Extracellular protein analysis of activated sludge and their functions in wastewater treatment plant by shotgun proteomics

Scientific Reports

Volumn 5, Issue , 2015, Pages

  Zhang, Peng ^a   Shen, Yu ^b   Guo, Jin Song ^a,b   Li, Chun ^a   Wang, Han ^a   Chen, You Peng ^a,b   Yan, Peng ^b   Yang, Ji Xiang ^b   Fang, Fang ^a  

^a CHONGQING UNIVERSITY   (China)

^b Chinese Academy of Sciences   (China)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; PROTEOME; SEWAGE;

AEROBIC METABOLISM; ANAEROBIC GROWTH; BACTERIUM; BIOREACTOR; CHEMISTRY; DNA SEQUENCE; GENETICS; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; INFRARED SPECTROSCOPY; ISOELECTRIC POINT; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; MOLECULAR WEIGHT; PROTEOMICS; SEWAGE; TANDEM MASS SPECTROMETRY;

AEROBIOSIS; ANAEROBIOSIS; BACTERIA; BACTERIAL PROTEINS; BIOREACTORS; CHROMATOGRAPHY, HIGH PRESSURE LIQUID; ISOELECTRIC POINT; MOLECULAR WEIGHT; PROTEOME; PROTEOMICS; SEQUENCE ANALYSIS, DNA; SEWAGE; SPECTROSCOPY, FOURIER TRANSFORM INFRARED; TANDEM MASS SPECTROMETRY; WASTE DISPOSAL, FLUID;

EID: 84936993741     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep12041     Document Type: Article

References (37)

