Unexpected phytostimulatory behavior for escherichia coli and agrobacterium tumefaciens model strains

Molecular Plant-Microbe Interactions

Volumn 26, Issue 5, 2013, Pages 495-502

  Walker, Vincent ^a,b,c   Bruto, Maxime ^a,b,c   Bellvert, Floriant ^a,b,c   Bally, René ^a,b,c   Muller, Daniel ^a,b,c   Prigent Combaret, Claire ^a,b,c   Moënne Loccoz, Yvan ^a,b,c   Comte, Gilles ^a,b,c  

^a UNIVERSITÉ DE LYON   (France)

^b UNIVERSITÉ LYON 1   (France)

^c University of Lyon   (France)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84876012266     PISSN: 08940282     EISSN: None     Source Type: Journal    
DOI: 10.1094/MPMI-12-12-0298-R     Document Type: Review

References (59)

1. Altschul, S. F., Madden, T. L., Schäffer, A. A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D. J. 1997. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
2. Bachmann, B. J. 1987. Derivations and genotypes of some mutant derivatives of Escherichia coli K-12. Pages 1190-1219 In: Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology. F. C. Neidhardt, J. L. Ingraham, K. B. Low, B. Magasanik, M. Schaechter, and H. E. Umbarger, eds. ASM Press, Washington, DC.
3. Baek, S. H., and Shapleigh, J. P. 2005. Expression of nitrite and nitric oxide reductases in free-living and plant-associated Agrobacterium tumefaciens C58 cells. Appl. Environ. Microbiol. 71:4427-4436.
4. Bashan, Y., Holguin, G., and de-Bashan, L. E. 2004. Azospirillum-plant relationships: Physiological, molecular, agricultural, and environmental advances (1997-2003). Can. J. Microbiol. 50:521-577.
5. Blaha, D., Prigent-Combaret, C., Mirza, M. S., and Moënne-Loccoz, Y. 2006. Phylogeny of the 1-aminocyclopropane-1-carboxylic acid deaminase- encoding gene acdS in phytobeneficial and pathogenic Proteobacteria and relation with strain biogeography. FEMS (Fed. Eur. Microbiol. Soc.) Microbiol. Ecol. 56:455-470.
6. Blakney, A. J. C., and Patten, C. L. 2011. A plant growth-promoting pseudomonad is closely related to the Pseudomonas syringae complex of plant pathogens. Microb. Ecol. 77:546-557.
7. Blasco, F., Iobbi, C., Giordano, G., Chippaux, M., and Bonnefoy, V. 1989. Nitrate reductase of Escherichia coli: Completion of the nucleotide sequence of the nar operon and reassessment of the role of the α and β subunits in iron binding and electron transfer. Mol. Gen. Genet. 218:249-256.
8. Blasco, F, Iobbi, C., Ratouchniak, J., Bonnefoy, V., and Chippaux, M. 1990. Nitrate reductases of Escherichia coli: Sequence of the second nitrate reductase and comparison with that encoded by the narGHJI operon. Mol. Gen. Genet. 222:104-111.
9. Costechareyre, D., Rhouma, A., Lavire, C., Portier, P., Chapulliot, D., Bertolla, F., Boubaker, A., Dessaux, Y., and Nesme, X. 2010. Rapid and efficient identification of Agrobacterium species by recA allele analysis. Microb. Ecol. 60:862-872.
10. Creus, C. M., Graziano, M., Casanovas, E. M., Pereyra, M. A., Simontacchi, M., Puntarulo, S., Barassi, C. A., and Lamattina, L. 2005. Nitric oxide is involved in the Azospirillum brasilense-induced lateral root formation in tomato. Planta 221:297-303.
11. DeMoss, J. A., and Hsu, P. Y. 1991. NarK enhances nitrate uptake and nitrite excretion in Escherichia coli. J. Bacteriol. 173:3303-3310.
12. Dobbelaere, S., Croonenborghs, A., Thys, A., Ptacek, D., Vanderleyden, J., Dutto, P., Labandera-Gonzalez, C., Caballero-Mellado, J., Aguirre, J., Kapulnik, Y., Brener, S., Burdman, S., Kadouri, D., Sarig, S., and Okon, Y. 2001. Responses of agronomically important crops to inoculation with Azospirillum. Aust. J. Plant Physiol. 28:871-887.
