PCR-RFLP analysis of the diversity of phytate-degrading bacteria in the tibetan plateau

Canadian Journal of Microbiology

Volumn 59, Issue 4, 2013, Pages 245-251

  Miao, Yu Zhi ^a,b   Xu, Hui ^b   Fei, Bao Jin ^b   Qiao, Dai Rong ^b   Cao, Yi ^b  

^a SICHUAN NORMAL UNIVERSITY   (China)

^b SICHUAN UNIVERSITY   (China)

Author keywords

Diversity; PCR RFLP; Phytate degrading bacteria; Tibetan plateau

Indexed keywords

PHYTASE; PHYTATE; SODIUM CHLORIDE;

AGRICULTURAL LAND; BACTERIUM; BIOTECHNOLOGY; GARDEN; MICROBIAL COMMUNITY; PH; PHOSPHATASE; PHOSPHORUS; POLYMERASE CHAIN REACTION; SALINE SOIL; SOIL MICROORGANISM; SPECIES DIVERSITY; THERMAL SPRING; WETLAND;

AGRICULTURAL LAND; ARTICLE; BACILLACEAE; BACILLUS LICHENIFORMIS; BACILLUS SUBTILIS; BACTERIAL STRAIN; BACTERIUM; BACTERIUM ISOLATE; BACTERIUM ISOLATION; ENDOPHYTIC BACTERIUM; ENTEROBACTER CLOACAE; ENVIRONMENTAL FACTOR; ENZYME ACTIVITY; ENZYME ASSAY; ENZYME SYNTHESIS; HABITAT; KLEBSIELLA; MICROBIAL DIVERSITY; NONHUMAN; NUCLEOTIDE SEQUENCE; PH; PHYTATE DEGRADING BACTERIA; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; SCREENING TEST; SHIGELLA DYSENTERIAE; SOIL; SOIL ANALYSIS; SPECIES IDENTIFICATION; SPRING; TEMPERATURE RELATED PHENOMENA; THERMAL SPRING; THERMOSTABILITY; WETLAND; YERSINIA ENTEROCOLITICA;

6-PHYTASE; BACTERIA; ECOSYSTEM; KLEBSIELLA; PHYLOGENY; PHYTIC ACID; POLYMERASE CHAIN REACTION; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; SOIL MICROBIOLOGY;

CHINA; QINGHAI-XIZANG PLATEAU;

BACILLACEAE; BACTERIA (MICROORGANISMS); KLEBSIELLA SP.; SHIGELLA DYSENTERIAE; UNCULTURED ENTEROCOCCUS SP.;

EID: 84876256951     PISSN: 00084166     EISSN: 14803275     Source Type: Journal    
DOI: 10.1139/cjm-2012-0752     Document Type: Article

References (26)

