Spatial shifts in microbial population structure within poultry litter associated with physicochemical properties

Poultry Science

Volumn 86, Issue 9, 2007, Pages 1840-1849

  Lovanh, N ^a   Cook, K L ^a   Rothrock, M J ^a   Miles, D M ^a   Sistani, K ^a  

^a AGRICULTURAL RESEARCH SERVICE   (United States)

Author keywords

Denaturing gradient gel electrophoresis; Microbial diversity; Poultry litter; Principal component analysis

Indexed keywords

EID: 35348843906     PISSN: 00325791     EISSN: 15253171     Source Type: Journal    
DOI: 10.1093/ps/86.9.1840     Document Type: Article

References (56)

1. Acea, M. J., and T. Carballas. 1988a. Effects of cattle-slurry treatment on microorganisms of the carbon and sulphur cycles in the soil. Biol. Wastes 24:251-258.
2. Acea, M. J., and T. Carballas. 1988b. The influence of cattle slurry on soil microbial population and nitrogen cycle microorganisms. Biol. Wastes 23:229-241.
3. Altschul, S. F., T. L. Madden, A. A. Schaffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
4. Atlas, R. M., and R. Bartha. 1981. Microbial Ecology: Fundamentals and Applications. Addison-Wesley Publ. Co., London, UK.
5. Benson, D. A., I. Karsch-Mizrachi, D. J. Lipman, J. Ostell, and D. L. Wheeler. 2005. GenBank. Nucleic Acids Res. 33:D34-D37.
6. Bull, S. A., V. M. Allen, G. Domingue, F. Jørgensen, J. A. Frost, R. Ure, R. Whyte, D. Tinker, J. E. L. Corry, J. Gillard-King, and T. J. Humphrey. 2006. Sources of Campylobacter spp. Colonizing housed broiler flocks during rearing. Appl. Environ. Microbiol. 72:645-652.
7. Casamayor, E. O., H. Schäfer, L. Bañeras, C. Pedrós-Alió, and G. Muyzer. 2000. Identification of and spatio-temporal differences between microbial assemblages from two neighboring sulfurous lakes: Comparison by microscopy and denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 66:499-508.
8. Cattell, R. B. 1966. The scree test for the number of factors. Multivariate Behav. Res. 1:245-276.
9. Chen, T. H., D. L. Day, and M. P. Steinberg. 1988. Methane production from fresh versus dry dairy manure. Biol. Wastes 24:297-306.
10. Corominas, S., F. Perestelo, M. L. Perez, and M. A. Falcon. 1987. Microorganisms and environmental factors in composting of agricultural waste of the Canary Islands. Pages 127-134 in Compost: Production, Quality and Use. M. De Bertoldi, M. P. Ferranti, P. L'Hermite, and F. Zucconi, ed. Elsevier Appl. Sci., London, UK.
11. Cotta, M. A., T. R. Whitehead, M. D. Collins, and P. A. Lawson. 2004. Atopostipes suicloacale gen. nov., sp. nov., isolated from an underground swine manure storage pit. Anaerobe 10:191-195.
12. De Bertoldi, M., M. P. Ferranti, P. L'Hermite, and F. Zucconi, ed. 1987. Compost: Production, Quality and Use. Elsevier Appl. Sci., London, UK.
13. Diaz-Fierros, F., M. C. Villar, M. Carballas, M. C. Leiros, T. Carballas, and A. Cabaneiro. 1988. Effect of cattle slurry fractions on nitrogen mineralization in soil. J. Agric. Sci. Camb. 110:491-497.
14. Donham, K. J. 1990. Relationships of air quality and productivity in intensive swine housing. J. Agric. Practice 10:15-18.
15. Donham, K. J., and K. E. Gustafason. 1982. Human occupational hazards from swine confinement. Ann. Am. Conf. Gov. Hyg. 2:137-142.
16. Donham, K. J., M. J. Rubino, T. D. Thedell, and J. Kammermeyer. 1977. Potential health hazards to agricultural workers in swine confinement buildings. J. Occup. Med. 19:383-387.
17. El-Ashry, M. A., H. M. Khattab, A. El-Serafy, H. Solimam, and S. M. Abd Elmoula. 1987. Nutritive value of poultry wastes for sheep. Biol. Wastes 19:287-298.