13. Dobbelaere, S., Vanderleyden, J., and Okon, Y. 2003. Plant growth-promoting effects of diazotrophs in the rhizosphere. Crit. Rev. Plant Sci. 22:107-149.
14. El Zemrany, H., Cortet, J., Lutz, M. P., Chabert, A., Baudoin, E., Haurat, J., Maughan, N., Félix, D., Défago, G., Bally, R., and Moënne-Loccoz, Y. 2006. Field survival of the phytostimulator Azospirillum lipoferum CRT1 and functional impact on maize crop, biodegradation of crop residues, and soil faunal indicators in a context of decreasing nitrogen fertilization. Soil Biol. Biochem. 38:1712-1726.
15. Fages, J., and Mulard, D. 1988. Isolement de bactéries rhizosphériques et effet de leur inoculation en pot chez Zea mays. Agronomie 8:309-314.
16. Fremaux, B., Prigent-Combaret, C., and Vernozy-Rozand, C. 2008. Longterm survival of Shiga toxin-producing Escherichia coli in cattle effluents and environment: An updated review. Vet. Microbiol. 132:1-18.
17. Hamilton, R. H., and Fall, M. Z. 1971. The loss of tumor-initiating ability in Agrobacterium tumefaciens by incubation at high temperature. Experientia 27:229-230.
18. Hao, X., Xie, P., Johnstone, L., Miller, S. J., Rensing, C., and Wei, G. 2012. Genome sequence and mutational analysis of plant-growth-promoting bacterium Agrobacterium tumefaciens CCNWGS0286 isolated from a zinc-lead mine tailing. Appl. Environ. Microbiol. 78:5384-5394.
19. Hao, Y., Charles, T. C., and Glick, B. R. 2011. ACC deaminase activity in avirulent Agrobacterium tumefaciens D3. Can. J. Microbiol. 57:278- 286.
20. Herms, D. A., and Mattson, W. J. 1992. The dilemma of plants: To grow or defend. Q. Rev. Biol. 67:283-335.
21. Hussain, H., Grove, J., Griffiths, L., Busby, S., and Cole, J. 1994. A sevengene operon essential for formate-dependent nitrite reduction to ammonia by enteric bacteria. Mol. Microbiol. 12:153-163.
22. Jacoud, C., Job, D., Wadoux, P., and Bally, R. 1999. Initiation of root growth stimulation by Azospirillum lipoferum CRT1 during maize seed germination. Can. J. Microbiol. 45:339-342.
23. Jensen, K. F. 1993. The Escherichia coli K-12 "wild types" W3110 and MG1655 have an rph frameshift mutation that leads to pyrimidine starvation due to low pyrE expression levels. J. Bacteriol. 175:3401-3407.
24. Krimi, Z., Petit, A., Mougel, C., Dessaux, Y., and Nesme, X. 2002. Seasonal fluctuations and long-term persistence of pathogenic populations of Agrobacterium spp. in soils. Appl. Environ. Microbiol. 68:3358- 3365.
25. Lassalle, F., Campillo, T., Vial, L., Baude, J., Costechareyre, D., Chapulliot, D., Shams, M., Abrouk, D., Lavire, C., Oger-Desfeux, C., Hommais, F., Guéguen, L., Daubin, V., Muller, D., and Nesme, X. 2011. Genomic species are ecological species as revealed by comparative genomics in Agrobacterium tumefaciens. Genome Biol. Evol. 3:762-781.
26. Lucy, M., Reed, E., and Glick, B. R. 2004. Applications of free living plant growth-promoting rhizobacteria. Antonie Leeuwenhoek 86:1-25.
27. Macdonald, H., and Cole, J. 1985. Molecular cloning and functional analysis of the cysG and nirB genes of Escherichia coli K12, two closely-linked genes required for NADH-dependent nitrite reductase activity. Mol. Gen. Genet. 200:328-334.
28. Mark, G. L., Dow, J. M., Kiely, P. D., Higgins, H., Haynes, J., Baysse, C., Abbas, A., Foley, T., Franks, A., Morrissey, J., and O'Gara, F. 2005. Transcriptome profiling of bacterial responses to root exudates identifies genes involved in microbe-plant interactions. Proc. Natl. Acad. Sci. U.S.A. 102:17454-17459.
