Integrated metabolomic and proteomic approaches dissect the effect of metal-resistant bacteria on maize biomass and copper uptake

Environmental Science and Technology

Volumn 48, Issue 2, 2014, Pages 1184-1193

  Li, Kefeng ^a   Pidatala, Venkataramana R ^a   Shaik, Rafi ^a   Datta, Rupali ^a   Ramakrishna, Wusirika ^a  

^a MICHIGAN TECHNOLOGICAL UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AGRICULTURAL PRACTICES; BIOCHEMICAL PATHWAY; EXCHANGEABLE COPPER; METABOLOMIC ANALYSIS; METAL-CONTAMINATED SOILS; PROTEOMIC APPROACHES; SOIL ENZYME ACTIVITY; TRICARBOXYLIC ACID CYCLE;

BACTERIA; BIOCHEMISTRY; BIOREMEDIATION; COPPER; CROPS; ECOLOGY; PRODUCTIVITY; SOIL POLLUTION;

SOILS;

ANTIOXIDANT; COPPER; METAL; PHENOL; PHOSPHORUS; SOIL POLLUTANT; VEGETABLE PROTEIN;

AGRONOMY; ANTIOXIDANT; BACTERIUM; BIOMASS; COPPER; CROP PRODUCTION; ENVIRONMENTAL STRESS; ENZYME ACTIVITY; GROWTH RATE; HORMONE; INOCULATION; INTEGRATED APPROACH; LACUSTRINE DEPOSIT; MAIZE; METABOLITE; NUTRIENT UPTAKE; PHENOL; PHOTOSYNTHESIS; PHYTOREMEDIATION; PROTEIN; PROTEOMICS;

ARTICLE; BIOCHEMICAL COMPOSITION; BIOMASS; CHEMICAL PARAMETERS; CITRIC ACID CYCLE; CONTROLLED STUDY; COPPER UPTAKE; CROP; ENZYME ACTIVITY; HORMONE SYNTHESIS; MAIZE; METABOLITE; METABOLOMICS; NONHUMAN; ORGANIC FARMING; PHOTOSYNTHESIS; PHYTOREMEDIATION; PLANT DEVELOPMENT; PLANT GROWTH; PLANT SEED; PLANT-GROWTH PROMOTING BACTERIUM; PRODUCTIVITY; PROTEOMICS; SOIL ANALYSIS; SOIL INOCULATION; SOIL POLLUTION; SOWING; STRESS; UPREGULATION; BIOREMEDIATION; DRUG EFFECTS; ENZYMOLOGY; GROWTH, DEVELOPMENT AND AGING; METABOLISM; METABOLOME; MICROBIOLOGY; PHYSIOLOGY; PRINCIPAL COMPONENT ANALYSIS; PROCEDURES; PSEUDOMONAS; SOIL POLLUTANT; TOXICITY;

MICHIGAN; TORCH LAKE; UNITED STATES;

BIODEGRADATION, ENVIRONMENTAL; BIOMASS; COPPER; METABOLIC NETWORKS AND PATHWAYS; METABOLOME; METABOLOMICS; METALS; PLANT DEVELOPMENT; PLANT PROTEINS; PRINCIPAL COMPONENT ANALYSIS; PROTEOMICS; PSEUDOMONAS; SOIL MICROBIOLOGY; SOIL POLLUTANTS; ZEA MAYS;

EID: 84892719535     PISSN: 0013936X     EISSN: 15205851     Source Type: Journal    
DOI: 10.1021/es4047395     Document Type: Article

References (42)