18. Enticknap, J. J., H. Nonogaki, A. R. Place, and R. T. Hill. 2006. Microbial diversity associated with odo modification for production of fertilizers from chicken litter. Appl. Environ. Microbiol. 72:4105-4114.
19. Finstein, M. S., and M. L. Morris. 1975. Microbiology of municipal solid wastes composting. Adv. Appl. Microbiol. 19:113-151.
20. Fries, R., M. Akcan, N. Bandick, and A. Kobe. 2005. Microflora of two different types of poultry litter. Br. Poult. Sci. 46:668-672.
21. Fu, T. T., and D. W. Thayer. 1975. Comparison of batch and semicontinuous cultures for production of protein from mesquite wood by Brevibacterium sp. JM98A. Biotechnol. Bioeng. 17:1749-1760.
22. Gates, R. S., J. L. Taraba, N. S. Ferguson, and L. W. Turner. 1997. A technique for determining ammonia equilibrium and volatilization from broiler litter. Presented August 10-14 at the 1997 ASAE Annu. Int. Meet. Paper no. 974074. ASAE, St. Joseph, MI.
23. Gay, S. W., E. F. Wheeler, J. L. Zajaczkowski, and P. A. Topper. 2006. Ammonia emissions from U.S. tom turkey growout and brooder houses under cold weather minimum ventilation. Appl. Eng. Agric. 22:127-134.
24. Green, J. L., A. J. Holmes, M. Westoby, I. Oliver, D. Briscoe, M. Dangerfield, M. Gillings, and A. J. Beattie. 2004. Spatial scaling of microbial eukaryote diversity. Nature 432:747-750.
25. Harman, H. H. 1976. Modern factor analysis. Univ. Chicago Press, Chicago, IL.
26. Harms, G., A. C. Layton, H. M. Dionisi, I. R. Gregory, V. M. Garrett, S. A. Hawkins, K. G. Robinson, and G. S. Sayler. 2003. Real-time PCR quantification of nitrifying bacteria in a municipal wastewater treatment plant. Environ. Sci. Technol. 37:343-351.
27. Harte, J., S. McCarthy, K. Taylor, A. Kinzig, and M. L. Fischer. 1999. Estimating species-area relationships from plot to landscape scale using species spatial-turnover data. Oikos 86:45-54.
28. Hartung, J., and V. R. Phillips. 1994. Control of gaseous emissions from livestock buildings and manure stores. J. Agric. Eng. Res. 57:173-189.
29. Horner-Devine, M. C., M. Lage, J. B. Hughes, and B. J. M. Bohannan. 2004. A taxa-area relationship for bacteria. Nature 432:750-753.
30. Jeffrey, J. S., J. H. Kirk, E. R. Atwill, and J. S. Cullor. 1998. Prevalence of selected microbial pathogens in processed poultry waste used as dairy cattle feed. Poult. Sci. 77:808-811.
31. Kaiser, H. F. 1960. The application of electronic computers to factor analysis. Educ. Psychol. Meas. 20:141-151.
32. Kleinbaum, D. G., L. Kupper, and K. E. Muller. 1988. Variable reduction and factor analysis. Pages 595-641 in Applied Regression Analysis and Other Multivariable Methods. M. Payne, ed. Duxbury Press, Belmont, CA.
33. Lauer, D. A., D. R. Bouldin, and S. D. Klaususner. 1976. Ammonia volatization from dairy manure spread on the soil surface. J. Environ. Qual. 5:131-141.
34. Lovett, J., J. W. Messer, and R. B. Read Jr. 1971. The microflora of southern Ohio poultry litter. Poult. Sci. 50:746-751.
35. Lu, J., U. Idris, B. Harmon, C. Hofacre, J. J. Maurer, and M. D. Lee. 2003a. Diversity and succession of the intestinal bacterial community of the maturing broiler chicken. Appl. Environ. Microbiol. 69:6816-6824.
36. Lu, J., S. Sanchez, C. Hofacre, J. J. Maurer, B. G. Harmon, and M. D. Lee. 2003b. Evaluation of broiler litter with reference to the microbial composition as assessed by using 16S rRNA and functional gene markers. Appl. Environ. Microbiol. 69:901-908.