29. Miller, S. H., Browne, P., Prigent-Combaret, C., Combes-Meynet, E., Morrissey, J. P., and O'Gara, F. 2010. Biochemical and genomic comparison of inorganic phosphate solubilization in Pseudomonas species. Environ. Microbiol. Rep. 2:403-411.
30. Mohr, T. J., Liu, H., Yan, S., Morris, C. E., Castillo, J. A., Jelenska, J., and Vinatzer, B. A. 2008. Naturally occurring nonpathogenic isolates of the plant pathogen Pseudomonas syringae lack a type III secretion system and effector gene orthologues. J. Bacteriol. 190:2858-2870.
31. Mougel, C., Thioulouse, J., Perrière, G., and Nesme, X. 2002. A mathematical method for determining genome divergence and species delineation using AFLP. Int. J. Syst. Evol. Microbiol. 52:573-586.
32. Nautiyal, C., Rehman, A., and Chauhan, P. 2010. Environmental Escherichia coli occur as natural plant growth-promoting soil bacterium. Arch. Microbiol. 192:185-193.
33. Nelson, L. M., and Knowles, R. 1978. Effect of oxygen and nitrate on nitrogen fixation and denitrification by Azospirillum brasilense grown in continuous culture. Can. J. Microbiol. 24:1395-1403.
34. Noji, S., Nohno, T., Saito, T., and Taniguchi, S. 1989. The narK gene product participates in nitrate transport induced in Escherichia coli nitrate-respiring cells. FEBS (Fed. Eur. Biochem. Soc.) Lett. 252:139- 143.
35. Ponsonnet, C., and Nesme, X. 1994. Identification of Agrobacterium strains by PCR-RFLP analysis of pTi and chromosomal regions. Arch. Microbiol. 161:300-309.
36. Portier, P., Fischer-Le Saux, M., Mougel, C., Lerondelle, C., Chapulliot, D., Thioulouse, J., and Nesme, X. 2006. Identification of genomic species in Agrobacterium biovar 1 by AFLP genomic markers. Appl. Environ. Microbiol. 72:7123-7131.
37. Pothier, J. F., Wisniewski-Dyé, F., Weiss-Gayet, M., Moënne-Loccoz, Y., and Prigent-Combaret, C. 2007. Promoter-trap identification of wheat seed extract-induced genes in the plant-growth-promoting rhizobacterium Azospirillum brasilense Sp245. Microbiology 153:3608-3622.
38. Pothier, J. F., Prigent-Combaret, C., Haurat, J., Moënne-Loccoz, Y., and Wisniewski-Dyé, F. 2008. Duplication of plasmid-borne nitrite reductase gene nirK in the wheat-associated plant growth-promoting rhizobacterium Azospirillum brasilense Sp245. Mol. Plant-Microbe Interact. 21:831-842.
39. Prigent-Combaret, C., Blaha, D., Pothier, J. F., Vial, L., Poirier, M. A., Wisniewski-Dyé, F., and Moënne-Loccoz, Y. 2008 Physical organization and phylogenetic analysis of acdR as leucine-responsive regulator of the 1-aminocyclopropane-1-carboxylate deaminase gene acdS in phytobeneficial Azospirillum lipoferum 4B and other Proteobacteria. FEMS (Fed. Eur. Microbiol. Soc.) Microbiol. Ecol. 65:202-219.
40. Raaijmakers, J., Paulitz, T., Steinberg, C., Alabouvette, C., and Moënne- Loccoz, Y. 2009. The rhizosphere: A playground and battlefield for soilborne pathogens and beneficial microorganisms. Plant Soil 321:341- 361.
41. Raio, A., Peluso, R., Nesme, X., and Zoina, A. 2004. Chromosomal and plasmid diversity of Agrobacterium strains isolated from Ficus benjamina tumors. Eur. J. Plant Pathol. 110:163-174.
42. Rezzonico, F., Zala, M., Keel, C., Duffy, B., Moënne-Loccoz, Y., and Défago, G. 2007. Is the ability of biocontrol fluorescent pseudomonads to produce the antifungal metabolite 2,4-diacetylphloroglucinol really synonymous with higher plant protection? New Phytol. 173:861- 872.
43. Richardson, A., Barea, J. M., McNeill, A., and Prigent-Combaret, C. 2009. Acquisition of phosphorus and nitrogen in the rhizosphere and plant growth promotion by microorganisms. Plant Soil 321:305-339.
44. Rodríguez, H., Fraga, R., Gonzalez, T., and Bashan, Y. 2007. Genetics of phosphate solubilization and its potential applications for improving plant growth-promoting bacteria. Dev. Plant Soil Sci. 102:15-21.
