The outline of Escherichia coli K-12 W3110 and MGF-01 proteome
We have analyzed the proteome of Escherichia coli K-12 W3110 and reduced-genome strain MGF-01 grown under the M9-glucose medium in the following conditions.
1. Shotgun proteomics (SDS-PAGE in combination with LC-MS/MS)
- (1) Logarithmic phase
- (2) Early stationary phase
- (3) Late stationary phase
- (4) Death phase
2. Peptide Mass Fingerprinting (two-dimensional PAGE followed by MALDI-TOFMS)
- (1) Logarithmic phase
- (2) Early stationary phase
- (3) Late stationary phase
- (4) Death phase
3. N-terminal amino acid sequencing by the protein sequencer
The result of proteome analysis
The number of identified proteins in strain K-12 W3110 amounted to 1412, 1402, 1164 and 1037 in the logarithmic phase, the early stationary phase, the late stationary phase and death phase respectively. 1617 proteins were identified in total.
The number of identified proteins in strain MGF-01 amounted to 1053, 1204, 1087 and 1015 in the logarithmic phase, the early stationary phase, the late stationary phase and death phase respectively. 1368 proteins were identified in total.
In addition, we have also confirmed techniques for reviewing annotations from proteome analysis results. In recent years, such techniques have been termed proteogenomics.
The results of the proteome analysis are available to be downloaded from the DBRP (Data and Biological Resource Platform).
This study was presented to the following scientific conference.
- BMB2007 (2007.12)
- “Proteome Analysis for Precise Prediction of Protein Coding Regions”
- Keiko Nishijima, Jun Yamazaki, Miyako Mise, Hanako Ataku, Kazumi Sasaki, Syuji Yamazaki and Nobuyuki Fujita.
- 56th ASMS Conference (2008.6)
- “Protein Profiling of Escherichia coli Wild-Type Strain and Reduced-Genome Strain by Label-Free Quantitative Proteomics.”
- Hanako Ataku, Miyako Mise, Keiko Nishijima, Jun Yamazaki, Kazumi Sasaki, Syuji Yamazaki, Hideo Mori, Hiroshi Mizoguchi and Nobuyuki Fujita.
- Annual Meeting of Japan Society for Bioscience, Biotechnology, and Agrochemistry, 3P0972B (2009.3)
- “Proteome analysis of large-scale reduced-genome Escherichia coli strain K-12 W3110 and quantitative examination of metabolic changes.”
- Kazumi Sasaki, Keiko Nishijima, Miyako Mise, Hanako Ataku, Syuji Yamazaki, Jun Yamazaki, Hideo Mori, Hiroshi Mizoguchi and Nobuyuki Fujita,
This study was sponsored by New Energy and Industrial Technology Development Organization (NEDO).
Escherichia coli K-12 W3110 proteome data in DBRP
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- Biotechnology Evaluation and Development Division, Biological Resource Center, National Institute of Technology and Evaluation
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