Soil-aggregating bacterial community as affected by irrigation, tillage, and cropping system in the northern great plains

Soil Science

Volumn 179, Issue 1, 2014, Pages 11-20

  Caesar Tonthat, The Can ^a   Stevens, William B ^a   Sainju, Upendra M ^a   Caesar, Anthony J ^a   West, Mark ^a   Gaskin, John F ^a  

^a AGRICULTURAL RESEARCH SERVICE   (United States)

Author keywords

Dryland; Irrigation; Soil aggregation; Soil bacterial community; Tillage

Indexed keywords

AGGREGATION; BACTERIUM; COMMUNITY STRUCTURE; CROPPING PRACTICE; FATTY ACID; IRRIGATION; MICROBIAL COMMUNITY; SOIL AGGREGATE; TILLAGE;

GREAT PLAINS; NORTH DAKOTA; UNITED STATES;

BACTERIA (MICROORGANISMS); HORDEUM; HORDEUM VULGARE SUBSP. VULGARE; NEGIBACTERIA; STENOTROPHOMONAS MALTOPHILIA;

EID: 84902000453     PISSN: 0038075X     EISSN: 15389243     Source Type: Journal    
DOI: 10.1097/SS.0000000000000036     Document Type: Article

References (56)

1. Aspiras R. B., O. N. Allen, R. F. Harris, and G. Chesters. 1971. The role of microorganisms in the stabilization of soil aggregates. Soil Biol. Biochem. 3:347-353
2. Banik R. M., B. Kanari, and S. N. Upadhyay. 2000. Exopolysaccharide of the gellan family: Prospects and potential. World J. Microbiol. Biotechnol. 16:407-414
3. Baum M. M., A. Kainovic, T. O'Keeffe, R. Pandita, K. McDonald, S. Wu, and P. Webster. 2009. Characterization of structures in biofilms formed by a Pseudomonas fluorescens isolated from soil. BMC Microbiology. 9:103-116
4. Bronson K. F., T. M. Zobeck, T. T. Chua, V. Acosta-Martinez, R. S. van Pelt, and J. D. Booker. 2004. Carbon and nitrogen pools of southern high plains cropland and grassland soils. Soil Sci. Soc. Am. J. 68:1695-1704
5. Caesar-TonThat T. C., E.K. Espeland, A. J. Caesar, U.M. Sainju, R. T. Lartey, and J. F. Gaskin. 2013. Effects of Agaricus lilaceps fairy rings on soil aggregation and microbial community structure in relation to growth stimulation of western wheatgrass (Pascopyrum smithii) in eastern Montana rangeland. Microbial Ecol. 66:120-131
6. Cavigelli M. A., G. P. Robertson, and M. K. Klug. 1995. Fatty acid methyl ester (FAME) profiles as measures of soil microbial community structure. Plant Soil. 170:99-113
7. Chaney K., and R. S. Swift. 1986. Studies on aggregate stability. I. Reformation of soil aggregates. J. Soil Sci. 37:329-335
8. Cole J. R., B. Chai, T. L. Marsh, R. J. Farris, Q. Wang, S. A. Kulam, S. Chandra, D. M. McGarrell, T. M. Schmidt, G. M. Garrity, and J. M. Tiedje. 2003. The ribosomal database project (RDP-II): Previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res. 31:442-443
9. Curtin D., H. Wang, F. Selles, B. G. McConkey, and C. A. Campbell. 2000. Tillage effects on carbon fluxes in continuous wheat and fallowwheat rotations. Soil Sci. Soc. Am. J. 64:20-80-2086
10. De Oliveira-Garcia D., M. Dall'Agnol, M. Rosales, A. C. G. S. Azzuz, M. B. Martinez, and J. A. Giron. 2002. Characterization of flagella produced by clinical strains of Stenotrophomonas maltophilia. Emerg. Infect. Dis. 8:918-923
11. Decho A. W.2000. Exopolymer micro domains as a structuring agent for heterogeneity within microbial biofilms. In: Microbial Sediments . R. E. Riding, S. M. Awramik (eds.) Springer, Berlin, Germany, pp. 9-15
12. Drenovsky R. E., D. Vo, K. J. Graham, and K. M. Scow. 2004. Soil water content and organic availability are major determinants of soil microbial community composition. Microbial Ecol. 48:424-430
13. Entry J. A., R. E. Sojka, and G. E. Shewmaker. 2002. Management of irrigated agriculture to increase carbon storage in soils. Soil Sci. Soc. Am. J. 66: 1957-1964
14. Entry J. A., J. J. Fuhrmann, R. E. Sojka, and G. E. Shewmaker. 2003. Influence of irrigated agriculture on soil carbon and microbial community structure. Environ. Manage. 33:S363-S373