1. Moura, J. C.; Bonine, C. A.; de Oliveira Fernandes Viana, J.; Dornelas, M. C.; Mazzafera, P. Abiotic and biotic stresses and changes in the lignin content and composition in plants J. Intergr. Plant Biol. 2010, 52 (4) 360-376
2. Holmgren, G.; Meyer, M.; Chaney, R.; Daniels, R. Cadmium, lead, zinc, copper, and nickel in agricultural soils of the United States of America J. Environ. Qual. 1993, 22 (2) 335-348
3. Gaetke, L. M.; Chow, C. K. Copper toxicity, oxidative stress, and antioxidant nutrients Toxicology 2003, 189 (1-2) 147-63
4. Boiteau, G.; Lynch, D. H.; Mackinley, P. Avoidance tests with Folsomia candida for the assessment of copper contamination in agricultural soils Environ. Pollut. 2011, 159 (4) 903-906
5. Ma, Y.; Prasad, M. N.; Rajkumar, M.; Freitas, H. Plant growth promoting rhizobacteria and endophytes accelerate phytoremediation of metalliferous soils Biotechnol. Adv. 2011, 29 (2) 248-258
6. Glick, B. R. Using soil bacteria to facilitate phytoremediation Biotechnol. Adv. 2010, 28 (3) 367-374
7. Ma, Y.; Rajkumar, M.; Vicente, J. A. F.; Freitas, H. Inoculation of Ni-resistant plant growth promoting bacterium Psychrobacter Sp strain Srs8 for the improvement of nickel phytoextraction by energy crops Int. J. Phytorem. 2011, 13 (2) 126-139
8. Rajkumar, M.; Freitas, H. Effects of inoculation of plant-growth promoting bacteria on Ni uptake by Indian mustard Bioresour. Technol. 2008, 99 (9) 3491-3498
9. Rajkumar, M.; Ma, Y.; Freitas, H. Characterization of metal-resistant plant-growth promoting Bacillus weihenstephanensis isolated from serpentine soil in Portugal J. Basic Microbiol. 2008, 48 (6) 500-508
10. Miche, L.; Battistoni, F.; Gernmer, S.; Belghazi, M.; Reinhold-Hurek, B. Upregulation of jasmonate-inducible defense proteins and differential colonization of roots of Oryza sativa cultivars with the endophyte Azoarcus sp Mol. Plant-Microbe Interact. 2006, 19 (5) 502-511
11. Cheng, Z. Y.; McConkey, B. J.; Glick, B. R. Proteomic studies of plant-bacterial interactions Soil Biol. Biochem. 2010, 42 (10) 1673-1684
12. Lery, L. M. S.; Hemerly, A. S.; Nogueira, E. M.; von Kruger, W. M. A.; Bisch, P. M. Quantitative proteomic analysis of the interaction between the endophytic plant-growth-promoting bacterium Gluconacetobacter diazotrophicus and sugarcane Mol. Plant-Microbe Interact. 2011, 24 (5) 562-576
13. Li, K.; Ramakrishna, W. Effect of multiple metal resistant bacteria from contaminated lake sediments on metal accumulation and plant growth J. Hazard. Mater. 2011, 189 (1-2) 531-539
14. Jones, J. B. Laboratory Guide for Conducting Soil Tests and Plant Analysis; CRC Press: Boca Raton, FL, 2001.
15. Singh, D. K.; Kumar, S. Nitrate reductase, arginine deaminase, urease and dehydrogenase activities in natural soil (ridges with forest) and in cotton soil after acetamiprid treatments Chemosphere 2008, 71 (3) 412-418
16. Stepniewska, Z.; Wolinska, A.; Ziomek, J. Response of soil catalase activity to chromium contamination J. Environ. Sci. 2009, 21 (8) 1142-1147
17. Frankenberger, W. T.; Johanson, J. B. Method of measuring invertase activity in soils Plant Soil 1983, 74 (3) 301-311
18. Sunkar, R. Plant Stress Tolerance: Methods and Protocols; Human Press: New York, 2010.
19. Ainsworth, E. A.; Gillespie, K. M. Estimation of total phenolic content and other oxidation substrates in plant tissues using Folin-Ciocalteu reagent Nat. Protoc. 2007, 2 (4) 875-877
20. Tessier, A.; Campbell, P. G. C.; Bisson, M. Sequential extraction procedure for the speciation of particulate trace metals Anal. Chem. 1979, 51 (7) 844-851
21. Shevchenko, A.; Tomas, H.; Havlis, J.; Olsen, J. V.; Mann, M. In-gel digestion for mass spectrometric characterization of proteins and proteomes Nat. Protoc. 2006, 1 (6) 2856-2860
22. Lisec, J.; Schauer, N.; Kopka, J.; Willmitzer, L.; Fernie, A. R. Gas chromatography mass spectrometry-based metabolite profiling in plants Nat. Protoc. 2006, 1 (1) 387-396
