Identification of lactoferricin B intracellular targets using an escherichia coli proteome chip

PLoS ONE

Volumn 6, Issue 12, 2011, Pages

  Tu, Yu Hsuan ^a   Ho, Yu Hsuan ^a   Chuang, Ying Chih ^b   Chen, Po Chung ^a   Chen, Chien Sheng ^a  

^a NATIONAL CENTRAL UNIVERSITY   (Taiwan)

^b NATIONAL TAIWAN OCEAN UNIVERSITY   (Taiwan)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; LACTOFERRICIN B; POLYPEPTIDE ANTIBIOTIC AGENT; PROTEOME; PYRUVIC ACID; ANTIINFECTIVE AGENT; ANTIMICROBIAL CATIONIC PEPTIDE; BIOTIN; ESCHERICHIA COLI PROTEIN; LACTOFERRIN; PEPTIDE;

ARTICLE; ASSAY; CITRIC ACID CYCLE; CONTROLLED STUDY; DATA BASE; DRUG MECHANISM; ESCHERICHIA COLI; FLUORESCENCE POLARIZATION; HIGH THROUGHPUT SCREENING; IN VIVO STUDY; METABOLISM; NONHUMAN; PROTEIN ANALYSIS; PROTEIN MICROARRAY; PROTEIN PROTEIN INTERACTION; PROTEIN TARGETING; BIOLOGICAL MODEL; BIOLOGY; BIOTINYLATION; CHEMISTRY; FLUORESCENCE MICROSCOPY; METHODOLOGY; MICROBIOLOGICAL EXAMINATION; PHYSIOLOGY; PROTEOMICS;

ANTI-INFECTIVE AGENTS; ANTIMICROBIAL CATIONIC PEPTIDES; BIOTIN; BIOTINYLATION; CITRIC ACID CYCLE; COMPUTATIONAL BIOLOGY; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; LACTOFERRIN; MICROBIAL SENSITIVITY TESTS; MICROSCOPY, FLUORESCENCE; MODELS, BIOLOGICAL; PEPTIDES; PROTEIN ARRAY ANALYSIS; PROTEOME; PROTEOMICS; PYRUVIC ACID;

EID: 82555168478     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0028197     Document Type: Article

References (37)

