Community analysis of arbuscular mycorrhizal fungi and bacteria in the maize mycorrhizosphere in a long-term fertilization trial

FEMS Microbiology Ecology

Volumn 65, Issue 2, 2008, Pages 323-338

  Toljander, Jonas F ^b   Santos González, Juan C ^a,b   Tehler, Anders ^a   Finlay, Roger D ^b  

^a SWEDISH MUSEUM OF NATURAL HISTORY   (Sweden)

^b SWEDISH UNIVERSITY OF AGRICULTURAL SCIENCES   (Sweden)

Author keywords

Arbuscular mycorrhizal fungi; Bacteria; Community structure; Soil; Sustainable agriculture; Zea mays

Indexed keywords

AMMONIUM SULFATE; CALCIUM NITRATE; FERTILIZER; MINERAL FERTILIZER; ORGANIC FERTILIZER; PHOSPHATE;

AGRICULTURAL SOIL; ARBUSCULAR MYCORRHIZA; COMMUNITY COMPOSITION; FERTILIZER APPLICATION; FUNGUS; GROWING SEASON; MAIZE; MICROBIAL COMMUNITY; RHIZOBACTERIUM; RHIZOSPHERE; SOIL MICROORGANISM; SPECIES RICHNESS;

ARBUSCULAR MYCORRHIZA; BACTERIUM; CONFERENCE PAPER; CORRELATION ANALYSIS; FERTILIZATION; FUNGUS; GENE SEQUENCE; MAIZE; MANURE; MICROBIAL COMMUNITY; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; PH; PLANT ROOT; PRIORITY JOURNAL; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; SLUDGE; SOIL AGGREGATION; TAXON;

BACTERIA; ECOSYSTEM; FERTILIZERS; FUNGI; MOLECULAR SEQUENCE DATA; MYCORRHIZAE; PHYLOGENY; PLANT ROOTS; POLYMERASE CHAIN REACTION; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RNA, RIBOSOMAL, 18S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; ZEA MAYS;

EURASIA; EUROPE; NORTHERN EUROPE; SCANDINAVIA; SWEDEN;

ARBUSCULAR; BACTERIA (MICROORGANISMS); FUNGI; ZEA MAYS;

EID: 47249122627     PISSN: 01686496     EISSN: 15746941     Source Type: Journal    
DOI: 10.1111/j.1574-6941.2008.00512.x     Document Type: Conference Paper

References (65)