15. Fechtner J., A. Koza, P. Dello Sterpaio, S. M. Hapca, and A. J. Spiers. 2011. Surfactants expressed by soil pseudomonads alter local soil-water distribution, suggesting a hydrological role for these compounds. FEMSMicrobiol. Ecol. 78:50-58
16. Fierer N., J. P. Schimet, and P. A. Holden. 2003. Variations in microbial community composition through two soil depth profiles. Soil Biol. Biochem. 35:167-176
17. Foster R. C.1988. Microenvironments of soil microorganisms. Biol. Fertil. Soils. 6:189-203
18. Gannon J. T., V. B. Manilal, M. Alexander. 1991. Relationship between cell surface properties and transport of bacteria through soil. Appl. Environ. Microbiol. 57:190-193
19. Gilchrist J. E., J. E. Campbell, C. B. Donnelly, J. T. Peeler, and J. M. Delaney. 1973. Spiral plate method for bacterial determination. Appl. Microbiol. 25:244-252
20. Glandorf D. C. M., I. V. D. Sluis, A. J. Anderson, P. A. H. M. Bakker, and B. Schippers. 1994. Agglutination, adherence and root colonization by fluorescent pseudomonads. Appl. Environ. Microbiol. 60:1726-1733
21. Golchin A., J. M. Oades, J. O. Skjemstad, and P. Clarke. 1994. Study of free and occluded particulate organic matter in soils by solid state 13C P/MAS NMR spectroscopy and scanning electron microscopy. Aust. J. Soil Res. 32:285-309
22. Griffiths R. I., A. S. Whiteley, A. G. O'Donnell, and M. J. Bailay. 2003. Physiological and community responses of established grassland bacterial populations to water stress. Appl. Environ. Microbiol. 69:6961-6968
23. Harris R. F.1981. Effect of water potential on microbial growth and activity. In:Water Potential Relations in SoilMicrobiology. J. F. Parr, W. R. Gardner, L. F. Elliott (eds.). Soil Science Society of America, Madison, WI, pp. 23-95
24. Heck K. L., G. van Belle, and D. Simberloff. 1975. Explicit calculation of the rarefaction Diversity measurement and the determination of sufficient sample size. Ecology. 56:1459-1461
25. Huang T. P., E. B. Somers, and A. C. L. Wong. 2006. Differential biofilm formation and motility associated with lipopolysaccharide/ exopolyssacharidecoupled biosynthetic genes in Stenotrophomonas maltophilia. J. Bacteriol. 188:3116-3120
26. Jarvis B., V. H. Lach, and J. M. Wood. 1977. Evaluation of the spiral plate maker for the enumeration of micro-organisms in foods. J. Appl. Bacteriol. 43:149-157
27. Jastrow J. D.1996. Soil aggregate formation and the accrual of particulate and mineral-Associated organic matter. Soil Biol. Biochem. 28:665-676
28. Jucker B. A., H. Harms, and A. J. Zehnder. 1996. Adhesion of the positively charged bacterium Stenotrophomonas (Xanthomonas) maltophilia 70401 to glass and Teflon. J. Bacteriol. 178:5472-5479
29. Kemper W. D., and R. C. Rosenau. 1986. Aggregate stability and size distribution. In: Methods of Soil Analysis: Physical and Mineralogical Methods, Part 1, 2nd Ed. A. Klute (ed.). ASA, Soil Science Society of America Special Publication No. 9, Madison, WI, pp. 425-442
30. Li B., and B. E. Logan. 2004. Bacterial adhesion to glass and metaloxide surfaces. Colloids Surf. B 36:81-90
31. Littell R. C., G. A. Milliken, W. W. Stroup, R. D. Wolfinger, and O. Schabenberger. 2006. SAS for Mixed Models, 2nd ed.SAS Institute, Cary, NC.
32. Losick R., P. J. Youngman, and P. J. Piggot. 1986. Genetics of endospore formation in Bacillus subtilis. Annu. Rev. Genet. 20:625-629
33. Ma Z., C. W. Wood, and D. I. Bransby, 2000. Impacts of soil management on root characteristics of switchgrass. Biomass Bioenergy. 18:105-112
34. Martens D. A., W. T. FrankenbergerJr. 1992. Decomposition of bacterial polymers in soil and their influence on soil structure. Biol. Fertil. Soils. 13:65-73
35. Martins M. D. R., J. E. Corá, R. F. Jorge, and A. V. Marcelo. 2009. Crop type influences soil aggregation and organic matter under no-Tillage. Soil Tillage Res. 104:22.29
