A proteomic view of probiotic Lactobacillus rhamnosus GG

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LIST OF ABBREVIATIONS 2-D DIGE two-dimensional diff erence gel electrophoresis 2-D GE two-dimensional gel electrophoresis ABC ATP-binding cassette CXC cation exchange chromatography DTT dithiothreitol EPS exopolysaccharide GIT gastro-intestinal tract IEF isoelectric focusing IPG immobilized pH gradient LC liquid chromatography MALDI matrix-assisted laser desorption/ionization MRS de Man – Rogosa – Sharpe MS mass spectrometry MudPIT multidimensional protein identifi cation technology ORF open reading frame pI isoelectric point PMF peptide mass fi ngerprinting SDS-PAGE sodium dodecyl sulfate polyacrylamide gel electrophoresis SILAC stable isotope labeling of amino acids in cell cultures TOF time of fl ight
LIST OF ORIGINAL PUBLICATIONS I Koskenniemi K., Koponen J., Kankainen M., Savijoki K., Tynkkynen S., de Vos W. M., Kalkkinen N., Varmanen P. (2009) Proteome analysis of Lactobacillus rhamnosus GG using 2-D DIGE and mass spectrometry shows diff erential protein production in laboratory and industrial-type growth media. Journal of Proteome Research 8 (11): 4993–5007. II Laakso K., Koskenniemi K., Koponen J., Kankainen M., Surakka A., Salusjärvi T., Auvinen P., Savijoki K., Nyman T. A., Kalkkinen N., Tynkkynen S., Varmanen P. (2011) Growth phase-associated changes in the proteome and transcriptome of Lactobacillus rhamnosus GG in industrial-type whey medium. Microbial Biotechnology 4 (6): 746–766. III Koskenniemi K., Laakso K., Koponen J., Kankainen M., Greco D., Auvinen P., Savijoki K., Nyman T. A., Surakka A., Salusjärvi T., de Vos W. M., Tynkkynen S., Kalkkinen N., Varmanen P. (2011) Proteomics and transcriptomics characterization of bile stress response in probiotic Lactobacillus rhamnosus GG. Molecular & Cellular Proteomics 10 (2): M110.002741. IV Koponen J., Laakso K., Koskenniemi K., Kankainen M., Savijoki K., Nyman T. A., de Vos W. M., Tynkkynen S., Kalkkinen N., Varmanen P. (2011) Eff ect of acid stress on protein expression and phosphorylation in Lactobacillus rhamnosus GG. Journal of Proteomics doi:10.1016/j.jprot.2011.11.009. Th e original articles were reprinted with the permission of the original copyright holders.
Page 1 and 2: Department of Veterinary Bioscience
Page 4 and 5: CONTENTS Abstract List of abbreviat
Page 6 and 7: ABSTRACT Lactobacillus rhamnosus GG
Page 11 and 12: 1. REVIEW OF THE LITERATURE 1.1. Pr
Page 13 and 14: ingestion of Lactobacillus gasseri
Page 15 and 16: 1.1.3. Bifi dobacteria and propioni
Page 17 and 18: Table 1. Proteomic studies of probi
Page 19 and 20: Topic Separation and detection meth
Page 21 and 22: 1.3.1.2. Comparison of growth phase
Page 23 and 24: ecause of the complex nutrient requ
Page 25 and 26: Bile stress Acid stress Heat stress
Page 31 and 32: on the metabolic processes of probi
Page 33 and 34: esistant mutant strain was also abl
Page 35 and 36: Glyceraldehyde-3-phosphate dehydrog
Page 37 and 38: nine proteins that are potentially
Page 39 and 40: down-regulated the chemotaxis syste
Page 41 and 42: 3. MATERIALS AND METHODS All materi
Page 43 and 44: μg of RNA was reverse transcribed
Page 45 and 46: L. rhamnosus GG in MRS medium, and
Page 47 and 48: (EPS) biosynthesis and D-alanylatio
Page 49 and 50: that exports protons from the cell
Page 51 and 52: Results and Discussion 41
Page 53 and 54: 5. CONCLUDING REMARKS AND FUTURE PR
Page 55 and 56: 6. ACKNOWLEDGEMENTS Acknowledgement
Page 57 and 58: Castaldo C., Vastano V., Siciliano
Page 59 and 60:
Hickson M., D’Souza A. L., Muthu
Page 61 and 62:
Lee K. & Pi K. (2010) Effect of tra
Page 63 and 64:
Adaptation and response of Bifidoba
Page 65:
Wu R., Wang W., Yu D., Zhang W., Li
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A proteomic view of probiotic Lactobacillus rhamnosus GG

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