Isolation of endophytic bacteria from rice and assessment of their potential for supplying rice with biologically fixed nitrogen

Plant and Soil

Volumn 194, Issue 1-2, 1997, Pages 25-36

  Stoltzfus, J R ^a   So, R ^c   Malarvithi, P P ^c   Ladha, J K ^c   De Bruijn, F J ^a,b  

^a MICHIGAN STATE UNIVERSITY   (United States)

^b Intl Rice Research Institute ^*  (United States)

^c INTERNATIONAL RICE RESEARCH INSTITUTE   (Philippines)

Author keywords

Endo symbiosis; Endophytic microbes; Genomic fingerprinting; Infection; Marker genes; Nitrogen fixation; PCR; Rep PCR; Rice

Indexed keywords

AGRICULTURE; ENDOPHYTIC BACTERIA; NITROGEN FIXATION; RICE;

ARA; BACTERIA (MICROORGANISMS); ORYZA SATIVA; POACEAE;

EID: 0030665873     PISSN: 0032079X     EISSN: None     Source Type: Journal    
DOI: 10.1007/978-94-011-5744-5_4     Document Type: Conference Paper

References (48)

1. Atlas R M 1997 Handbook of Microbial Media. 2nd ed. Ed. L C Parks. CRC Press, Inc. Boca Raton, FL. 401 p.
2. 2-fixing bacteria in a rice rhizosphere. Can. J. Microbiol. 29, 881-887.
3. Barraquio W L, Revilla L and Ladha J K 1997 Isolation of endophytic diazotrophic bacteria from wetland rice. Plant Soil 194, 15-24.
4. Beringer J E 1974 R factor transfer in Rhizobium leguminosarum. J. Gen. Microbiol. 84, 188-189.
5. Boddey R M, de Oliveira O C, Urquiaga S, Reis V M, de Olivares F L, Baldani V L D and Dobereiner J 1995 Biological nitrogen fixation associated with sugar cane and rice: Contributions and prospects for improvement. Plant Soil 174, 195-209.
6. Bohlool B B, Ladha J K, Garrity D P and George T 1992 Biological nitrogen fixation for sustainable agriculture: A perspective. Plant Soil 141, 1-11.
7. Chalfie M, Tu Y, Euskirchen G, Ward W W and Prasher D C 1994 Green fluorescent protein as a marker for gene expression. Science 263, 802-805.
8. Clement A, Ladha J K and Chalifour F P 1995 Crop residue effects on nitrogen mineralization, microbial biomass, and rice yield in submerged soils. Soil Sci. Soc. Am. J. 59, 1595-1603.
9. Cocking E C, Kothari S I, Batchelor C A, Jain S, Webster G, Jones J, Jotham J and Davey M R 1995 Interaction of rhizobia with non-legume crops for symbiotic nitrogen fixation nodulation. In Azospirillum VI and related Microorganisms: Genetics, Physiology, Ecology. Eds. I Fendrik, M del Gallo, J Vanderleyden and M de Zamaroczy. pp 197-205. Springer-Verlag, New York.
10. De Bruijn F J, Jing Y and Dazzo F B 1995 Potential and pitfalls of trying to extend symbiotic interactions of nitrogen-fixing organisms to presently non-nodulated plants, such as rice. Plant Soil 174, 225-240.
11. Diekmann K H, Ottow J C G and De Datta S K 1996 Yield and nitrogen response of lowland rice (Oryza saliva L.) to Sesbania rostrata and Aeschynomene afraspera green manure in different marginally productive soils in the Philippines. Biol. Fertil. Soils 21, 103-108.
12. Dixon R. Cheng Q, Shen G-F, Day A and Dowson-Day M 1997 Nif gene transfer and expression in chloroplasts: prospects and problems. Plant Soil 194, 193-203.
13. Fahraeus A 1957 The infection of clover root hairs by nodule bacteria studied by a simple glass slide technique. J. Gen. Microbiol. 16, 374-381.
14. Fisher R F and Long S R 1992 Rhizobium-plant signal exchange. Nature 357, 655-660.
15. Harris G H, Hesterman O B, Paul E A, Peters S E and Janke R R 1994 Fate of legume and fertilizer nitrogen-15 in a long-term cropping systems experiment. Agron. J. 86, 910-915.
16. Hossain M and Fischer K S 1995 Rice research for food security and sustainable agricultural development in Asia: Achievements and future challenges. GeoJournal 35, 286-295.
17. Jansson J K 1995. Tracking genetically engineered microorganisms in nature. Curr. Opin. Biotechnol. 6, 275-283.
18. Kennedy I R and Tchan Y 1992 Biological nitrogen fixation in non-leguminous field crops: Recent advances. Plant Soil 141, 93-118.
19. Kennedy I R, Pereg-Gerk L, Wood C, Deaker R, Gilchrest K and Katupitiya S 1997 Biological nitrogen fixation in non-leguminous field crops: facilitating the evolution of an effective association between Azospirillum and wheat. Plant Soil 194, 65-79.
20. Kirchhof G, Reis V M, Baldani J I, Eckert B, Döbereiner J and Hart-mann A 1997 Occurence, physiological and molecular analysis of endophytic diazotrophic bacteria in gramineous energy plants. Plant Soil 194, 45-55.
21. 15N. Plant Soil 90, 293-299.
22. Kush G S and Bennet J (eds) 1992 Nodulation and nitrogen fixation in rice: Potential and prospects. IRRI, Manila.
23. Ladha J K 1986 Studies on nitrogen fixation by free-living and rice-plant associated bacteria in wetland rice field. Bionature 6, 47-58.