1. Toyofuku, M., Roschitzki, B., Riedel, K. & Eberl, L. Identification of proteins associated with the Pseudomonas aeruginosa biofilm extracellular matrix. J. Proteome Res. 11, 4906-4915 (2012).
2. Flemming, H. & Wingender, J. The biofilm matrix. Nat. Rev. Microbiol. 8, 623-633 (2010).
3. Zhang, L. L., Feng, X. X., Zhu, N. W. & Chen, J. M. Role of extracellular protein in the formation and stability of aerobic granules. Enzyme Microbiol. Technol. 41, 551-557 (2007).
4. Lv, J. P. et al. The effect of quorum sensing and extracellular proteins on the microbial attachment of aerobic granular activated sludge. Bioresource Technol. 152, 53-58 (2014).
5. Moreau, J. W. et al. Extracellular proteins limit the dispersal of biogenic nanoparticles. Science. 316, 1600-1603 (2007).
6. Wang, Z. K., Hessler, C. M., Xue, Z. & Seo, Y. The role of extracellular polymeric substances on the sorption of natural organic matter. Water Res. 46, 1052-1060 (2012).
7. Guibaud, G., Tixier, N., Bouju, A. & Baudu, M. Relation between extracellular polymers' composition and its ability to complex Cd, Cu and Pb. Chemosphere. 52, 1701-1710 (2003).
8. Park, C., Novak, J. T., Helm, R. F., Ahn, Y. & Esen, A. Evaluation of the extracellular proteins in full-scale activated sludges. Water Res. 42, 3879-3889 (2008).
9. Silva, A. F., Carvalho, G., Soares, R., Coelho, A. V. & Barreto Crespo, M. T. Step-by-step strategy for protein enrichment and proteome characterisation of extracellular polymeric substances in wastewater treatment systems. Appl Microbiol. Biotechnol. 95, 767-776 (2012).
10. Zhang, Y. Y., Fonslow, B. R., Shan, B., Baek, M. C. & Yates, J. R. Protein analysis by shotgun/bottom-up proteomics. Chem. Rev. 113, 2343-2394 (2013).
11. Sugahara, D., Kaji, H., Sugihara, K., Asano, M. & Narimatsu, H. Large-scale identification of target proteins of a glycosyltransferase isozyme by lectin-IGOT-LC/MS, an LC/MS-based glycoproteomic approach. Sci Rep-UK. 2, 1-8 (2012).
12. Kragelund, C., Thomsen, T. R., Mielczarek, A. T. & Nielsen, P. H. Eikelboom's morphotype 0803 in activated sludge belongs to the genus Caldilinea in the phylum Chloroflexi. FEMS Microbiol. Ecol. 76, 451-462 (2011).
13. Maquelin, K. et al. Identification of medically relevant microorganisms by vibrational spectroscopy. J. Microbiol. Meth. 51, 255-271 (2002).
14. Badireddy, A. R. et al. Role of extracellular polymeric substances in bioflocculation of activated sludge microorganisms under glucose-controlled conditions. Water Res. 44, 4505-4516 (2010).
15. Fang, L. C., Cao, Y. Y., Huang, Q. Y., Walker, S. L. & Cai, P. Reactions between bacterial exopolymers and goethite: A combined macroscopic and spectroscopic investigation. Water Res. 46, 5613-5620 (2012).
16. Lee, B., Shin, H. & Hur, J. Comparison of the characteristics of extracellular polymeric substances for two different extraction methods and sludge formation conditions. Chemosphere. 90, 237-244 (2013).
17. Yu, G. H., He, P. J. & Shao, L. M. Characteristics of extracellular polymeric substances (EPS) fractions from excess sludges and their effects on bioflocculability. Bioresource Technol. 100, 3193-3198 (2009).
18. Ashburner, M. et al. Gene ontology: Tool for the unification of biology. Nat. Genet. 25, 25-29 (2000).
19. Jia, C. Y. et al. Degradation of pyrene in soils by extracellular polymeric substances (EPS) extracted from liquid cultures. Process Biochem. 46, 1627-1631 (2011).
20. Wang, J. et al. Enhanced biotransformation of nitrobenzene by the synergies of Shewanella species and mediator-functionalized polyurethane foam. J. Hazard Mater. 252, 227-232 (2013).
21. He, J. G. et al. Performance of the lysozyme for promoting the waste activated sludge biodegradability. Bioresource Technol. 170, 108-114 (2014).
22. Kim, H. et al. Hydrolytic activities of extracellular enzymes in thermophilic and mesophilic anaerobic sequencing-batch reactors treating organic fractions of municipal solid wastes. Bioresource Technol. 110, 130-134 (2012).
23. Gao, J. F. et al. Contributions of functional groups and extracellular polymeric substances on the biosorption of dyes by aerobic granules. Bioresource Technol. 102, 805-813 (2011).
24. Mikutta, R., Baumgaertner, A., Schippers, A., Haumaier, L. & Guggenberger, G. Extracellular polymeric substances from Bacillus Subtilis associated with minerals modify the extent and rate of heavy metal sorption. Environ. Sci. Technol. 46, 3866-3873 (2012).
25. Xu, J., Sheng, G. P., Ma, Y., Wang, L. F. & Yu, H. Q. Roles of extracellular polymeric substances (EPS) in the migration and removal of sulfamethazine in activated sludge system. Water Res. 47, 5298-5306 (2013).
26. Luo, H. W. et al. Experimental and theoretical approaches for the surface interaction between copper and activated sludge microorganisms at molecular scale. Sci Rep-UK. 4, 1-7 (2014).
27. Wilen, B. M. & Balmer, P. The effect of dissolved oxygen concentration on the structure, size and size distribution of activated sludge flocs. Water Res. 33, 391-400 (1999).
28. Liu, X. M. et al. Contribution of extracellular polymeric substances (EPS) to the sludge aggregation. Environ. Sci. Technol. 44, 4355-4360 (2010).
29. Wilen, B. M., Keiding, K. & Nielsen, P. H. Anaerobic deflocculation and aerobic reflocculation of activated sludge. Water Res. 34, 3933-3942 (2000).
30. Guo, L. et al. Three-dimensional fluorescence excitation-emission matrix (EEM) spectroscopy with regional integration analysis for assessing waste sludge hydrolysis treated with multi-enzyme and thermophilic bacteria. Bioresource Technol. 171, 22-28 (2014).
31. Sheng, G. P., Yu, H. Q. & Li, X. Y. Extracellular polymeric substances (EPS) of microbial aggregates in biological wastewater treatment systems: A review. Biotechnol Adv. 28, 882-894 (2010).
32. Yu, S. Y., Zhang, G. M., Li, J. Z., Zhao, Z. W. & Kang, X. R. Effect of endogenous hydrolytic enzymes pretreatment on the anaerobic digestion of sludge. Bioresource Technol. 146, 758-761 (2013).
33. Wisniewski, J. R., Zougman, A., Nagaraj, N. & Mann, M. Universal sample preparation method for proteome analysis. Nat. Methods. 6, 359-360 (2009).
34. Washburn, M. P., Wolters, D. & Yates, J. R. Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat. Biotechnol. 19, 242-247 (2001).
35. Hansen, S. H., Stensballe, A., Nielsen, P. H. & Herbst, F. Metaproteomics: Evaluation of protein extraction from activated sludge. Proteomics. 14, 2535-2539 (2014).
36. Liu, J. S., Zheng, S. C., Liu, L., Li, L. & Feng, Q. L. Protein profiles of the midgut of Spodoptera litura larvae at the sixth instar feeding stage by shotgun ESI-MS approach. J. Proteome Res. 9, 2117-2147 (2010).
37. Gupta, N. & Pevzner, P. A. False discovery rates of protein identifications: A strike against the two-peptide rule. J. Proteome Res. 8, 4173-4181 (2009).