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Characterization of Ni-resistant bacteria in the rhizosphere of the hyperaccumulator Alyssum murale by 16S rRNA gene sequence analysis

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Abstract

The diversity of 184 isolates from rhizosphere and bulk soil samples taken from the Ni hyperaccumulator Alyssum murale, grown in a Ni-rich serpentine soil, was determined by 16S rRNA gene analysis. Restriction digestion of the 16S rRNA gene was used to identify 44 groups. Representatives of each of these groups were placed within the phyla Proteobacteria, Firmicutes and Actinobacteria by 16S rRNA gene sequence analysis. By combining the 16S rRNA gene restriction data with the gene sequence analysis it was concluded that 44.6% (82/184) of the isolates were placed within the phylum Proteobacteria, among these 35.9% (66/184) were placed within the class α-Proteobacteria, and 20.7% (38/184) had 16S rRNA gene sequences indicative of bacteria within genera that form symbioses with legumes (rhizobia). Of the remaining isolates, 44.6% (82/184) and 5.4% (10/184) were placed within the phyla Actinobacteria and Firmicutes, respectively. No placement was obtained for a small number (10/184) of the isolates. Bacteria of the phyla Proteobacteria and Actinobacteria were the most numerous within the rhizosphere of A. murale and represented 32.1% (59/184) and 42.9% (79/184) of all isolates, respectively. The approach of using 16S rRNA gene sequence analysis in this study has enabled a comprehensive characterization of bacteria that predominate in the rhizosphere of A. murale growing in Ni-contaminated soil.

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Authors and Affiliations

  1. Department of Environmental Biotechnology, Genetic Engineering Institute, Mubarak City for Scientific Research, P.O. Box 21934, New Borg El Arab City, Alexandria, Egypt

    R. A. I. Abou-Shanab

  2. United States Department of Agriculture, ARS, 10300 Baltimore Blvd., Beltsville, MD, 20705, USA

    P. van Berkum & R. L. Chaney

  3. College of Agriculture and Environmental Sciences, University of Georgia, Athens, GA, 30606, USA

    J. S. Angle

  4. Department of Biological Sciences, Kent State University Ashtabula, Ashtabula, OH, 44004, USA

    T. A. Delorme

  5. Botany Department, Faculty of Science, University of Alexandria, Alexandria, Egypt

    H. A. Ghozlan & K. Ghanem

  6. Agricultural Microbiology Department, National Research Center, Dokki, Cairo, Egypt

    H. Moawad

Authors
  1. R. A. I. Abou-Shanab
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  2. P. van Berkum
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  3. J. S. Angle
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  4. T. A. Delorme
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  5. R. L. Chaney
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  6. H. A. Ghozlan
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  7. K. Ghanem
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  8. H. Moawad
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Correspondence to R. A. I. Abou-Shanab.

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Abou-Shanab, R.A.I., van Berkum, P., Angle, J.S. et al. Characterization of Ni-resistant bacteria in the rhizosphere of the hyperaccumulator Alyssum murale by 16S rRNA gene sequence analysis. World J Microbiol Biotechnol 26, 101–108 (2010). https://doi.org/10.1007/s11274-009-0148-6

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  • DOI: https://doi.org/10.1007/s11274-009-0148-6

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