Soil microbial community response to land use change in an agricultural landscape of western Kenya

Microbial Ecology

Volumn 49, Issue 1, 2005, Pages 50-62

  Bossio, D A ^a,d   Girvan, M S ^b   Verchot, L ^a   Bullimore, J ^b   Borelli, T ^a   Albrecht, A ^a   Scow, K M ^c   Ball, A S ^b   Pretty, J N ^b   Osborn, A M ^b  

^a WORLD AGROFORESTRY CENTRE ICRAF   (Kenya)

^b UNIVERSITY OF ESSEX   (United Kingdom)

^c UNIVERSITY OF CALIFORNIA   (United States)

^d INTERNATIONAL WATER MANAGEMENT INSTITUTE   (Sri Lanka)

Author keywords

[No Author keywords available]

Indexed keywords

CARBON; FATTY ACID; NITROGEN; PHOSPHOLIPID; RNA 16S;

MICROBIAL COMMUNITY;

AGRICULTURE; ARTICLE; BACTERIUM; BIOMASS; CLUSTER ANALYSIS; COMPARATIVE STUDY; ECOSYSTEM; ELECTROPHORESIS; GENETICS; KENYA; METABOLISM; MICROBIOLOGY; MULTIVARIATE ANALYSIS; PRINCIPAL COMPONENT ANALYSIS; TREE; TROPIC CLIMATE;

AGRICULTURE; BACTERIA; BIOMASS; CARBON; CLUSTER ANALYSIS; ECOSYSTEM; ELECTROPHORESIS; FATTY ACIDS; KENYA; MULTIVARIATE ANALYSIS; NITROGEN; PHOSPHOLIPIDS; PRINCIPAL COMPONENT ANALYSIS; RNA, RIBOSOMAL, 16S; SOIL MICROBIOLOGY; TREES; TROPICAL CLIMATE;

AFRICA; EAST AFRICA; EASTERN HEMISPHERE; KENYA; SUB-SAHARAN AFRICA; WORLD;

BACTERIA (MICROORGANISMS); KAKAMEGA; ZEA MAYS;

EID: 19944392939     PISSN: 00953628     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00248-003-0209-6     Document Type: Article

References (53)