1. Altschul SF, Thomas LS, Alejandro AS, Jingui Z, Webb M David JL (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389 3402.
2. Budi SW, van Tuinen D, Martinotti G Gianinazzi S (1999) Isolation from the Sorghum bicolor mycorrhizosphere of a bacterium compatible with arbuscular mycorrhiza development and antagonistic towards soilborne fungal pathogens. Appl Environ Microbiol 65: 5148 5150.
3. Clapp JP, Rodriguez A Dodd JC (2001) Inter- and intra- isolate rRNA large sub-unit variation in spores of Glomus coronatum. New Phytol 149: 539 554.
4. Colwell R (2005) EstimateS: Statistical estimation of species richness and shared species from samples. Version 7.5. User's Guide and application published at:.
5. Cornejo P, Azcon-Aguilar C, Barea JM Ferrol N (2004) Temporal temperature gradient gel electrophoresis (TTGE) as a tool for the characterization of arbuscular mycorrhizal fungi. FEMS Microbiol Lett 241: 265 270.
6. Daniell TJ, Husband R, Fitter AH Young JPW (2001) Molecular diversity of arbuscular mycorrhizal fungi colonising arable crops. FEMS Microbiol Ecol 36: 203 209.
7. Dickie IA, Koide RT Steiner KC (2002) Influences of established trees on mycorrhizas, nutrition, and growth of Quercus rubra seedlings. Ecol Monogr 72: 505 521.
8. Douhan GW, Petersen C, Bledsoe CS Rizzo DM (2005) Contrasting root associated fungi of three common oak-woodland plant species based on molecular identification: host specificity or non-specific amplification? Mycorrhiza 15: 365 372.
9. Enwall K, Philippot L Hallin S (2005) Activity and composition of the denitrifying bacterial community respond differently to long-term fertilization. Appl Environ Microbiol 71: 8335 8343.
10. Esperschutz J, Gattinger A, Mader P, Schloter M Fliessbach A (2007) Response of soil microbial biomass and community structures to conventional and organic farming systems under identical crop rotations. FEMS Microbiol Ecol 61: 26 37.
11. Fierer N Jackson RB (2006) The diversity and biogeography of soil bacterial communities. Proc Natl Acad Sci USA 103: 626 631.
12. Fliessbach A Mäder P (2000) Microbial biomass and size-density fractions differ between soils of organic and conventional agricultural systems. Soil Biol Biochem 32: 757 768.
13. Goloboff P, Farris J Nixon K (2003) T.N.T.: Tree Analysis Using New Technology.
14. Gomes NCM, Fagbola O, Costa R, Rumjanek NG, Buchner A, Mendona-Hagler L Smalla K (2003) Dynamics of fungal communities in bulk and maize rhizosphere soil in the tropics. Appl Environ Microbiol 69: 3758 3766.
15. Gosling P, Hodge A, Goodlass G Bending GD (2006) Arbuscular mycorrhizal fungi and organic farming. Agric Ecosyst Environ 113: 17 35.
16. Gryndler M, Hršelová H, Vosatká M, Votruba J Klir J (2001) Organic fertilization changes the response of mycelium of arbuscular mycorrhizal fungi and their sporulation to mineral NPK supply. Folia Microbiol 46: 540 542.
17. Gryndler M, Vosatka M, Hrselova H, Chvatalova I Jansa J (2002) Interaction between arbuscular mycorrhizal fungi and cellulose in growth substrate. Appl Soil Ecol 19: 279 288.
18. Gryndler M, Hršelová H, Sudová R, Gryndlerová H Merhautová V (2005) Hyphal growth and mycorrhiza formation by the arbuscular mycorrhizal fungus Glomus claroideum BEG 23 is stimulated by humic substances. Mycorrhiza 15: 483 488.
19. Gryndler M, Larsen J, Hršelová H, Rezácová V, Gryndlerová H Kubát J (2006) Organic and mineral fertilization, respectively, increase and decrease the development of external mycelium of arbuscular mycorrhizal fungi in a long-term field experiment. Mycorrhiza 16: 159 166.
20. Hartmann M Widmer F (2006) Community structure analyses are more sensitive to differences in soil bacterial communities than anonymous diversity indices. Appl Environ Microbiol 72: 7804 7812.
21. Heinemeyer A, Ridgway KP, Edwards EJ, Benham DG, Young JPW Fitter AH (2004) Impact of soil warming and shading on colonization and community structure of arbuscular mycorrhizal fungi in roots of a native grassland community. Global Change Biol 10: 52 64.
