Global gene expression profiling of wild type and lysC knockout Escherichia coli W3110

FEMS Microbiology Letters

Volumn 276, Issue 2, 2007, Pages 202-206

  Liu, Daniel Yuen Teh ^a   Liu, Chia Hsin ^a   Lai, Ming Tsong ^a   Lin, Hua Kuo ^a   Hseu, Tzong Hsiung ^a  

^a NATIONAL TSING HUA UNIVERSITY   (Taiwan)

Author keywords

Escherichia coli; Gene knockout; lysC; Lysine starvation; Microarray

Indexed keywords

2 OXOGLUTARIC ACID; GLUTAMIC ACID; LYSINE; OXALOACETIC ACID;

ALPHA KETOGLUTARATE GENE; ARTICLE; BACTERIAL GENE; BIOSYNTHESIS; CONTROLLED STUDY; ESCHERICHIA COLI; GENE; GENE EXPRESSION; GENE EXPRESSION PROFILING; GLUTAMATE GENE; LYSC GENE; LYSINE GENE; NONHUMAN; OXALOACETATE GENE; PRIORITY JOURNAL; WILD TYPE;

ASPARTATE KINASE; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; GENE DELETION; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, BACTERIAL; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS;

ESCHERICHIA COLI;

EID: 35448950562     PISSN: 03781097     EISSN: 15746968     Source Type: Journal    
DOI: 10.1111/j.1574-6968.2007.00932.x     Document Type: Article

References (22)

1. Benjamini Y Hochberg Y (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc B 57 : 289 300.
2. Bouvier J, Richaud C, Higgins W, Bogler O Stragier P (1992) Cloning, characterization, and expression of the dapE gene of Escherichia coli. J Bacteriol 174 : 5265 5271.
3. Chuang S-E, Burland V, Plunkett G, Daniels DL Blattner FR (1993a) Sequence analysis of four new heat-shock genes constituting the hslTS/ibpAB and hslVU operons in Escherichia coli. Gene 134 : 1 6.
4. Chuang SE, Daniels DL Blattner FR (1993b) Global regulation of gene expression in Escherichia coli. J Bacteriol 175 : 2026 2036.
5. Cohen GN Saint-Girons I (1987) Biosynthesis of threonine, lysine, methionine. Escherichia coli and Salmonella typhimurium, Cellular and Molecular Biology, Vol. 1 Ingraham JL, Brooks Low K, Magasanik B, Schaechter M Umbarger HE, eds), pp. 429 444. American Society for Microbiology, Washington, DC.
6. Datsenko KA Wanner BL (2000) One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc Natl Acad Sci USA 97 : 6640 6645.
7. Ernst J Bar-Joseph Z (2006) STEM: a tool for the analysis of short time series gene expression data. BMC Bioinform 7 : 191.
8. Grundy FJ, Lehman SC Henkin TM (2003) The L box regulon: lysine sensing by leader RNAs of bacterial lysine biosynthesis genes. Proc Natl Acad Sci USA 100 : 12057 12062.
9. Hayashi M, Ohnishi J, Mitsuhashi S, Yonetani Y, Hashimoto S Ikeda M (2006) Transcriptome analysis reveals global expression changes in an industrial l-lysine producer of Corynebacterium glutamicum. Biosci Biotechnol Biochem 70 : 546 550.
10. Helling RB (1994) Why does Escherichia coli have two primary pathways for synthesis of glutamate? J Bacteriol 176 : 4664 4668.
11. Jack DL, Paulsen IT Saier MH (2000) The amino acid/polyamine/organocation (APC) superfamily of transporters specific for amino acids, polyamines and organocations. Microbiology 146 : (Part 8) : 1797 1814.
12. Keseler IM, Collado-Vides J, Gama-Castro S et al 2005) EcoCyc: a comprehensive database resource for Escherichia coli. Nucleic Acids Res 33 : D334 D337.
13. Kuczynska-Wisnik D, Laskowska E Taylor A (2001) Transcription of the ibpB heat-shock gene is under control of sigma(32)- and sigma(54)-promoters, a third regulon of heat-shock response. Biochem Biophys Res Commun 284 : 57 64.
14. Lee JH, Lee DE, Lee BU Kim HS (2003) Global analyses of transcriptomes and proteomes of a parent strain and an l-threonine-overproducing mutant strain. J Bacteriol 185 : 5442 5451.
15. Ling M, Allen SW Wood JM (1994) Sequence analysis identifies the proline dehydrogenase and delta. J Mol Biol 243 : 950 956.
16. Mazat JP Patte JC (1976) Lysine-sensitive aspartokinase of Escherichia coli K12. Synergy and autosynergy in an allosteric V system. Biochemistry 15 : 4053 4058.
17. Murphy KC (1998) Use of bacteriophage lambda recombination functions to promote gene replacement in Escherichia coli. J Bacteriol 180 : 2063 2071.
18. Nikaido H Vaara M (1985) Molecular basis of bacterial outer membrane permeability. Microbiol Rev 49 : 1 32.
19. Richaud C, Richaud F, Martin C, Haziza C Patte JC (1984) Regulation of expression and nucleotide sequence of the Escherichia coli dapD gene. J Biol Chem 259 : 14824 14828.
20. Steffes C, Ellis J, Wu J Rosen BP (1992) The lysP gene encodes the lysine-specific permease. J Bacteriol 174 : 3242 3249.
21. Wallace B, Yang YJ, Hong JS Lum D (1990) Cloning and sequencing of a gene encoding a glutamate and aspartate carrier of Escherichia coli K-12. J Bacteriol 172 : 3214 3220.
22. Wettenhall JM Smyth GK (2004) limmaGUI: a graphical user interface for linear modeling of microarray data. Bioinformatics 20 : 3705 3706.