Analysis of the Structure of the Bacterial Community in the Livestock Manure-based Composting Process
![]() ![]() |
Sasaki, Hiraku
(Graduate School of Agricultural Science, Tohoku University)
Nonaka, Jun (Graduate School of Agricultural Science, Tohoku University) Otawa, Kenichi (Graduate School of Agricultural Science, Tohoku University) Kitazume, Osamu (Graduate School of Agricultural Science, Tohoku University) Asano, Ryoki (Graduate School of Agricultural Science, Tohoku University) Sasaki, Takako (Graduate School of Agricultural Science, Tohoku University) Nakai, Yutaka (Graduate School of Agricultural Science, Tohoku University) |
1 | Battin, T. J., A. Wille, B. Sattler and R. Psenner. 2001. Phylogenetic and functional heterogeneity of sediment biofilms along environmental gradients in a glacial stream. Appl. Environ. Microbiol. 67:799-807 DOI ScienceOn |
2 | Boom, R., C. J. A. Sol, M. M. M. Salimans, C. L. Jansen, P. M. E. Wertheim-van Dillen and J. van der Noordaa. 1990. Rapid and simple method for purification of nucleic acids. J. Clin. Microbiol. 28:495-503 PUBMED |
3 | Eichner, C. A., R. W. Erb, K. N. Timmis and I. Wagner-Dobler. 1999. Thermal gradient gel electrophoresis analysis of bioprotection from pollutant shocks in the activated sludge microbial community. Appl. Environ. Microbiol. 65:102-109 DOI PUBMED |
4 | Hanajima, D., K. Kuroda, Y. Fukumoto and K. Haga. 2004. Growth of seeded Escherichia coli in rewetted cattle waste compost of different stages. 2004. Asian-Aust. J. Anim. Sci. 17:278-282 |
5 | Hong, W. S. and M. J. Chen. 2007. Rapid identification of bifidobacteria in dairy products by gene-targeted speciesspecific PCR technique and DGGE. Asian-Aust. J. Anim. Sci. 20:1887-1894 |
6 | Honschopp, S., N. Brunken, A. Nehrhorn and H. J. Breunig. 1996. Isolation and characterization of a new arsenic methylating bacterium from soil. Microbiol. Res. 151:37-41 DOI PUBMED ScienceOn |
7 | Hu, H. Y., B. R. Lim, N. Goto and K. Fujie. 2001. Analytical precision and repeatability of respiratory quinones for quantitative study of microbial community structure in environmental samples. J. Microbiol. Methods 47:17-24 DOI ScienceOn |
8 | Kenzaka, T., N. Yamaguchi, K. Tani and M. Nasu. 1998. rRNAtargeted fluorescent in situ hybridization analysis of bacterial community structure in river water. Appl. Environ. Microbiol. 144:2085-2093 DOI ScienceOn |
9 | Page, R. D. 1996. TreeView: an application to display phylogenetic trees on personal computers. Comput. Appl. Biosci. 12:357-358 |
10 | Rolleke, S., C. Gurtner, U. Drewello, R. Drewello, W. Lubitz and R. Weissmann. 1999. Analysis of bacterial communities on historical glass by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA. J. Microbiol. Methods 36:107-114 DOI PUBMED ScienceOn |
11 | Sasaki, H., O. Kitazume, J. Nonaka, K. Hikosaka, K. Otawa, K. Ito and Y. Nakai. 2006. Effect of a commercial microbiological additive on the beef manure compost in the composting process. Anim. Sci. J. 77:545-548 DOI ScienceOn |
12 | White, B. A., I. K Cann, S. A. Kocherginskaya, R. I. Aminov, L. A. Thill, R. I. Mackie and R. Onodera. 1999. Molecular analysis of archaea, bacteria and eucarya communities in the rumen. Asian-Aust. J. Anim. Sci. 12:129-138 |
13 | Zhang, Y. C., R. S. Ronimus, N. Turner, Y. Zhang and H. W. Morgan. 2002. Enumeration of thermophilic Bacillus species in composts and identification with a random amplification polymorphic DNA (RAPD) protocol. Syst. Appl. Microbiol. 25:618-626 DOI ScienceOn |
14 | Chynoweth, C. P., A. C. Wilkie and J. M. Owens. 1999. Anaerobic treatment of piggery slurry. Asian-Aust. J. Anim. Sci. 12:604-606 |
15 | Green, S. J., F. C. Michel Jr., Y. Hadar and D. Minz. 2004. Similarity of bacterial communities in sawdust- and strawamended cow manure composts. FEMS Microbiol. Lett. 233:115-123 DOI ScienceOn |