45. Rondon, M. R., Ballering, K. S., and Thomas, M. G. 2004. Identification and analysis of a siderophore biosynthetic gene cluster from Agrobacterium tumefaciens C58. Microbiology 150:3857-3866.
46. Rosenberg, C., and Hughet, T. 1984. The pAtC58 plasmid of Agrobacterium tumefaciens is not essential for tumor induction. Mol. Gen. Genet. 196:533-536.
47. Sambrook, J., Fritsch, E. F., and Maniatis, T. 1989. Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, U.S.A.
48. Sanguin, H., Herrera, A., Oger-Desfeux, C., Dechesne, A., Simonet, P., Navarro, E., Vogel, T. M., Moënne-Loccoz, Y., Nesme, X., and Grundmann, G. L. 2006a. Development and validation of a prototype 16S rRNA-based taxonomic microarray for Alphaproteobacteria. Environ. Microbiol. 8:289-307.
49. Sanguin, H., Remenant, B., Dechesne, A., Thioulouse, J., Vogel, T. M., Nesme, X., Moënne-Loccoz, Y., and Grundmann, G. L. 2006b Potential of a 16S rRNA-based taxonomic microarray for analyzing the rhizosphere effects of maize on Agrobacterium spp. and bacterial communities. Appl. Environ. Microbiol. 72:4302-4312.
50. Sanguin, H., Kroneisen, L., Gazengel, K., Kyselková, M., Remenant, B., Prigent-Combaret, C., Grundmann, G. L., Sarniguet, A., and Moënne- Loccoz, Y. 2008. Development of a 16S rRNA microarray approach for the monitoring of rhizosphere Pseudomonas populations associated with the decline of take-all disease of wheat. Soil Biol. Biochem. 40:1028-1039.
51. Sharifi-Tehrani, A., Zala, M., Natsch, A., Moënne-Loccoz, Y., and Défago, G. 1998. Biocontrol of soil-borne fungal plant diseases by 2,4-diacetylphloroglucinol- producing fluorescent pseudomonads with different restriction profiles of amplified 16S rDNA. Eur. J. Plant Pathol. 104:631-643.
52. Tenaillon, O., Skurnik, D., Picard, B., and Denamur, E. 2010. The population genetics of commensal Escherichia coli. Nat. Rev. Microbiol. 8:207-217.
53. Texier, S., Prigent-Combaret, C., Gourdon, M. H., Poirier, M. A., Faivre, P., Dorioz, J. M., Poulenard, J., Jocteur-Monrozier, L., Moënne-Loccoz, Y., and Trevisan, D. 2008. Persistence of culturable Escherichia coli fecal contaminants in dairy alpine grassland soils. J. Environ. Qual. 37:2299-2310.
54. Walker, V., Bertrand, C., Bellvert, F., Moënne-Loccoz, Y., Bally, R., and Comte, G. 2011. Host plant secondary metabolite profiling shows a complex, strain-dependent response of maize to plant growth-promoting rhizobacteria of the genus Azospirillum. New Phytol. 189:494- 506.
55. Walker, V., Couillerot, O., Von Felten, A., Bellvert, F., Jansa, J., Maurhofer, M., Bally, R., Moënne-Loccoz, Y., and Comte, G. 2012. Variation of secondary metabolite levels in maize seedling roots induced by inoculation with Azospirillum, Pseudomonas and Glomus consortium under field conditions. Plant Soil 356:151-163.
56. Yang, K., and Metcalf, A. A. 2004. A new activity for an old enzyme: Escherichia coli bacterial alkaline phosphatase is a phosphite-dependent hydrogenase. Proc. Natl. Acad. Sci. U.S.A. 101:7919-7924.
57. Yokoyama, K, and Suzuki, M. 2005. Orthologous and paralogous FFRPs in E. coli and related proteobacteria. Proc. Jpn. Acad. Ser. B. 81:129- 139.
58. Zdobnov, E. M., and Apweiler, R. 2001. InterProScan-an integration platform for the signature-recognition methods in InterPro. Bioinformatics 17:847-848.
59. Zhang, J., Boone, L., Kocz, R., Zhang, C., Binns, A. N., and Lynn, D. G. 2000. At the maize/Agrobacterium interface: Natural factors limiting host transformation. Chem. Biol. 7:611-621.