1. Fajardo, V., Gonzalez, I., Dooley, J., Garret, S., Brown, H.M., and Garcia, T. 2009. Application of polymerase chain reaction-restriction fragment length polymorphism analysis and lab-on-a-chip capillary electrophoresis for the specific identification of game and domestic meats. J. Sci. Food Agr. 89(5): 843-847. doi:10.1002/jsfa.3522.
2. Garbeva, P., van Veen, J.A., and van Elsas, J.D. 2003. Predominant Bacillus spp. In agricultural soil under different management regimes detected via PCR- DGGE. Microb. Ecol. 45(3): 302-316. doi:10.1007/s00248-002-2034-8. PMID:12632212.
3. Girish, P.S., Anjaneyulu, A.S.R., Viswas, K.N., Santhosh, F.H., Bhilegaonkar, K.N., and Agarwal, R.K. 2007. Polymerase chain reaction-restriction fragment length polymorphism of mitochondrial 12S rRNA gene: a simple method for identification of poultry meat species. Vet. Res. Commun. 31(4): 447-455. doi:10.1007/s11259-006-3390-5. PMID:17253115.
4. Golovan, S., Wang, G., Zhang, J., and Forsberg, C.W. 2000. Characterization and overproduction of the Escherichia coli appA encoded bifunctional enzyme that exhibits both phytase and acid phosphatase activities. Can. J. Microbiol. 46(1): 59-71. doi:10.1139/w99-084. PMID:10696472.
5. Haefner, S., Knietsch, A., Scholten, E., Braun, J., Lohscheidt, M., and Zelder, O. 2005. Biotechnological production and applications of phytases. Appl. Microbiol. Biotechnol. 68(5): 588-597. doi:10.1007/s00253-005-0005-y.PMID:16041577.
6. Heinonen, J.K., and Lahti, R.J.A. 1980. New and convenient calorimetric determination of inorganic orthophosphate and its application to the assay of inorganic pyrophosphatase. Anal. Biochem. 113(2): 313-317. doi:10.1016/0003-2697(81)90082-8. PMID:6116463.
7. Howson, S.J., and Davis, R.P. 1983. Production of phytate-hydrolyzing enzyme by some fungi. Enzyme Microb. Technol. 5: 377-382. doi:10.1016/0141-0229(83) 90012-1.
8. Hsieh, H.S., Chai, T.J., and Hwang, D.F. 2007. Using the PCR-RFLP method to identify the species of different processed products of billfish meats. Food Control, 18(4): 369-374. doi:10.1016/j.foodcont.2005.11.002.
9. Huang, H., Luo, H., Yang, P., Meng, K., Wang, Y., Yuan, T., Bai, Y., and Yao, B. 2006. A novel phytase with preferable characteristics from Yersinia intermedia. Biochem. Biophys. Res. Commun. 350(4): 884-889. doi:10.1016/j.bbrc.2006.09. 118. PMID:17034758.
10. In, M.J., Seo, S.W., Dong, S.W., Kim, C., and Oh, N.S. 2009. Purification and biochemical properties of an extracellular acid phytase produced by the Saccharomyces cerevisiae CY strain. Process Biochem. 44(1): 122-126. doi:10.1016/j.procbio.2008.10.006.
11. Kim, O.K., Lee, J.K., Kim, H.K., Yu, J.H., and Oh, T.K. 1998. Cloning of the thermostable phytase gene (phy) from Bacillus sp. DS11 and its over-expression in Escherichia coli. FEMS Microbiol. Lett. 162(1): 185-191. doi:10.1111/j.1574-6968. 1998.tb12997.x. PMID:9595681.
12. Marsh, T.L. 1999. Terminal restriction fragment length polymorphism (T-RFLP): an emerging method for characterizing diversity among homologous populations of amplification products. Curr. Opin. Microbiol. 2(3): 323-327. doi:10.1016/S1369-5274(99)80056-3. PMID:10383864.
13. Mochizuki, T., Tanabea, H., Masako Kawasaki, M., Ishizaki, H., Colin, J., and Jacksonb, C.J. 2003. Rapid identification of Trichophyton tonsurans by PCR- RFLP analysis of ribosomal DNA regions. J. Dermatol. Sci. 32: 25-32. doi:10.1016/S0923-1811(03)00030-6. PMID:12788526.
14. Mullaney, E.J., and Ullah, A.H.J. 2003. The term phytase comprises several different classes of enzymes. Biochem. Biophys. Res. Commun. 312: 179-184. doi:10.1016/j.bbrc.2003.09.176. PMID:14630039.
15. Pandey, A., Szakacs, G., Soccol, C.R., Rodriguez-Leond, J.A., and Soccol, V.T. 2001. Production, purification and properties of microbial phytases. Bioresour. Technol. 77(3): 203-214. doi:10.1016/S0960-8524(00)00139-5. PMID:11272007.
16. Papagianni, M., Nokes, S.E., and Filer, K. 1999. Production of phytase by Aspergillus niger in submerged and solid state fermentation. Process Biochem. 35(3): 397-402. doi:10.1016/S0032-9592(99)00088-6.
17. Richa, R., and Sanjoy, G. 2011. Production of phytase under solid-state fermentation using Rhizopus oryzae: novel strain improvement approach and studies on purification and characterization. Bioresour. Technol. 102(22): 10641-10649. doi:10.1016/j.biortech.2011.08.075. PMID:21945206.
18. Sajidan, A., Farouk, A., Greiner, R., Jungblut, P., Müller, E.C., and Borriss, R. 2004. Molecular and physiological characterisation of a 3-phytase from soil bacterium Klebsiella sp. ASR1. Appl. Microbiol. Biotechnol. 65(1): 110-118. doi:10. 1007/s00253-003-1530-1. PMID:14727093.
19. Sambrook, J., and Russel, D.W. 2001. Molecular cloning: a laboratory manual. 3rd ed. CSH Laboratory Press, Cold Spring Harbor, N.Y.
20. Sawamura, H., Yamada, M., and Endo, K. 2010. Characterization of microorganisms at different landfill depths using carbon-utilization patterns and 16S rRNA gene based T-RFLP. J. Biosci. Bioeng. 109(2): 130-137. doi:10.1016/j.jbiosc.2009.07.020. PMID:20129096.
21. Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F., and Higgins, D.G. 1997. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25(24): 4876-4882. doi:10.1093/nar/25.24.4876. PMID:9396791.
22. Ullah, A.H.J. 1988. Production, rapid purification and catalytic characterization of extracellular phytase from Aspergillus ficuum. Prep. Biochem. 18(4): 443-458. PMID:2852806.
23. van Hartingsveldt, W., van Veijl, C.M., Harteveld, G.M., Gouka, R.J., Suykerbuyk, M.E., Luiten, R.G., van Paridon, P.A., Selten, G.C., Veenstra, A.E., van Gorcom, R.F., et al. 1993. Cloning, characterization and overexpression of the phytase-encoding gene phyA of Aspergillus niger. Gene, 127(1): 87-94. doi:10.1016/0378-1119(93)90620-I. PMID:8387447.
24. Waldron, L.S., Ferrari, B.C., Gillings, M.R., and Power, M.L. 2009. Terminal restriction fragment length polymorphism for identification of Cryptosporidium species inhumanfeces. Appl. Environ. Microb. 75(1): 108-112. doi:10.1128/AEM.01341-08. PMID:18978074.
25. Wang, Q., Zhang, X., Zhang, H.Y., Zhang, J., Chen, G.Q., Zhao, D.H., Ma, H.P., and Liao, W.J. 2010. Identification of 12 animal species meat by T-RFLP on the 12S rRNA gene. Meat Sci. 85(2): 265-269. doi:10.1016/j.meatsci.2010.01.010. PMID:20374896.
26. Yoon, S.J., Choi, Y.J., Min, H.K., Cho, K.K., Kim, J.W., Lee, S.C., and Jung, Y.H. 1996. Isolation and identification of phytase- producing bacterium, Enterobacter sp.4, and enzymatic properties of phytase enzyme. Enzyme Microb. Technol. 18(6): 449-454. doi:10.1016/0141-0229(95)00131-X.