Evolution of bacterial communities in the wheat crop rhizosphere

Environmental Microbiology

Volumn 17, Issue 3, 2015, Pages 610-621

  Donn, Suzanne ^a   Kirkegaard, John A ^a   Perera, Geetha ^a   Richardson, Alan E ^a   Watt, Michelle ^a  

^a CSIRO   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIA (MICROORGANISMS); TRITICUM AESTIVUM;

SOIL;

BACTERIUM; CLASSIFICATION; EVOLUTION; GENETICS; ISOLATION AND PURIFICATION; MICROBIAL CONSORTIUM; MICROBIOLOGY; MICROFLORA; PLANT; PLANT ROOT; RHIZOSPHERE; SEASON; SOIL; WHEAT;

BACTERIA; BIOLOGICAL EVOLUTION; MICROBIAL CONSORTIA; MICROBIOTA; PLANT ROOTS; PLANTS; RHIZOSPHERE; SEASONS; SOIL; SOIL MICROBIOLOGY; TRITICUM;

EID: 84924956835     PISSN: 14622912     EISSN: 14622920     Source Type: Journal    
DOI: 10.1111/1462-2920.12452     Document Type: Article

References (29)

1. Bertin, C., Yang, X.H., and Weston, L.A. (2003) The role of root exudates and allelochemicals in the rhizosphere. Plant Soil 256: 67-83.
2. Bissett, A., Richardson, A.E., Baker, G., Wakelin, S., and Thrall, P.H. (2010) Life history determines biogeographical patterns of soil bacterial communities over multiple spatial scales. Mol Ecol 19: 4315-4327.
3. Bulgarelli, D., Rott, M., Schlaeppi, K., van Themaat, E.V.L., Ahmadinejad, N., Assenza, F., etal. (2012) Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota. Nature 488: 91-95.
4. Cassman, K.G. (1999) Ecological intensification of cereal production systems: yield potential, soil quality, and precision agriculture. Proc Natl Acad Sci USA 96: 5952-5959.
5. Fierer, N., Bradford, M.A., and Jackson, R.B. (2007) Toward an ecological classification of soil bacteria. Ecology 88: 1354-1364.
6. Fischer, R.A.T., and Edmeades, G.O. (2010) Breeding and cereal yield progress. Crop Sci 50: S85-S98.
7. Ghirardi, S., Dessaint, F., Mazurier, S., Corberand, T., Raaijmakers, J.M., Meyer, J.-M., etal. (2012) Identification of traits shared by rhizosphere-competent strains of fluorescent pseudomonads. Microb Ecol 64: 725-737.
8. de Graaff, M.-A., Six, J., Jastrow, J.D., Schadt, C.W., and Wullschleger, S.D. (2013) Variation in root architecture among switchgrass cultivars impacts root decomposition rates. Soil Biol Biochem 58: 198-206.
9. Gregory, P.J., and Atwell, B.J. (1991) The fate of carbon in pulse-labelled crops of barley and wheat. Plant Soil 136: 205-213.
10. Hartmann, A., Rothballer, M., and Schmid, M. (2008) Lorenz Hiltner, a pioneer in rhizosphere microbial ecology and soil bacteriology research. Plant Soil 312: 7-14.
11. Hirsch, P.R., and Mauchline, T.H. (2012) Who's who in the plant root microbiome. Nat Biotechnol 30: 961-962.
12. Kirby, R. (2006) Actinomycetes and lignin degradation. Adv Appl Microbiol 58: 125-168.
13. Lobell, D.B., Cassman, K.G., and Field, C.B. (2009) Crop yield gaps: their importance, magnitudes and causes. Annu Rev Environ Resour 34: 179-204.
14. Lundberg, D.S., Lebeis, S.L., Paredes, S.H., Yourstone, S., Gehring, J., Malfatti, S., etal. (2012) Defining the core Arabidopsis thaliana root microbiome. Nature 488: 86-90.
15. 14C in roots and root exudates of field-grown maize. Physiol Plantarum 65: 380-392.
16. Morrissey, J.P., Dow, J.M., Mark, G.L., and O'Gara, F. (2004) Are microbes at the root of a solution to world food production? Rational exploitation of interactions between microbes and plants can help to transform agriculture. EMBO Rep 5: 922-926.
17. Parks, D.H., and Beiko, R.G. (2010) Identifying biologically relevant differences between metagenomic communities. Bioinformatics 26: 715-721.
18. Schloss, P.D., Westcott, S.L., Ryabin, T., Hall, J.R., Hartmann, M., Hollister, E.B., etal. (2009) Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75: 7537-7541.
19. Semenov, A.M., van Bruggen, A.H.C., and Zelenev, W. (1999) Moving waves of bacterial populations and total organic carbon along roots of wheat. Microb Ecol 37: 116-128.
20. Simpfendorfer, S., Kirkegaard, J.A., Heenan, D.P., and Wong, P.T.W. (2002) Reduced early growth of direct drilled wheat in southern New South Wales - role of root inhibitory pseudomonads. Aust J Agric Res 53: 323-331.
21. Tarkka, M.T., Lehr, N.-A., Hampp, R., and Schrey, S.D. (2008) Plant behavior upon contact with Streptomycetes. Plant Signal Behav 3: 917-919.
22. Thirup, L., Johnsen, K., and Winding, A. (2001) Succession of indigenous Pseudomonas spp. and actinomycetes on barley roots affected by the antagonistic strain Pseudomonas fluorescens Dr54 and the fungicide imazalil. Appl Environ Microbiol 67: 1147-1153.
23. Watt, M., McCully, M.E., and Kirkegaard, J.A. (2003) Soil strength and rate of root elongation alter the accumulation of Pseudomonas spp. and other bacteria in the rhizosphere of wheat. Funct Plant Biol 30: 483-491.
24. Watt, M., Kirkegaard, J.A., and Rebetzke, G.J. (2005) A wheat genotype developed for rapid leaf growth copes well with the physical and biological constraints of unploughed soil. Funct Plant Biol 32: 695-706.
25. Watt, M., Kirkegaard, J.A., and Passioura, J.B. (2006a) Rhizosphere biology and crop productivity - a review. Aust J Soil Res 44: 299-317.
26. Watt, M., Hugenholtz, P., White, R., and Vinall, K. (2006b) Numbers and locations of native bacteria on field-grown wheat roots quantified by fluorescence in situ hybridization (FISH). Environ Microbiol 8: 871-884.
27. Watt, M., Magee, L.J., and McCully, M.E. (2008) Types, structure and potential for axial water flow in the deepest roots of field-grown cereals. New Phytol 178: 135-146.
28. Welbaum, G.E., Sturz, A.V., Dong, Z.M., and Nowark, J. (2004) Managing soil microorganisms to improve productivity of agro-ecosystems. Crit Rev Plant Sci 23: 175-193.
29. White, J.R., Nagarajan, N., and Pop, M. (2009) Statistical methods for detecting differentially abundant features in clinical metagenomic samples. PLoS Comput Biol 5: e1000352.