Phenotypic and genetic diversity of rice seed-associated bacteria and their role in pathogenicity and biological control

Journal of Applied Microbiology

Volumn 107, Issue 3, 2009, Pages 885-897

  Cottyn, B ^a,b   Debode, J ^b   Regalado, E ^a   Mew, T W ^a   Swings, J ^c  

^a INTERNATIONAL RICE RESEARCH INSTITUTE   (Philippines)

^b INSTITUTE FOR AGRICULTURAL AND FISHERIES RESEARCH ILVO   (Belgium)

^c GHENT UNIVERSITY   (Belgium)

Author keywords

Antagonist; BOX PCR; Fatty acid methyl ester; Morphotype; Pathogen

Indexed keywords

BACTERIA; BACTERIOLOGY; BIODIVERSITY; FATTY ACIDS; PLANTS (BOTANY); POLYMERASE CHAIN REACTION; SEED;

ANTAGONIST; BOX-PCR; BURKHOLDERIA; FATTY ACIDS METHYL ESTERS; GENETICS DIVERSITIES; MORPHOTYPES; PHENOTYPIC DIVERSITY; PHILIPPINES; RICE CULTIVARS; RICE SEED;

PATHOGENS;

GENOMIC DNA;

ANTAGONISM; BACTERIUM; BIOLOGICAL CONTROL; CULTIVAR; CYTOLOGY; GENETIC VARIATION; LOWLAND ENVIRONMENT; MORPHOLOGY; PATHOGENICITY; PHENOTYPE; POLYMERASE CHAIN REACTION; RAINFED AGRICULTURE; RICE;

ACTINOBACTERIA; ACTINOMYCETALES; ARTICLE; BACILLUS PUMILUS; BACILLUS SUBTILIS; BACTERIUM; BACTERIUM COLONY; BIOLOGICAL PEST CONTROL; BURKHOLDERIA; BURKHOLDERIA GLUMAE; CONTROLLED STUDY; CULTIVAR; DNA FINGERPRINTING; ENTEROBACTER CLOACAE; GENETIC VARIABILITY; HYPHOMYCETES; IN VITRO STUDY; ISOLATION PROCEDURE; LIPID COMPOSITION; MAGNAPORTHE GRISEA; MORPHOTYPE; NONHUMAN; PAENIBACILLUS POLYMYXA; PANTOEA; PATHOGENICITY; PHENOTYPE; PHILIPPINES; PLANT SEED; POLYMERASE CHAIN REACTION; PSEUDOMONAS; RHIZOCTONIA SOLANI; STAPHYLOCOCCUS AUREUS; XANTHOMONAS;

ASIA; EURASIA; ILOILO; PHILIPPINES; SOUTHEAST ASIA; WESTERN VISAYAS;

ACIDOVORAX AVENAE; ACTINOBACTERIA (CLASS); BACILLUS PUMILUS; BURKHOLDERIA GLADIOLI; BURKHOLDERIA GLUMAE; ENTEROBACTER CLOACAE; EQUUS ASINUS; MAGNAPORTHE GRISEA; PAENIBACILLUS POLYMYXA; PANTOEA; PSEUDOMONAS; STAPHYLOCOCCUS; THANATEPHORUS CUCUMERIS; XANTHOMONAS;

EID: 68849092016     PISSN: 13645072     EISSN: 13652672     Source Type: Journal    
DOI: 10.1111/j.1365-2672.2009.04268.x     Document Type: Article

References (36)