37. Madigan, M. T., J. M. Martinko, and J. Parker. 1997. Brock Biology of Microorganisms. 8th ed. Prentice Hall, Upper Saddle River, NJ.
38. Martin, S. A., M. A. McCann, and W. D. Waltman II. 1998. Microbiological survey of Georgia poultry litter. J. Appl. Poult. Res. 7:90-98.
39. Miles, D. M., D. E. Rowe, and P. R. Owens. 2006. Winter broiler litter gases and nitrogen compounds. Temporal and spatial trends. Atmos. Environ. doi:10.1016/j.atmosenv.2006.11.056
40. Muller, A. K., K. Westergaard, S. Christensen, and S. J. Sorensen. 2001. The effect of long-term mercury pollution on the soil microbial community. FEMS Microbiol. Ecol. 36:11-19.
41. Nodar, R., M. J. Acea, and T. Carballas. 1990. Microbial populations of poultry pine-sawdust litter. Biol. Wastes 33:295-306.
42. Nubel, U., F. Garcia-Pichel, and G. Muyzer. 1997. PCR primers to amplify 16S rRNA genes from Cyanobacteria. Appl. Environ. Microbiol. 63:3327-3332.
43. Ogino, A., H. Koshikawa, T. Nakahara, and H. Uchiyama. 2001. Succession of microbial communities during a biostimulation process as evaluated by DGGE and clone library analysis. J. Appl. Microbiol. 91:625-635.
44. Pain, B. F., R. B. Thompson, L. C. N. De La Cremer, and L. Ten Holte. 1987. The use of additives in livestock slurries to improve their flow properties, conserve nitrogen and reduce odours. Pages 229-246 in Development in Plant Soil Sciences. Animal Manure on Grassland and Fodder Crops. Fertiliser or Waste? H. G. Van der Meer, R. J. Unwin, T. A. Van Dijk, and G. C. Ennik, ed. Martius Nijhoff Publ., Dordrecht, the Netherlands.
45. Pearson, K. 1901. On lines and planes of closest fit to systems of points in space. Philos. Mag. 2:559-572.
46. Reguera, G., and S. B. Leschine. 2001. Chitin degradation by cellulolytic anaerobes and facultative aerobes from soils and sediments. FEMS Microbiol. Lett. 204:367-374.
47. Ringbauer, J. A., Jr., J. B. James, and F. J. Genthner. 2006. Effects of large-scale poultry farms on aquatic microbial communities: A molecular investigation. J. Water Health 4:77-86.
48. Smith, L. W. 1974. Dehydrated poultry excreta as a crude protein supplement for ruminants. World Anim. Rev 1974:6-11.
49. 2 production in high-strength wastewater. Water Res. 35:1905-1914.
50. Tate, R. L., III. 1987. Ecosystem management and soil organic matter nivel. Pages 260-280 in Soil Organic Matter. John Wiley, New York, NY.
51. Thaxton, Y. V., C. L. Balzli, and J. D. Tankson. 2003. Relationship of broiler flock numbers to litter microflora. J. Appl. Poult. Res 12:81-84.
52. Thayer, D. W. 1976. Facultative wood-digesting bacteria from the hind-gut of the termite Reticulitermes hesperus. J. Gen. Microbiol. 95:287-296.
53. Thompson, J. D., T. J. Gibson, F. Plewniak, F. Jeanmougin, and D. G. Higgins. 1997. The ClustalX windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 24:4876-4882.
54. Van Der Gucht, K., K. Sabbe, L. de Meester, N. Vloemens, G. Zwart, M. Gillis, and W. Vyverman. 2001. Contrasting bacterioplankton community composition and seasonal dynamics in two neighbouring hypertrophic freshwater lakes. Environ. Microbiol. 3:680-690.
55. Whitehead, T. R., and M. A. Cotta. 2004. Isolation and identification of hyper-ammonia producing bacteria from swine manure storage pits. Curr. Microbiol. 48:20-26.
56. Yang, C. H., D. E. Crowley, and J. A. Menge. 2001. 16S rDNA fingerprinting of rhizosphere bacterial communities associated with healthy and Phytophtora infected avocado roots. FEMS Microbiol. Ecol. 35:129-136.