24. Ladha J K, Pareek R and Becker M 1992 Stem-nodulating legume-Rhizobium symbiosis and its agronomic use in lowland rice. Adv. Soil Sci. 20, 147-192.
25. Ladha J K and Peoples M B 1995 Management of biological nitrogen fixation for the development of more productive and sustainable agricultural systems. Plant Soil 174, 1-286.
26. Ladha J K, De Bruijn F J and Malik K A 1997 Introduction: assessing opportunities for nitrogen fixation in rice - a frontier project. Plant Soil 194, 1-10.
27. Lakshmi Kumari M, Kavimandan S K and Subba Rao N S 1976 Occurrence of nitrogen-fixing Spirillum in roots of rice, sorghum, maize, and other plants. Indian J. Exp. Biol. 14, 638-639.
28. Louws F J, Schneider M and De Bruijn F J 1996 Assessing genetic diversity of microbes using repetitive-sequence-based PCR (rep-PCR). In Nucleic Acid Amplification Methods for the Analysis of Environmental Samples. Ed. G Toranzos. pp 63-93. Technomic Publishing Co., Lancaster, PA.
29. Maidak B L, Larsen N, McCaughey M J, Overbeek R, Olsen G J, Fogel K, Blandy J and Woese C R 1994 The ribosomal database project. Nucleic Acids Res. 22, 3485-3487.
30. 15N dilution methods. PhD thesis submitted to the University of Philippines, pp 195.
31. Maniatis T, Fritsch E F and Sambrook J 1982 Molecular Cloning: a Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
32. National Research Council 1994 Biological Nitrogen Fixation: Research Challenges. National Academy, Press, Washington DC.
33. Oyaizu-Masuchi Y and Komagata K 1988 Isolation of free-living nitrogen-fixing bacteria from the rhizosphere of rice. J. Gen. Appl. Microbiol. 34, 127-164.
34. Rademaker JLW and De Bruijn F J 1997 Characterization and classification of microbes by rep-PCR genomic fingerprinting and computer assisted pattern analysis. In DNA markers: Protocols, Applications, and Overviews. Eds. G Caetano-Anolles and P M Gresshoff. John Wiley and Sons, Inc. New York. (In press).
35. Reddy P M, Ladha J K, So R, Hernandez R, Ramos M C, Angeles O R, Dazzo F B and De Bruijn F J 1997 Rhizobial communication with rice roots: induction of phenotypic changes, mode of invasion and extent of colonization. Plant Soil 194, 81-98.
36. Reinhold-Hurek B and Hurek T 1997 Azoarcus spp. and their interactions with grass roots. Plant Soil 194, 57-64.
37. 2 fixation in wetland rice fields: Estimation and contribution to nitrogen balance. Plant Soil 141, 41-55.
38. Tombolini R, Unge A, Davey M E, De Bruijn F J and Jansson J K 1997 Flow cytometric and microscopic analysis of GFP-tagged Pseudomonas fluorescens bacteria. FEMS Microbiol. Ecol. 22, 17-28.
39. 2-fixing bacterial diversity detected in rice roots by molecular evolutionary analysis of nifH gene sequences. J. Bacteriol. 177, 1414-1417.
40. 2-fixing bacteria associated with rice roots by molecular evolutionary analysis of nifD library. Can. J. Microbiol. 41, 235-240.
41. Unge A, Tombolini R, Davey M E, De Bruijn F J and Jansson J K 1997 GFP as a marker gene. In Molecular Microbial Ecology Manual. 2nd ed. Eds. ADL Akkermans, J D van Elsas and F J De Bruijn. Kluwer Academic Publishers, Dordrecht. (In press).
42. Vande Broek A, Michiels J, de Faria S M, Milcamps A and Vanderleyden J 1992 Transcription of the Azospirillum brasilense nifH gene is positively regulated by nifA and ntrA and is negatively controlled by the cellular nitrogen status. Mol. Gen. Genet. 232, 279-283.
43. Vande Broek A, Keijers V and Vanderleyden J 1996 Effect of oxygen on the free-living nitrogen fixation activity and expression of the Azospirillum brasilense nifH gene in various plant-associated diazotrophs. Symbiosis 21, 25-40.
44. Versalovic J, Schneider M, De Bruijn F J and Lupski J R 1994 Genomic fingerprinting of bacteria using repetitive sequence-based polymerase chain reaction. Methods Mol. Cell Biol. 5, 25-40.
45. 2-fixing organisms from rice roots. Nature 277, 565-566.
46. Webster G, Gough C, Vasse J, Batchelor C A, O'Callaghan K J, Kothari S L, Davey M R, Dinarii J and Cocking E C 1997 Interactions of rhizobia with rice and wheat. Plant Soil 194, 115-122.
47. Wilson K J, Sessitsch A, Corbo J C, Giller K E, Akkermans A D L and Jefferson R A 1995 β-Glucuronidase (GUS) transposons for ecological and genetic studies of rhizobia and other Gram-negative bacteria. Microbiology 141, 1691-1705.
48. Yanni Y G, Rizk R Y, Corich V, Squartini A, Ninke K, Philip-Hollingsworth S, Orgambide G, De Bruijn F, Stoltzfus J, Buckley D, Schmidt T M, Mateos P F, Ladha J K and Dazzo F B 1997 Natural endophytic association between Rhizobium leguminosarum bv. trifolii and rice roots and assessment of its potential to promote rice growth. Plant Soil 194, 99-114.