, H., Busse, HJ., Witte, W., Pfeifer, Y. and Wilharm, G.
  Int J Med Microbiol. 2012 Jul;302(3):117-28

“Prediction and identification of sequences coding for orphan enzymes using genomic and metagenomic neighbours.”
  Yamada, T., Waller, AS., Raes, J., Zelezniak, A., Perchat, N., Perret, A., Salanoubat, M., Patil, KR., Weissenbach, J., Bork, P.
  Mol Syst Biol. 2012 May 8;8:581