Analysis of bacterial communities in rhizosphere soil of healthy and diseased cotton (Gossypium sp.) at different plant growth stages

Plant and Soil

Volumn 339, Issue 1, 2011, Pages 447-455

  Zhang, Yan ^a   Du, Bing Hai ^a   Jin, Zhi gang ^a   Li, Zheng hua ^a   Song, Hong ning ^a   Ding, Yan Qin ^a  

^a SHANDONG AGRICULTURAL UNIVERSITY   (China)

Author keywords

16S rDNA clone library; Bacterial community; Cotton rhizosphere; T RFLP; Verticillium dahliae Kleb.

Indexed keywords

BACTERIAL DISEASE; BACTERIUM; COTTON; MICROBIAL COMMUNITY; POLYMORPHISM; RHIZOSPHERE; SAMPLING; SPECIES EVENNESS; SPECIES RICHNESS;

ACIDOBACTERIA; ACTINOBACTERIA; BACTERIA (MICROORGANISMS); BACTEROIDETES; CHLOROFLEXI; CYANOBACTERIA; DEINOCOCCUS; DEINOCOCCUS-THERMUS; FIRMICUTES; FUNGI; GEMMATIMONADETES; GOSSYPIUM; GOSSYPIUM HIRSUTUM; PLANCTOMYCETES; PROTEOBACTERIA; THERMOMICROBIA (CLASS); THERMUS; UNCLASSIFIED BACTERIA; VERRUCOMICROBIA; VERTICILLIUM DAHLIAE;

EID: 78651442455     PISSN: 0032079X     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11104-010-0600-2     Document Type: Article

References (34)

1. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215: 403-410.
2. Amann RI, Ludwig W, Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Mol Biol Rev 59: 143-169.
3. Andrews JH, Harris RF (1986) 2- and K-selection and microbial ecology. Adv Microb Ecol 9: 99-147.
4. Barns SM, Takala SL, Kuske CR (1999) Wide distribution and diversity of members of the bacterial kingdom Acidobacterium in the environment. Appl Environ Microbiol 65: 1731-1737.
5. Berg G, Opelt K, Zachow C, Lottmann J, Götz M, Costa R, Smalla K (2006) The rhizosphere effect on bacteria antagonistic towards the pathogenic fungus Verticillium differs depending on plant species and site. Microbiology Ecology 56: 250-261.
6. Borneman J, Skroch PW, O'Sullivan KM, Palus JA, Rumjanek NG, Jansen JL, Nienhuis J, Triplett EW (1996) Molecular microbial diversity of an agricultural soil in Wisconsin. Appl Environ Microbiol 62: 1935-43.
7. Bowen GD, Rovira AD (1991) The rhizosphere, the hidden half. In: Waisel Y, Eshel A, Kafkafi U (eds) Plant roots: the hidden half. Marcel Dekker, New York, pp 641-649.
8. Brimecombe MJ, De Lelj FA, Lynch JM (2001) The effect of root exudates on rhizosphere microbial populations. In: Pinton R, Varanini Z, Nannipieri P (eds) The rhizosphere. Biochemistry and organic substances at the soil-plant interface. Marcel Dekker, New York, pp 95-140.
9. Curl EA, Truelove B (1986) The rhizosphere. Advanced Series in Agriculture Sciences, Springer.
10. DeLong EF (1992) Archaea in coastal marine environments. Proc Natl Acad Sci USA 89: 5685-5689.
11. DeSantis TZ, Hugenholtz P, Larsen N, Rojas M, Brodie EL, Keller K, Huber T, Dalevi D, Hu P, Andersen GL (2006) Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl Environ Microbiol 72: 5069-5072.
12. Dunbar J, Ticknor LO, Kuske CR (2001) Phylogenetic specificity and reproducibility and new method for analysis of terminal restriction fragment profiles of 16S rRNA genes from bacterial communities. Appl Environ Microbiol 67: 190-197.
13. Feng J, Chen QY, Shi LY (1991) Studies on relation between root exudates of cotton seedling and Fusarium wilt disease. Acta Gossypii sinica 3(1): 89-96, in Chinese.
14. Gomes NCM, Heuer H, Schönfeld J, Costa R, Mendonca-Hagler L, Smalla K (2001) Bacterial diversity of the rhizosphere of maize (Zea mays) grown in tropical soil studied by temperature gradient gel electrophoresis. Plant Soil 232: 167-180.
15. Gouinguené SP, Turlings TCJ (2002) The effects of abiotic factors on induced volatile emissions in corn plants. Plant Physiol 129: 1296-1307.
16. Hagedorn C, Gould WD, Bardinelli TR (1989) Rhizobacteria of cotton and their repression of seedling disease pathogens. Appl Environ Microbiol 55: 2793-2797.
17. Hale MG, Moore LD, Griffin GJ (1978) Root exudates and exudation. In: Dommergues YR, Krupa SV (eds) Interactions between non-pathogen soil microorganisms and plants. Elsevier, New York, pp 163-203.
18. Hartmann A, Schmid M, Dv T, Berg G (2008) Plant-driven selection of microbes. Plant and Soil 321: 235-257.
19. Hugenholtz P, Goebel BM, Pace NR (1998) Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J Bacteriol 180: 4765-4774.
20. Janssen PH (2006) Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes. Appl Environ Microbiol 72: 1719-1728.
21. Katznelson H, Rouatt JW, Payne TMB (1955) The liberation of amino-acids and reducing compounds by p1ant and soil. Plant Soil 7(1): 35-48.
22. Klingner AE, Hildebrand DC, Wilhelm S (1971) Occurrence of Erwinia carotovora in the rhizosphere of cotton plants which escape verticillium wilt. Plant Soil 34: 215-218.
23. Li HL, Yuan HX, Wang Y, Cai JX, Huang JL, Wang SZ (1998) Study on the relationship between diversity microbes in rhizosphere and resistance of cotton cultivars to Verticillium dahliae. ACTA Phytopathol sinica 28: 341-345 (in Chinese).
24. Liu WT, Marsh TL, Cheng H, Forney LJ (1997) Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA. Appl Environ Microbiol 63: 4516-4522.
25. Lynch JM, Whipps JM (1990) Substrate flow in the rhizosphere. Plant Soil 129: 1-10.
26. Marschner P, Yang CH, Lieberei R, Crowley DE (2001) Soil and plant specific effects on bacterial community composition in the rhizosphere. Soil Biol Biochem 33: 1437-1445.
27. McSpadden Gardener BB, Weller DM (2001) Changes in populations of rhizosphere bacteria associated with take-all disease of wheat. Appl Environ Microbiol 67: 4414-4425.
28. Prikryl Z, Vancura V (1980) Root exudates of plants, 6: wheat root exudation as dependent on growth, concentration gradient of exudates and the presence of bacteria. Plant Soil 57: 69-83.
29. Rosenblueth M, Martinez-Romero E (2006) Bacterial endophytes and their interactions with hosts. Mol Plant Microbe Interact 19: 827-837.
30. Simpson EH (1949) Measurement of diversity. Nature 163: 688.
31. Smit E, Leeflang P, Gommans S, van den Broek J, van Mil S, Wernars K (2001) Diversity and seasonal fluctuations of the dominant members of the bacterial soil community in a wheat field as determined by cultivation and molecular methods. Appl Environ Microbiol 67: 2284-2291.
32. Tjamos EC, Rowe RC, Heale JB, Fravel DR (2000) Advances in verticillium research and disease management. APS, St. Paul, p 357.
33. Valinsky L, Della Vedova G, Scupham AJ, Alvey S, Figueroa A, Yin B, Hartin RJ, Chrobak M, Crowley DE, Jiang T, Borneman J (2002) Analysis of bacterial community composition by oligonucleotide fingerprinting of rRNA genes. Appl Environ Microbiol 68: 3243-3250.
34. Zhou J, Bruns MA, Tiedje JM (1996) DNA recovery from soils of diverse composition. Appl Environ Microbiol 62: 316-322.