16 | Poltz, M. F. and C. M. Cavanaugh. 1998. Bias in template-to product ratios in multitemplate PCR. Appl. Environ. Microbiol. 64:3724-3730 PUBMED |
17 | Sasaki, H., J. Nonaka, T. Sasaki and Y. Nakai. 2007. Ammonia removal from livestock wastewater by ammonia-assimilating microorganisms immobilized in polyvinyl alcohol. J. Ind. Microbiol. Biotechnol. 34:105-110 DOI ScienceOn |
18 | Thompson, J. D., D. G. Higgins and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680 DOI ScienceOn |
19 | Yoon, J. H., K. H. Kang and Y. H. Park. 2002. Lentibacillus salicampi gen.nov.,sp.nov.,a moderately halophilic bacterium isolated from a salt field in Korea. Int. J. Syst. Evol. Microbiol. 52:2043-2048 DOI ScienceOn |
20 | Muyzer, G., E. C. Waal and A. G. Uitterilinden. 1993. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reactionamplified genes coding for 16S rDNA. Appl. Environ. Microbiol. 59:695-700 DOI PUBMED |
21 | Potter, M., F. B. Oppermann-Sanio and A. Steinbuchel. 2001. Cultivation of bacteria producing polyamino acids with liquid manure as carbon and nitrogen source. Appl. Environ. Microbiol. 67:617-622 DOI ScienceOn |
22 | Ishii, K. and M. Fukui. 2001. Optimization of annealing temperature to reduce bias caused by a primer mismatch in multitemplate PCR. Appl. Environ. Microbiol. 67:3753-3755 DOI ScienceOn |
23 | Gherna, R. and C. R. Woese. 1992. A partial phylogenetic analysis of the “Flavobacter-Bacteroides” phylum: basis for taxonomic restructuring. Syst. Appl. Microbiol. 15:513-521 DOI PUBMED ScienceOn |
24 | Tiquia, S. M. and J. F. C. Michel. 2002. Bacterial diversity in livestock manure composts as characterized by terminal restriction fragment length polymorphism (T-RFLP) of PCRamplified 16S rRNA gene sequences. Microbiology of composting and other biodegradation processes (Ed. H. Insam, N. Riddech and S. Klammer). Springer-Verlag, Berlin Heidelberg, pp. 65-82 |
25 | Strom, P. F. 1985. Identification of thermophilic bacteria in solidwaste composting. Appl. Environ. Microbiol. 50:906-913 DOI PUBMED ScienceOn |
26 | Manz, W., R. Amann, W. Ludwig, M. Vancanneyt and K. H. Schleifer. 1996. Application of a suite of 16S rRNA-specific oligonucleotide probes designed to investigate bacteria of the phylum Cytophaga-Flavobacter-Bacteroides in the natural environment. Microbiology 142:1097-1106 DOI ScienceOn |
27 | Dees, P. M. and W. C. Ghiorse. 2001. Microbial diversity in hot synthetic compost as revealed by PCR-amplified rRNA sequences from cultivated isolates and extracted DNA. FEMS Microbiol. Ecol. 35:207-216 DOI ScienceOn |
28 | Denger, K., R. Warthmann, W. Ludwig and B. Schink. 2002. Anaerophaga thermohalophila gen. nov., sp. nov., a moderately thermohalophilic, strictly anaerobic fermentative bacterium. Int. J. Syst. Evol. Microbiol. 52:173-178 PUBMED |
29 | Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425 PUBMED |
30 | Wakase, S., H. Sasaki, K. Ito, K. Otawa, O. Kitazume, J. Nonaka, M. Satoh, T. Sasaki and Y. Nakai. 2008. Investigation of the microbial community in a microbiological additive used in a manure composting process. Bioresour. Technol. 99:2687-2693 DOI ScienceOn |
31 | Weber, S., S. Stubner and R. Conrad. 2001. Bacterial populations colonizing and degrading rice straw in anoxic paddy soil. Appl. Environ. Microbiol. 67:1318-1327 DOI ScienceOn |
32 | Sasaki, H., H. Yano, T. Sasaki and Y. Nakai. 2005. A survey of ammonia-assimilating microorganisms in cattle manure composting. J. Appl. Microbiol. 99:1356-1363 DOI ScienceOn |
33 | Paster, B. J., F. E. Dewhirst, I. Olsen and G. J. Fraser. 1994. Phylogeny of Bacteroidetes, Prevotella, and Porphyromonas spp. and related bacteria. J. Bacteriol. 176:725-732 PUBMED |
![]() |