1. Brogden KA, (2005) Antimicrobial peptides: pore formers or metabolic inhibitors in bacteria? Nat Rev Microbiol 3: 238-250.
2. Cudic M, Otvos L, (2002) Intracellular targets of antibacterial peptides. Current Drug Targets 3: 101-106.
3. Hancock REW, Sahl HG, (2006) Antimicrobial and host-defense peptides as new anti-infective therapeutic strategies. Nature Biotechnology 24: 1551-1557.
4. Podda E, Benincasa M, Pacor S, Micali F, Mattiuzzo M, et al. (2006) Dual mode of action of Bac7, a proline-rich antibacterial peptide. Biochim Biophys Acta 1760: 1732-1740.
5. Hwang PM, Zhou N, Shan X, Arrowsmith CH, Vogel HJ, (1998) Three-dimensional solution structure of lactoferricin B, an antimicrobial peptide derived from bovine lactoferrin. Biochemistry 37: 4288-4298.
6. Haukland HH, Ulvatne H, Sandvik K, Vorland LH, (2001) The antimicrobial peptides lactoferricin B and magainin 2 cross over the bacterial cytoplasmic membrane and reside in the cytoplasm. Febs Letters 508: 389-393.
7. Ulvatne H, Samuelsen O, Haukland HH, Kramer M, Vorland LH, (2004) Lactoferricin B inhibits bacterial macromolecular synthesis in Escherichia coli and Bacillus subtilis. Fems Microbiology Letters 237: 377-384.
8. Zhu H, Bilgin M, Bangham R, Hall D, Casamayor A, et al. (2001) Global analysis of protein activities using proteome chips. Science 293: 2101-2105.
9. Chen CS, Korobkova E, Chen H, Zhu J, Jian X, et al. (2008) A proteome chip approach reveals new DNA damage recognition activities in Escherichia coli. Nature Methods 5: 69-74.
10. Chen CS, Zhu H, (2006) Protein microarrays. Biotechniques 40: 423-429.
11. Chandra H, Reddy PJ, Srivastava S, (2011) Protein microarrays and novel detection platforms. Expert Rev Proteomics 8: 61-79.
12. Yang L, Guo S, Li Y, Zhou S, Tao S, (2011) Protein microarrays for systems biology. Acta Biochim Biophys Sin (Shanghai) 43: 161-171.
13. Beranova-Giorgianni S, (2003) Proteome analysis by two-dimensional gel electrophoresis and mass spectrometry: strengths and limitations. Trac-Trends in Analytical Chemistry 22: 273-281.
14. Lueking A, Possling A, Huber O, Beveridge A, Horn M, et al. (2003) A nonredundant human protein chip for antibody screening and serum profiling. Molecular & Cellular Proteomics 2: 1342-1349.
15. Chen CS, Sullivan S, Anderson T, Tan AC, Alex PJ, et al. (2009) Identification of Novel Serological Biomarkers for Inflammatory Bowel Disease Using Escherichia coli Proteome Chip. Molecular & Cellular Proteomics 8: 1765-1776.
16. Thao S, Chen CS, Zhu H, Escalante-Semerena JC, (2010) Nepsilon-lysine acetylation of a bacterial transcription factor inhibits Its DNA-binding activity. PLoS One 5: e15123.
17. Zhu X, Gerstein M, Snyder M, (2006) ProCAT: a data analysis approach for protein microarrays. Genome Biol 7: R110.
18. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25: 25-29.
19. Maere S, Heymans K, Kuiper M, (2005) BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics 21: 3448-3449.
20. Lundblad JR, Laurance M, Goodman RH, (1996) Fluorescence polarization analysis of protein-DNA and protein-protein interactions. Mol Endocrinol 10: 607-612.
21. Parker GJ, Law TL, Lenoch FJ, Bolger RE, (2000) Development of high throughput screening assays using fluorescence polarization: nuclear receptor-ligand-binding and kinase/phosphatase assays. J Biomol Screen 5: 77-88.
22. Allen M, Reeves J, Mellor G, (2000) High throughput fluorescence polarization: a homogeneous alternative to radioligand binding for cell surface receptors. J Biomol Screen 5: 63-69.
23. Moerke NJ, (2009) Fluorescence Polarization (FP) Assays for Monitoring Peptide-Protein or Nucleic Acid-Protein Binding: John Wiley & Sons, Inc.
24. Jameson DM, Seifried SE, (1999) Quantification of protein-protein interactions using fluorescence polarization. Methods-a Companion to Methods in Enzymology 19: 222-233.
25. Andres Leon E, Ezkurdia I, Garcia B, Valencia A, Juan D, (2009) EcID. A database for the inference of functional interactions in E. coli. Nucleic Acids Res 37: D629-635.
26. Zhu J, Shimizu K, (2005) Effect of a single-gene knockout on the metabolic regulation in Escherichia coli for D-lactate production under microaerobic condition. Metab Eng 7: 104-115.
27. Phue JN, Noronha SB, Bhattacharyya R, Wolfe AJ, Shiloach J, (2005) Glucose metabolism at high density growth of E. coli B and E. coli K: Differences in metabolic pathways are responsible for efficient glucose utilization in E. coli B as determined by microarrays and northern blot analyses (vol 90, pg 805, 2005). Biotechnology and Bioengineering 91: 649-649.
28. Webb M, (1968) Pyruvate accumulation in growth-inhibited cultures of Aerobacter aerogenes. Biochem J 106: 375-380.
29. Knight SM, Umezawa N, Lee HS, Gellman SH, Kay BK, (2002) A fluorescence polarization assay for the identification of inhibitors of the p53-DM2 protein-protein interaction. Analytical Biochemistry 300: 230-236.
30. Jordan A, Pontis E, Atta M, Krook M, Gibert I, et al. (1994) A second class I ribonucleotide reductase in Enterobacteriaceae: characterization of the Salmonella typhimurium enzyme. Proc Natl Acad Sci U S A 91: 12892-12896.
31. Boal AK, Cotruvo JA Jr, Stubbe J, Rosenzweig AC, (2010) Structural basis for activation of class Ib ribonucleotide reductase. Science 329: 1526-1530.
32. Kolberg M, Strand KR, Graff P, Andersson KK, (2004) Structure, function, and mechanism of ribonucleotide reductases. Biochimica Et Biophysica Acta 1699: 1-34.
33. Nordlund P, Sjoberg BM, Eklund H, (1990) Three-dimensional structure of the free radical protein of ribonucleotide reductase. Nature 345: 593-598.
34. Zhu J, Shimizu K, (2004) The effect of pfl gene knockout on the metabolism for optically pure D-lactate production by Escherichia coli. Appl Microbiol Biotechnol 64: 367-375.
35. Saka K, Tadenuma M, Nakade S, Tanaka N, Sugawara H, et al. (2005) A complete set of Escherichia coli open reading frames in mobile plasmids facilitating genetic studies. DNA Res 12: 63-68.
36. Cline MS, Smoot M, Cerami E, Kuchinsky A, Landys N, et al. (2007) Integration of biological networks and gene expression data using Cytoscape. Nature Protocols 2: 2366-2382.
37. Canelas AB, ten Pierick A, Ras C, Seifar RM, van Dam JC, et al. (2009) Quantitative evaluation of intracellular metabolite extraction techniques for yeast metabolomics. Anal Chem 81: 7379-7389.