22. Helgason T, Daniell TJ, Husband R, Fitter AH Young JPW (1998) Ploughing up the wood-wide web? Nature 394: 431.
23. Helgason T, Fitter AH Young JPW (1999) Molecular diversity of arbuscular mycorrhizal fungi colonising Hyacinthoides non-scripta (bluebell) in a seminatural woodland. Mol Ecol 8: 659 666.
24. Hijri I, Sykorova Z, Oehl F, Ineichen K, Mader P, Wiemken A Redecker D (2006) Communities of arbuscular mycorrhizal fungi in arable soils are not necessarily low in diversity. Mol Ecol 15: 2277 2289.
25. Husband R, Herre EA, Turner SL, Gallery R Young JPW (2002) Molecular diversity of arbuscular mycorrhizal fungi and patterns of host association over time and space in a tropical forest. Mol Ecol 11: 2669 2678.
26. Jensen A Jakobsen I (1980) The ocurrence of vesicular-arbuscular mycorrhiza in barley and wheat grown in some Danish soils with different fertilizer treatments. Plant Soil 55: 403 414.
27. Johansson JF, Paul LR Finlay RD (2004) Microbial interactions in the mycorrhizosphere and their significance for sustainable agriculture. FEMS Microbiol Ecol 48: 1 13.
28. Johnson D, Leake JR Read DJ (2005) Liming and nitrogen fertilization affects phosphatase activities, microbial biomass and mycorrhizal colonisation in upland grassland. Plant Soil 271: 157 164.
29. Jumpponen A (2001) Dark septate endophytes-are they mycorrhizal? Mycorrhiza 11: 207 211.
30. Jumpponen A, Trowbridge J, Mandyam K Johnson L (2005) Nitrogen enrichment causes minimal changes in arbuscular mycorrhizal colonization but shifts community composition-evidence from rDNA data. Biol Fertil Soils 41: 217 224.
31. Kirchmann H, Persson J Carlgren K (1994) The Ultuna long-term soil organic matter experiment, 1956-1991. PhD Thesis, Swedish University of Agricultural Sciences, Uppsala.
32. Kjoller R Rosendahl S (2001) Molecular diversity of glomalean (arbuscular mycorrhizal) fungi determined as distinct Glomus specific DNA sequences from roots of field grown peas. Mycolog Res 105: 1027 1032.
33. Lane D (1991) 16S/23S rRNA sequencing. Nucleic Acid Techniques in Bacterial Systematics (Stackebrandt E Goodfellow M, eds), pp. 115 175. John Wiley and Sons, New York.
34. Mäder P, Edenhofer S, Boller T, Wiemken A Niggli U (2000) Arbuscular mycorrhizae in a long-term field trial comparing low-input (organic, biological) and high-input (conventional) farming systems in a crop rotation. Biol Fertil Soils 31: 150 156.
35. Mäder P, Fliessbach A, Dubois D, Gunst L, Fried P Niggli U (2002) Soil fertility and biodiversity in organic farming. Science 296: 1694 1697.
36. Mansfeld-Giese K, Larsen J Bodker L (2002) Bacterial populations associated with mycelium of the arbuscular mycorrhizal fungus Glomus intraradices. FEMS Microbiol Ecol 41: 133 140.
37. McCune B Mefford MJ (1999) PC-ORD. Multivariate Analysis of Ecological Data. Version 4.25 (Software M, ed). Gleneden Beach, Oregon.
38. Muyzer G, Dewaal EC Uitterlinden AG (1993) Profiling of complex microbial-populations by denaturing gradient gel-electrophoresis analysis of polymerase chain reaction-amplified genes-coding for 16S ribosomal-RNA. Appl Environ Microbiol 59: 695 700.
39. Newsham KK, Fitter AH Watkinson AR (1995) Arbuscular mycorrhiza protect an annual grass from root pathogenic fungi in the field. J Ecol 83: 991 1000.
40. Nyberg K (2006) Impact of Organic Waste Residues on Structure and Function of Soil Bacterial Communities. PhD Thesis, Swedish University of Agricultural Sciences, Uppsala.
41. Oehl F, Sieverding E, Ineichen K, Mader P, Boller T Wiemken A (2003) Impact of land use intensity on the species diversity of arbuscular mycorrhizal fungi in agroecosystems of Central Europe. Appl Environ Microbiol 69: 2816 2824.
42. Oehl F, Sieverding E, Mader P, Dubois D, Ineichen K, Boller T Wiemken A (2004) Impact of long-term conventional and organic farming on the diversity of arbuscular mycorrhizal fungi. Oecologia 138: 574 583.
43. Oehl F, Sieverding E, Ineichen K, Ris EA, Boller T Wiemken A (2005) Community structure of arbuscular mycorrhizal fungi at different soil depths in extensively and intensively managed agroecosystems. New Phytol 165: 273 283.