1. Albrecht, A (2002) Improved fallow by legume plants (trees, shrubs and grasses) in Eastern and Southern Africa. Impact of soil biota (SOM, roots, BNF microbes, mycorrhiza, and soil fauna), improvement on bean and maize yields, soil organic matter dynamics and soil conservation. First Annual Report. IMPALA project, INCO-DEV (1998-2002)
2. Andrén, O, Bengtsson, J, Clarholm, M (1995) "Biodiversity and species redundancy among litter decomposers." In: Collins, HP, Robertson, GP, Klug, MJ (Eds.), The Significance and Relation of Soil Biodiversity, Kluwer, Dordrecht, pp 141-151
3. E Bååth A Frostegård T Pennanen H Fritze 1995 Microbial community structure and pH response in relation to soil organic matter quality in wood-ash fertilized, clear-cut or burned coniferous forest soils. Soil Biol Biochem 2 229 240
4. MH Beare G Tian UM Reddy SC Srivastava 1997 Agricultural intensification, soil biodiversity and agroecosystems function: the role of decomposer biota. Appl Soil Ecol 6 87 108
5. H Black M Okwakol 1997 Agricultural intensification, soil biodiversity and agroecosystems function: the role of termites. Appl Soil Ecol 6 37 53
6. J Borneman EW Triplett 1997 Molecular microbial diversity in soils from Eastern Amazonia: evidence for unusual microorganisms and microbial population shifts associated with deforestation. Appl Environ Microbiol 63 2647 2653
7. DA Bossio KM Scow 1998 Impacts of carbon and flooding on soil microbial communities: phospholipid fatty acid profiles and substrate utilization patterns. Microb Ecol 35 265 278
8. DA Bossio KM Scow N Gunapala KJ Graham 1998 Determinants of soil microbial communities: effects of agricultural management, season, and soil type on phospholipid fatty acid profiles. Microb Ecol 36 1 12
9. Brussaard, L, Hauser, S, Tian, G (1993) "Soil faunal activity in relation to the sustainability of agricultural systems in the humid tropics." In: Soil Organic Matter Dynamics and the Sustainability of Tropical Agriculture. Proceedings of an International Symposium, Leuven, Belgium, 4-6 November 1991, 241-256
10. DH Buckley TM Schmidt 2001 The structure of microbial communities in soil and the lasting impact of cultivation. Microb Ecol 42 11 21
11. CD Clegg K Ritz BS Griffiths 1998 Broad-scale analysis of soil microbial community DNA from upland grasslands. Anton Leeuwen Int J Gen Mol Microbiol 73 9 14
12. CD Clegg K Ritz BS Griffiths 2000 %G+C profiling and cross hybridisation of microbial DNA reveals great variation in below-ground community structure in UK upland grasslands. Appl Soil Ecol 14 125 134
13. EA Davidson IL Ackerman 1993 Changes in soil carbon inventories following cultivation of previously untilled soils. Biogeochem 20 161 193
14. JW Doran MR Zeiss 2000 Soil health and sustainability: managing the biotic component of soil quality. Appl Soil Ecol 15 3 11
15. Federle, TW (1986) "Microbial distribution in soil-new techniques." In: Megusar, T, Ganthar, M (Eds.), Perspectives in Microbial Ecology, Ljubljana, pp 493-498
16. A Felske A Wolterink R van Lis ADL Akkermans 1998 Phylogeny of the main bacterial 16S rRNA sequences in Drentse A grassland soils (The Netherlands). Appl Environ Microbiol 64 871 879
17. C Fragoso G Brown C Parton E Blanchartg P Lavelle B Pashanasi B Senapati 1997 Agricultural intensification, soil biodiversity and agroecosystems function: the role of earthworms. Appl Soil Ecol 6 17 35
18. JK Fredrickson DL Balkwill JM Zachara SMW Li FJ Brockman MA Simmons 1991 Physiological diversity and distributions of heterotrophic bacteria in deep Cretaceous sediments of the Atlantic coastal plain. Appl Environ Microbiol 57 402 411
19. A Gelsomino AC Keijzer-Wolters G Cacco JD van Elsas 1999 Assessment of bacterial community structure in soil by polymerase chain reaction and denaturing gradient gel electrophoresis electrophoresis. J Microbiol Methods 38 l 15
20. KE Giller MH Beare P Lavelle AMN Izac MJ Swift 1997 Agricultural intensification, soil biodiversity and agroecosystem function. Appl Soil Ecol 6 3 16
21. KE Giller 2001 Nitrogen Fixation in Tropical Cropping Systems, 2nd ed. CAB International Wallingford,UK
22. MS Girvan J Bullimore JN Pretty AM Osborn AS Ball 2003 Soil type is the primary determinant of the composition of the total and active bacterial communities in arable soils. Appl Environ Microbiol 69 1800 1809
23. NCM Gomes O Fagbola R Costa NG Rumjanek A Buchner L Mendona-Hagler K Smalla 2003 Dynamics of fungal communities in bulk and maize rhizosphere soil in the tropics. Appl Environ Microbiol 69 3758 3766
24. SK Haack H Garchow DA Odelson LJ Forney MJ Klug 1994 Accuracy, reproducibility, and interpretation of fatty acid methyl ester profiles of model bacterial communities. Appl Environ Microbio 60 2483 2493
25. L Heneghan DC Coleman DA Crossley X Zou 1999 Nitrogen dynamics in decomposing chestnut oak (Quercus pinus L.) in mesic temperate and tropical forest. Appl Soil Ecol 13 169 175
26. Jimenez, JJ, Moreno, AG, Lavelle, P, Decaens, T, Angel, AF, Thomas, RJ (1996) "Ecology and biology of a new tropical earthworm Martiodrilus carimaguensis (Oligochaeta, Glossoscolecidae)." In: Swift, MJ (Ed.), The Biology and Fertility of Tropical Soils, Report of the Tropical Soil Biology and Fertility Programme, TSBF, pp 15
