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Soil solid phases effects on the proteomic analysis of Cupriavidus metallidurans CH34

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Abstract

Cupriavidus metallidurans CH34 is a completely sequenced soil-borne beta-proteobacterium with known genome and proteome. Comparative 2-D electrophoresis and protein mass spectrometry were used to compare the proteome of C. metallidurans CH34 from liquid culture and after incubation for 1, 3, and 12 days in microcosms containing quartz sand, kaolinite, montmorillonite, or an artificial soil. Results showed that proteome from liquid culture was similar to CH34 proteins extracted from sand and kaolinite, whereas the proteins extracted from artificial soil differed significantly and no proteins were detected from C. metallidurans CH34 incubated in the montmorillonite microcosms. Protein recovery decreased on prolonging incubation time in all microcosms. Mass spectrometry identification showed that the trend of lower recovery upon incubation time was independent on the putative function of protein. These results suggest that the soil solid phase influences the protein recovery and soil proteomic analysis and that distinction between protein recovery and protein expression in soil will be a challenging for soil proteomic researchers.

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Acknowledgment

The Department of Plant, Soil and Environmental Sciences thank the Ente Cassa di Risparmio di Firenze for the financial support (project title—Approccio proteomico per una migliore comprensione della funzionalità del suolo e delle interazioni suolo-pianta; file n° 2009.0401) for the aquisition of new instruments.

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Authors and Affiliations

  1. Department of Plant, Soil and Environmental Sciences, University of Florence, Piazzale delle Cascine, 28, Florence, Italy

    Laura Giagnoni, Loretta Landi, Paolo Nannipieri & Giancarlo Renella

  2. Department of Biochemical Sciences, University of Florence, Florence, Italy

    Francesca Magherini & Alessandra Modesti

  3. Biology Department, Brookhaven National Laboratory, Upton, NY, USA

    Safiyh Taghavi

  4. RTI International, Research Triangle Park, NC, USA

    Daniel van der Lelie

  5. Department of Molecular Biology, University of Siena, Siena, Italy

    Michele Puglia, Laura Bianchi & Luca Bini

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  1. Laura Giagnoni
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  2. Francesca Magherini
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  3. Loretta Landi
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  4. Safiyh Taghavi
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  7. Laura Bianchi
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Correspondence to Laura Giagnoni.

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Giagnoni, L., Magherini, F., Landi, L. et al. Soil solid phases effects on the proteomic analysis of Cupriavidus metallidurans CH34. Biol Fertil Soils 48, 425–433 (2012). https://doi.org/10.1007/s00374-011-0641-6

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  • DOI: https://doi.org/10.1007/s00374-011-0641-6

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