1. Adams, P.D. Kloepper, J.W. (2002) Effect of host genotype on indigenous bacterial endophytes of cotton (Gossypium hirsutum L.). Plant Soil 240, 181 189.
2. Amann, R., Ludwig, W. Schleifer, K.H. (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59, 143 169.
3. Bae, Y.S., Park, K. Choi, O.H. (2007) Laboratory culture media-dependent biocontrol ability of Burkholderia gladioli strain B543. Plant Pathol J 23, 161 165.
4. Bulluck, L.R., Brosius, M., Evanylo, G.K. Ristaino, J.B. (2002) Organic and synthetic fertility amendments influence soil microbial, physical and chemical properties on organic and conventional farms. Appl Soil Ecol 19, 147 160.
5. Cottyn, B., Van Outryve, M.F., Cerez, M.T., De Cleene, M., Swings, J. Mew, T.W. (1996) Bacterial diseases of rice. II. Characterization of pathogenic bacteria associated with sheath rot complex and grain discoloration of rice in the Philippines. Plant Dis 80, 438 445.
6. Cottyn, B., Regalado, E., Lanoot, B., De Cleene, M., Mew, T.W. Swings, J. (2001) Bacterial populations associated with rice seed in the tropical environment. Phytopathology 91, 282 292.
7. Davis, J.M. (1986) Taxonomy of plant-pathogenic coryneform bacteria. Annu Rev Phytopathol 24, 115 140.
8. Furuya, N., Kushima, Y., Tsuchiya, K., Matsuya, N. Wakimoto, S. (1991) Protection of tomato seedlings by pre-treatment with Pseudomonas glumae from infection with Pseudomonas solanacearum and its mechanisms. Ann Phytopathol Soc Jpn 57, 363 370.
9. Goto, K. Ohata, K. (1956) New bacterial diseases of rice (brown stripe and grain rot). Ann Phytopathol Soc Jpn 21, 46 47.
10. Japan Color Research Institute 1951) Guide to Colour Standard. Tokyo : K.K. Nippon Shikisaisha.
11. Kaku, H. (2004) Histopathology of red stripe of rice. Plant Dis 88, 1304 1309.
12. Kaku, H., Subandiyah, S. Ochiai, H. (2000) Red stripe of rice is caused by a bacterium Microbacterium sp. J Gen Plant Pathol 66, 149 152.
13. King, E.O., Ward, M. Raney, D.E. (1954) Two simple media for the demonstration of pyocyanin and fluorescein. J Lab Clin Med 44, 301 307.
14. Lelliot, R.A. Stead, D.E. (1987) Methods for the diagnosis of bacterial diseases of plants. Oxford : Blackwell Scientific Publications.
15. Luo, J., Xie, G., Li, B. Lihui, X. (2007) First report of Burkholderia glumae isolated from symptomless rice seeds in china. Plant Dis 91, 1363.
16. Maeda, Y., Shinohara, H., Kiba, A., Ohnishi, K., Furuya, N., Kawamura, Y., Ezaki, T., Vandamme, P. et al. (2006) Phylogenetic study and multiplex PCR-based detection of Burkholderia plantarii, Burkholderia glumae and Burkholderia gladioli using gyrB and rpoD sequences. Int J Syst Evol Microbiol 56, 1031 1038.
17. Mano, H. Morisaki, H. (2008) Endophytic bacteria in the rice plant. Microbes Environ 23, 109 117.
18. Mano, H., Tanaka, F., Watanabe, A., Kaga, H., Okunishi, S. Morisaki, H. (2006) Culturable surface and endophytic bacterial flora of the maturing seeds of rice plants (Oryza sativa) cultivated in a paddy field. Microbes Environ 21, 86 100.
19. Mano, H., Tanaka, F., Nakamura, C., Kaga, H. Morisaki, H. (2007) Culturable endophytic bacterial flora of the maturing leaves and roots of rice plants (Oryza sativa) cultivated in a paddy field. Microbes Environ 22, 175 185.
20. Mew, T.W. Rosales, A.M. (1986) Bacterization of rice plants for control of sheath blight caused by Rhizoctonia solani. Phytopathology 76, 1260 1264.
21. Ming, D., Ye, H., Schaad, N.W. Roth, D.A. (1991) Selective recovery of Xanthomonas spp. from rice seed. Phytopathology 81, 1358 1363.
22. Mukhopadhyay, K., Garrison, N.K., Hinton, D.M., Bacon, C.W., Khush, G.S., Peck, H.D. Datta, N. (1996) Identification and characterization of bacterial endophytes of rice. Mycopathologia 134, 151 159.
23. Nandakumar, R., Rush, M., Shahjahan, A., O'Reilly, K. Groth, D.E. (2005) Bacterial panicle blight of rice in the southern United States caused by Burkholderia glumae and B. gladioli. Phytopathology 95, 73.
24. Nandakumar, R., Rush, M.C. Correa, F. (2007) Association of Burkholderia glumae and B. gladioli with panicle blight symptoms on rice in Panama. Plant Dis 91, 767.
25. Nelson, E.B. (2004) Microbial dynamics and interactions in the spermosphere. Annu Rev Phytopathol 42, 271 309.
26. van Overbeek, L. van Elsas, J.D. (2008) Effects of plant genotype and growth stage on the structure of bacterial communities associated with potato (Solanum tuberosum L.). FEMS Microbiol Ecol 64, 283 296.
27. Rosales, A.M., Vantomme, R., Swings, J., De Ley, J. Mew, T.W. (1993) Identification of some bacteria from paddy antagonistic to several rice fungal pathogens. J Phytopathol 138, 189 208.
28. Sakthivel, N. Gnanamanickam, S.S. (1987) Evaluation of Pseudomonas fluorescens for suppression of sheath rot disease and for enhancement of grain yields in rice (Oryza sativa L.). Appl Environ Microbiol 53, 2056 2059.
29. Sayler, R.J., Cartwright, R.D. Yang, Y.N. (2006) Genetic characterization and real-time PCR detection of Burkholderia glumae, a newly emerging bacterial pathogen of rice in the United States. Plant Dis 90, 603 610.
30. Seiler, H. (1983) Identification key for coryneform bacteria derived by numerical taxonomic studies. J Gen Microbiol 129, 1433 1471.
31. Stoltzfus, J.R., So, R., Malarvizhi, P.P., Ladha, J.K. de Bruijn, F.J. (1997) Isolation of endophytic bacteria from rice and assessment of their potential for supplying rice with biologically fixed nitrogen. Plant Soil 194, 25 36.
32. Tominaga, T., Kimura, K. Goh, N. (1981) Bacterial brown stripe of rice in nursery box, caused by Pseudomonas avenae. Ann Phytopathol Soc Jpn 47, 92.
33. Uematsu, T., Yoshimura, D., Nishiyama, K., Ibaraki, T. Fujii, H. (1976) Occurrence of bacterial seedling rot in nursery flat caused by grain rot bacterium Pseudomonas glumae. Ann Phytopathol Soc Jpn 42, 310 312.
34. Vandamme, P., Holmes, B., Vancanneyt, M., Coenye, T., Hoste, B., Coopman, R., Revets, H., Lauwers, S. et al. (1997) Occurrence of multiple genomovars of Burkholderia cepacia in cystic fibrosis patients and proposal of Burkholderia multivorans sp. nov. Int J Syst Bacteriol 47, 1188 1200.
35. Yang, J.H., Liu, H.X., Zhu, G.M., Pan, Y.L., Xu, L.P. Guo, J.H. (2008) Diversity analysis of antagonists from rice-associated bacteria and their application in biocontrol of rice diseases. J Appl Microbiol 104, 91 104.
36. Zeigler, R.S. Alvarez, E. (1990) Characteristics of Pseudomonas spp. causing grain discolouration and sheath rot of rice, and associated pseudomonad epiphytes. Plant Dis 74, 917 922.