36. Montie T. C., and G. B. Stover. 1983. Isolation and characterization of flagella preparations from Pseudomonas species. J. Clin. Microbiol. 18:452-456
37. Peterson G. A., A. D. Halvorson, J. L. Havlin, O. R. Jones, D. G. Lyon, D. L. Tanaka. 1998. Reduced tillage and increasing cropping intensity in the Great Plains conserve soil carbon. Soil Tillage Res. 47:207-218. (Pubitemid 28324909
38. Read R. R., and J. W. Costerton. 1987. Purification and characterization of adhesive exopolysaccharides from Pseudomonas putida and Pseudomonas fluorescens. Can. J. Microbiol. 33:1080-1090
39. Ronner A. B., A. C. L. Wong. 1998. Characterization of microbial clogging in waste water infiltration system. In: Onsite Waste Water Treatment. D. M. Sievers (ed.). American Society of Agriculture Engineers, St. Joseph, MI, pp. 37-42
40. Sainju U. M.2006. Carbon and nitrogen pools in soil aggregates by dry and wet sieving methods. Soil Sci. 171:937-949
41. Sainju U. M., J. D. Jabro, and W. B. Stevens. 2008. Soil carbon Dioxide emission and carbon content as affected by irrigation, tillage, cropping system, and nitrogen fertilization. J. Environ. Qual. 37:98-106
42. Sainju U. M., W. B. Stevens, R. G. Evans, W. M. Iversen. 2013. Irrigation system and tillage affects on soil carbon and nitrogen fractions. Soil Sci. Soc. Am. J. 77:1225-1234
43. Scheurwater E. M., and L. L. Burrows. 2011. Maintening network security: How macromolecular structures cross the peptidoglycan layer. FEMS Microbiol. Lett. 318:1-9
44. Schutter M. E., and R. P. Dick. 2002. Microbial community profiles and activities among aggregates of winter fallow and cover crop soil. Soil Sci. Soc. Am. J. 66:142-153
45. Shannon C. E., and W. Weaver. 1969. The mathematical theory of communication, University of Illinois Press, Urbana, IL
46. Six J., E. T. Elliott, and K. Paustian. 2000. Soil macroaggregate turnover and microaggregate formation: A mechanism for C sequestration under no-Tillage agriculture. Soil Biol. Biochem. 32:2099-2103
47. Six J., E. T. Elliott, K. Paustian, and J. W. Doran. 1998. Aggregation and soil organic matter accumulation in cultivated and native grassland soils. Soil Sci. Soc. Am. J. 62:1367-1377
48. Species Diversity and Richness III Software, Version 3.03. Pisces Conservation Ltd. Publisher, Hampshire, England, 2004
49. Swofford D. I.2000. PAUP Phylogenetic Analysis Using Parsimony (and Other Methods), version 4 . Sinauer Associates, Sunderland
50. Thompson J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTALW: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucl. Acids Res. 22:4673-4680
51. Tiessen H., and J. W. B. Stewart. 1988. Light and electron microscopy of stained microaggregates: The role of organic matter and microbes in soil aggregation. Biogeochemistry. 5:312-322
52. Tisdall J. M.1991. Fungal hyphae and structural stability in soil. Aust. J. Soil Res. 29:729-743
53. Tisdall J. M., and J. M. Oades. 1982. Organic matter and water stable aggregates in soils. J. Soil Sci. 33:141-163
54. Van Elsas J. D., V. Torsvik, A. Hartmann, L. Øvreås, and K. Jansson. 2007. The bacteria and Archaea in soil. In: Modern SoilMicrobiology, 2nd ed. J. D. Van Elsas, J. K. Jansson, J. T. Trevors (eds.). CRC Press, Boca Raton, FL, pp. 83-105
55. Van Gestel M., R. Merckk, and K. Vlassak. 1993. Microbial biomass responses to soil drying and rewetting: The fate of fast- And slowgrowing microorganisms in soils from different climates. Soil Biol. Biochem. 25:109-123
56. Waters A. J., and J. M. Oades. 1991. Organic matter in water stable aggregates. In: Advances in Soil Organic Matter Research: The Impact on Agriculture and the Environment . W. S.Wilson (ed.). R. Soc. Chem., Cambridge, pp. 163-174