23. Andra, S. S.; Datta, R.; Sarkar, D.; Makris, K. C.; Mullens, C. P.; Sahi, S. V.; Bach, S. B. H. Induction of lead-binding phytochelatins in vetiver grass [ Vetiveria zizanioides (L.)] J. Environ. Qual. 2009, 38 (3) 868-877
24. Iverson, S. L.; Maier, R. M. Effects of compost on colonization of roots of plants grown in metalliferous mine tailings, as examined by fluorescence in situ hybridization Appl. Environ. Microbiol. 2009, 75 (3) 842-847
25. Viruel, E.; Lucca, M. E.; Sineriz, F. Plant growth promotion traits of phosphobacteria isolated from Puna, Argentina Arch. Microbiol. 2011, 193 (7) 489-496
26. Mehta, S.; Nautiyal, C. S. An efficient method for qualitative screening of phosphate-solubilizing bacteria Curr. Microbiol. 2001, 43 (1) 51-6
27. Oldroyd, G. E. D.; Murray, J. D.; Poole, P. S.; Downie, J. A. The rules of engagement in the legume-rhizobial symbiosis Annu. Rev. Genet. 2011, 45, 119-144
28. Tzfira, T.; Rhee, Y.; Chen, M. H.; Kunik, T.; Citovsky, V. Nucleic acid transport in plant-microbe interactions: The molecules that walk through the walls Annu. Rev. Microbiol. 2000, 54, 187-219
29. Šamaj, J.; Baluška, F.; Voigt, B.; Schlicht, M.; Volkmann, D.; Menzel, D. Endocytosis, actin cytoskeleton, and signaling Plant Physiol. 2004, 135, 1150-1161
30. Timonen, S.; Peterson, R. L. Cytoskeleton in mycorrhizal symbiosis Plant Soil 2002, 244 (1-2) 199-210
31. Aliferis, K. A.; Jabaji, S. FT-ICR/MS and GC-EI/MS metabolomics networking unravels global potato sprout's responses to Rhizoctonia solani infection PLoS One 2012, 7 (8) e42576
32. Spoel, S. H.; Dong, X. Making sense of hormone crosstalk during plant immune responses Cell Host Microbe 2008, 3 (6) 348-351
33. Grunewald, W.; van Noorden, G.; Van Isterdael, G.; Beeckman, T.; Gheysen, G.; Mathesius, U. Manipulation of auxin transport in plant roots during Rhizobium symbiosis and nematode parasitism Plant Cell 2009, 21 (9) 2553-2562
34. Jung, H. W.; Tschaplinski, T. J.; Wang, L.; Glazebrook, J.; Greenberg, J. T. Priming in systemic plant immunity Science 2009, 324 (5923) 89-91
35. Wang, Y.; Ohara, Y.; Nakayashiki, H.; Tosa, Y.; Mayama, S. Microarray analysis of the gene expression profile induced by the endophytic plant growth-promoting rhizobacteria, Pseudomonas fluorescens FPT9601-T5 in Arabidopsis Mol. Plant-Microbe Interact. 2005, 18 (5) 385-96
36. Sweetlove, L.; Beard, K.; Nunes-nesi, A.; Fernie, A.; Ratcliffe, R. Not just a circle: Flux modes in the plant TCA cycle Trends Plant Sci. 2010, 15 (8) 462-470
37. Meyer, S.; De Angeli, A.; Fernie, A. R.; Martinoia, E. Intra- and extra-cellular excretion of carboxylates Trends Plant Sci 2010, 15 (8) 40-47
38. Li, K.; Pidatala, R. R.; Ramakrishna, W. Mutational, proteomic and metabolomic analysis of a plant growth promoting copper-resistant Pseudomonas spp FEMS Microbiol. Lett. 2012, 335 (2) 140-148
39. Bhattacharya, A.; Sood, P.; Citovsky, V. The roles of plant phenolics in defence and communication during Agrobacterium and Rhizobium infection Mol. Plant Pathol. 2010, 11 (5) 705-719
40. Zilic, S.; Serpen, A.; Akillioglu, G.; Gokmen, V.; Vancetovic, J. Phenolic compounds, carotenoids, anthocyanins, and antioxidant capacity of colored maize (Zea mays L.) kernels J. Agric. Food Chem. 2012, 60 (5) 1224-1231
41. Walker, V.; Bertrand, C.; Bellvert, F.; Moenne-Loccoz, Y.; Bally, R.; Comte, G. Host plant secondary metabolite profiling shows a complex, strain-dependent response of maize to plant growth promoting rhizobacteria of the genus Azospirillum New Phytol. 2011, 189 (2) 494-506
42. Kiers, E. T.; Duhamel, M.; Beesetty, Y.; Mensah, J. A.; Franken, O.; Verbruggen, E.; Fellbaum, C. R.; Kowalchuk, G. A.; Hart, M. M.; Bago, A.; Palmer, T. M.; West, S. A.; Vandenkoornhuyse, P.; Jansa, J.; Bucking, H. Reciprocal rewards stabilize cooperation in the mycorrhizal symbiosis Science 2011, 333 (6044) 880-882