Genome-enabled determination of amino acid biosynthesis in Xanthomonas campestris pv. campestris and identification of biosynthetic pathways for alanine, glycine, and isoleucine by 13C-isotopologue profiling

Schatschneider S, Vorhölter F-J, Rückert C, Becker A, Eisenreich W, Pühler A, Niehaus K (2011)
Molecular Genetics and Genomics 286(3-4): 247-259.

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Abstract / Bemerkung
To elucidate the biosynthetic pathways for all proteinogenic amino acids in Xanthomonas campestris pv. campestris, this study combines results obtained by in silico genome analysis and by 13C-NMR-based isotopologue profiling to provide a panoramic view on a substantial section of bacterial metabolism. Initially, biosynthesis pathways were reconstructed from an improved annotation of the complete genome of X. campestris pv. campestris B100. This metabolic reconstruction resulted in the unequivocal identification of biosynthesis routes for 17 amino acids in total: arginine, asparagine, aspartate, cysteine, glutamate, glutamine, histidine, leucine, lysine, methionine, phenylalanine, proline, serine, threonine, tryptophan, tyrosine, and valine. Ambiguous pathways were reconstructed from the genome data for alanine, glycine, and isoleucine biosynthesis. 13C-NMR analyses supported the identification of the metabolically active pathways. The biosynthetic routes for these amino acids were derived from the precursor molecules pyruvate, serine, and pyruvate, respectively. By combining genome analysis and isotopologue profiling, a comprehensive set of biosynthetic pathways covering all proteinogenic amino acids was unraveled for this plant pathogenic bacterium, which plays an important role in biotechnology as a producer of the exopolysaccharide xanthan. The data obtained lay ground for subsequent functional analyses in post-genomics and biotechnology, while the innovative combination of in silico and wet lab technology described here is promising as a general approach to elucidate metabolic pathways.
Stichworte
Amino acids biosynthesis; NMR; Bacteria; 13C-labeling; Metabolic reconstruction; Xanthomonas campestris pv. campestris
Erscheinungsjahr
2011
Zeitschriftentitel
Molecular Genetics and Genomics
Band
286
Ausgabe
3-4
Seite(n)
247-259
ISSN
1617-4615
eISSN
1617-4623
Page URI
https://pub.uni-bielefeld.de/record/2404874

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Schatschneider S, Vorhölter F-J, Rückert C, et al. Genome-enabled determination of amino acid biosynthesis in Xanthomonas campestris pv. campestris and identification of biosynthetic pathways for alanine, glycine, and isoleucine by 13C-isotopologue profiling. Molecular Genetics and Genomics. 2011;286(3-4):247-259.
Schatschneider, S., Vorhölter, F. - J., Rückert, C., Becker, A., Eisenreich, W., Pühler, A., & Niehaus, K. (2011). Genome-enabled determination of amino acid biosynthesis in Xanthomonas campestris pv. campestris and identification of biosynthetic pathways for alanine, glycine, and isoleucine by 13C-isotopologue profiling. Molecular Genetics and Genomics, 286(3-4), 247-259. https://doi.org/10.1007/s00438-011-0639-7
Schatschneider, Sarah, Vorhölter, Frank-Jörg, Rückert, Christian, Becker, Anke, Eisenreich, Wolfgang, Pühler, Alfred, and Niehaus, Karsten. 2011. “Genome-enabled determination of amino acid biosynthesis in Xanthomonas campestris pv. campestris and identification of biosynthetic pathways for alanine, glycine, and isoleucine by 13C-isotopologue profiling”. Molecular Genetics and Genomics 286 (3-4): 247-259.
Schatschneider, S., Vorhölter, F. - J., Rückert, C., Becker, A., Eisenreich, W., Pühler, A., and Niehaus, K. (2011). Genome-enabled determination of amino acid biosynthesis in Xanthomonas campestris pv. campestris and identification of biosynthetic pathways for alanine, glycine, and isoleucine by 13C-isotopologue profiling. Molecular Genetics and Genomics 286, 247-259.
Schatschneider, S., et al., 2011. Genome-enabled determination of amino acid biosynthesis in Xanthomonas campestris pv. campestris and identification of biosynthetic pathways for alanine, glycine, and isoleucine by 13C-isotopologue profiling. Molecular Genetics and Genomics, 286(3-4), p 247-259.
S. Schatschneider, et al., “Genome-enabled determination of amino acid biosynthesis in Xanthomonas campestris pv. campestris and identification of biosynthetic pathways for alanine, glycine, and isoleucine by 13C-isotopologue profiling”, Molecular Genetics and Genomics, vol. 286, 2011, pp. 247-259.
Schatschneider, S., Vorhölter, F.-J., Rückert, C., Becker, A., Eisenreich, W., Pühler, A., Niehaus, K.: Genome-enabled determination of amino acid biosynthesis in Xanthomonas campestris pv. campestris and identification of biosynthetic pathways for alanine, glycine, and isoleucine by 13C-isotopologue profiling. Molecular Genetics and Genomics. 286, 247-259 (2011).
Schatschneider, Sarah, Vorhölter, Frank-Jörg, Rückert, Christian, Becker, Anke, Eisenreich, Wolfgang, Pühler, Alfred, and Niehaus, Karsten. “Genome-enabled determination of amino acid biosynthesis in Xanthomonas campestris pv. campestris and identification of biosynthetic pathways for alanine, glycine, and isoleucine by 13C-isotopologue profiling”. Molecular Genetics and Genomics 286.3-4 (2011): 247-259.

11 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Refined annotation of the complete genome of the phytopathogenic and xanthan producing Xanthomonas campestris pv. campestris strain B100 based on RNA sequence data.
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Schatschneider S, Schneider J, Blom J, Létisse F, Niehaus K, Goesmann A, Vorhölter FJ., Microbiology 163(8), 2017
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Vandroemme J, Cottyn B, Baeyen S, De Vos P, Maes M., BMC Genomics 14(), 2013
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