27. JHP Kahindi P Woomer T George FMD Moreira NK Karanja KE Giller 1997 Agricultural intensification, soil biodiversity and ecosystem function in the tropics: the role of nitrogen-fixing bacteria. Appl Soil Ecol 6 55 76
28. Kroppenstedt, Rm (1985) "Fatty acid and menaquinone analysis of actinomycetes and related organisms." In: Goodfellow, M, Minnikin, DE (Eds.), Chemical Methods in Bacterial Systematics, Academic Press, London, pp 173-199
29. Lawton, JH, Brown, VK (1993) "Redundancy in ecosystem." In: Schultz, ED, Moonet, HA (Eds.), Biodiversity and Ecosystem Function, Springer, Berlin
30. E Lundquist K Scow L Jackson S Uesugi C Johnson 1999 Rapid response of soil microbial communities from conventional, low input, and organic farming systems to a wet/dry cycle. Soil Biol Biochem 31 1661 1675
31. Mafongoya, PL, Mpepereki, S, Dzowela, E, Mangwayana, E, Makonese, F (1996) "Soil biota: effect of pruning quality and the method of pruning placement on soil microbial composition." In: Swift, MJ (Ed.), The Biology and Fertility of Tropical Soils, Report of the Tropical Soil Biology and Fertility Programme, TSBF, pp 31-32
32. AE McCaig LA Glover JI Prosser 2001 Numerical analysis of grassland bacterial community structure under different land management regimens by using 16S ribosomal DNA sequence data and denaturing gradient gel electrophoresis banding patterns. Appl Environ Microbiol 67 4554 4559
33. G Muyzer EC de Waal AG Uitterlinden 1993 Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl Environ Microbiol 59 695 700
34. Nelson, DW, Sommers, LE (1994) "Total carbon, organic carbon, and organic matter." In: Weaver, RW, Angle, S, Bottomley, P, Bezdicek, D, Smith, S, Tbatai, A, Wollum, A (Eds.), Methods of Soil Analysis: Part 2. Microbial and Biochemical Properties, Soil Science Society of America, Madison, WI, pp 539-579
35. K Nusslein JM Tiedje 1999 Soil bacterial community shift correlated with change from forest to pasture vegetation in a tropical soil. Appl Environ Microbiol 65 3622 3626
36. Oldeman, LR (1994) "The global extent of soil degradation." In: Greenland, DJ, Szabolcs, I (Eds.), Soil Resilience and Sustainable Land Use, CAB International, Wallingford, UK, pp 99-118
37. CA Palm MJ Swift PL Woomer 1996 Soil biological dynamics in slash-and-burn agriculture. Agr Ecosys Environ 58 61 74
38. F Ponder M Tadros 2002 Phospholipid fatty acids in forest soil four years after organic matter removal and soil compaction. Appl Soil Ecol 19 173 182
39. J Pretty 2002 Agri-Culture Earthscan Londor
40. Qafoku, NP, Van Ranst, E, Noble, A, Baert, G (2003) "Mineralogy and chemistry of variable charge soils." In: Lal, R (Ed.), Encyclopedia of Soil Science, Marcel Dekker, New York
41. EF Salamanca M Raubuch RG Joergensen 2002 Relationships between soil microbial indices in secondary tropical forest soils. Appl Soil Ecol 21 211 219
42. Sanchez, PA, Palm, CA, Szott, LT, Cuevas, E, Lal, R (1989) "Organic input management in tropical agroecosystems." In: Coleman, DC, Oades, JM, Uehara, G (Eds.), Dynamics of Soil Organic Matter in Tropical Ecosystems, NifTAL Project, University of Hawaii, Honolulu, HI, pp 125-152
43. CE Shannon W Weaver 1949 The Mathematical Theory of Communication University of Dlinois Press Champaign, IL
44. Srivastava, SC (1996) "Microbial biomass and activity in dryland agriculture." In: Swift, MJ (Ed.), The Biology and Fertility of Tropical Soils, Report of the Tropical Soil Biology and Fertility Programme, TSBF, pp 35
45. MJ Swift O Andren L Brussaard M Briones M-M Couteaux K Ekschmitt A Kjoller P Loiseau P Smith 1998 Global change, soil biodiversity, and nitrogen cycling in terrestrial ecosystems: three case studies. Global Change Biol 4 729 743
46. Swift, MJ, Mafongoya, P, Ramakrishnan, PS (1998) "Soil biodiversity: an essential foundation for sustainable soil fertility." In: Chopra, VL, Single, RB, Varma, A (Eds.), Crop Productivity and Sustainability: Shaping the Future. Proceedings of the 2nd International Crop Science Congress, New Delhi, IBH Publishers, New Delhi, pp 321-333
47. MA Tabatabai JM Bremner 1969 Use of p-nitrophenol phosphate in assay of soil phosphatase activity. Soil Biol Biochem 1 301 307
48. CJF ter Braak 1987 Data Analysis in Community and Landscape Ecology Centre for Agricultural Publishing and Documentation, Wageningen The Netherlands
49. CJF ter Braak 1990 CANOCO: A Fortranrogram for Canonical Community Ordination; Update Notes Agricultural Mathematics Group Wageningen, The Netherlands
50. Voroney, RP, Winter, JP, Bayaert, RP (1993) "Soil microbial biomass C and N." In: Carter, MP (Ed.), Soil Sampling and Methods of Analysis, Lewis Publishers, London, pp 277-286
51. MP Waldrop TC Balser MK Firestone 2000 Linking microbial community composition to function in a tropical soil. Soil Biol Biochem 32 1837 1846
52. L Zelles QY Bai T Beck F Beese 1992 Signature fatty acids in phospholipids and lipopolysaccharides as indicators of microbial biomass and community structure in agricultural soils. Soil Biol Biochem 24 317 323
53. L Zelles 1999 Fatty acid patterns of phospholipids and lipopolysaccharides in the characterisation of microbial communities in soil: a review. Biol Fertil Soils 29 111 129