44. Öpik M, Moora M, Liira J Zobel M (2006) Composition of root-colonizing arbuscular mycorrhizal fungal communities in different ecosystems around the globe. J Ecol 94: 778 790.
45. Rambaut A (1996) Se-Al: Sequence Alignment Editor. Version 2.0a11.
46. Rambelli A (1973) The Rhizosphere of mycorrhizae. Ectomycorrhizae (Marks GL Koslowski TT, eds), pp. 299 343. Academic Press, New York.
47. Redecker D Raab P (2006) Phylogeny of the Glomeromycota (arbuscular mycorrhizal fungi): recent developments and new gene markers. Mycologia 98: 885 895.
48. Santos JC, Finlay RD Tehler A (2006) Molecular analysis of arbuscular mycorrhizal fungi colonising a semi-natural grassland along a fertilisation gradient. New Phytol 172: 159 168.
49. Santos-González JC, Finlay RD Tehler A (2007) Seasonal dynamics of arbuscular mycorrhizal fungal communities in roots in a seminatural grassland. Appl Environ Microbiol 73: 5613 5623.
50. Scheublin T, Ridgway K, Young JPW van der Hejden M (2004) Nonlegumes, legumes, and root nodules harbour different arbuscular mycorrhizal fungal communities. Appl Environ Microbiol 70: 6240 6246.
51. Schüßler A, Schwarzott D Walker C (2001) A new fungal phylum, the Glomeromycota: phylogeny and evolution. Mycol Res 105: 1413 1421.
52. Schwarzott D, Walker C Schuessler A (2001) Glomus, the largest genus of the arbuscular mycorrhizal fungi (Glomales), is non monophyletic. Mol Phylogenet Evol 21: 190 197.
53. Sessitsch A, Weilharter A, Gerzabek MH, Kirchmann H Kandeler E (2001) Microbial population structures in soil particle size fractions of a long-term fertilizer field experiment. Appl Environ Microbiol 67: 4215 4224.
54. Simon L, Lalonde M Bruns TD (1992) Specific amplification of 18S ribosomal genes from VA endomycorrhizal fungi colonizing roots. Appl Environ Microbiol 58: 291 295.
55. Tehler A, Little DP Farris JS (2003) The full-length phylogenetic tree from 1551 ribosomal sequences of chitinous fungi, Fungi. Mycol Res 107: 901 916.
56. ter Braak CJF Smilauer P (1998) Canoco Reference Manual and User's Guide to Canoco for Windows: Software for Canonical Community Ordination (version 4). Microcomputer Power, Ithaca, NY.
57. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F Higgins DG (1997) The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acid Res 24: 4876 4882.
58. Toljander JF, Artursson V, Paul LR, Jansson JK Finlay RD (2006) Attachment of different soil bacteria to arbuscular mycorrhizal fungal extraradical hyphae is determined by hyphal vitality and fungal species. FEMS Microbiol Lett 254: 34 40.
59. Toljander JF, Lindahl BD, Paul LR, Elfstrand M Finlay RD (2007) Influence of arbuscular mycorrhizal mycelial exudates on soil bacterial growth and community structure. FEMS Microbiol Ecol 61: 295 304.
60. Vandenkoornhuyse P, Husband R, Daniell TJ, Watson IJ, Duck JM, Fitter AH Young JPW (2002) Arbuscular mycorrhizal community composition associated with two plant species in a grassland ecosystem. Mol Ecol 11: 1555 1564.
61. van der Heijden MGA, Klironomos JN, Ursic M, Moutoglis P, Streitwolf-Engel R, Boller T, Wiemken A Sanders IR (1998) Mycorrhizal fungal diversity determines plant biodiversity, ecosystem variability and productivity. Nature 396: 69 72.
62. Vessey JK (2003) Plant growth promoting rhizobacteria as biofertilizers. Plant Soil 255: 571 586.
63. 13C]-labelled glucose in soils of contrasting pH and metal status. Soil Biol Biochem 27: 1507 1516.
64. Witter E, Mårtensson AM Garcia FV (1993) Size of the soil microbial biomass in a long-term field experiment as affected by different N-fertilizers and organic manures. Soil Biol Biochem 25: 659 669.
65. Zhang H, Sekiguchi Y, Hanada S, Hugenholtz P, Kim H, Kamagata Y Nakamura K (2003) Gemmatimonas aurantiaca gen. nov., sp. nov., a gram-negative, aerobic, polyphosphate-accumulating micro-organism, the first cultured representative of the new bacterial phylum Gemmatimonadetes phyl. nov. Int J Syst Evol Microbiol 53: 1155 1163.