Variation in genomic islands contribute to genome plasticity in Cupriavidus metallidurans
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ABSTRACT:
PROVIDER: PRJNA153047 | ENA |
REPOSITORIES: ENA
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Project description:Different Cupriavidus metallidurans strains isolated from metal-contaminated and other anthropogenic environments were genotypically and phenotypically compared with C. metallidurans type strain CH34. The latter is well-studied for its resistance to a wide range of metals, which is carried for a substantial part by its two megaplasmids pMOL28 and pMOL30. Comparative genomic hybridization (CGH) indicated that the extensive arsenal of determinants involved in metal resistance was well conserved among the different C. metallidurans strains. Contrary, the mobile genetic elements identified in type strain CH34 were not present in all strains but clearly showed a pattern, although, not directly related to a particular biotope nor location (geographical). One group of strains carried almost all mobile genetic elements, while these were much less abundant in the second group. This occurrence was also reflected in their ability to degrade toluene and grow autotrophically on hydrogen gas and carbon dioxide, which are two traits linked to separate genomic islands of the Tn4371-family. In addition, the clear pattern of genomic islands distribution allowed to identify new putative genomic islands on chromosome 1 and 2 of C. metallidurans CH34. Metal resistance determinants are shared by all C. metallidurans strains and their occurrence is apparently irrespective of the strain's isolation type and place. Cupriavidus metallidurans strains do display substantial differences in the diversity and size of their mobile gene pool, which may be extensive in some (including the type strain) while marginal in others.
2014-01-23 | GSE36303 | GEO
Project description:Different Cupriavidus metallidurans strains isolated from metal-contaminated and other anthropogenic environments were genotypically and phenotypically compared with C. metallidurans type strain CH34. The latter is well-studied for its resistance to a wide range of metals, which is carried for a substantial part by its two megaplasmids pMOL28 and pMOL30. Comparative genomic hybridization (CGH) indicated that the extensive arsenal of determinants involved in metal resistance was well conserved among the different C. metallidurans strains. Contrary, the mobile genetic elements identified in type strain CH34 were not present in all strains but clearly showed a pattern, although, not directly related to a particular biotope nor location (geographical). One group of strains carried almost all mobile genetic elements, while these were much less abundant in the second group. This occurrence was also reflected in their ability to degrade toluene and grow autotrophically on hydrogen gas and carbon dioxide, which are two traits linked to separate genomic islands of the Tn4371-family. In addition, the clear pattern of genomic islands distribution allowed to identify new putative genomic islands on chromosome 1 and 2 of C. metallidurans CH34. Metal resistance determinants are shared by all C. metallidurans strains and their occurrence is apparently irrespective of the strain's isolation type and place. Cupriavidus metallidurans strains do display substantial differences in the diversity and size of their mobile gene pool, which may be extensive in some (including the type strain) while marginal in others. Comparative genome hybridization experiments. Comparing genomic DNA samples of different strains with a common reference strain (CH34).
2014-01-23 | E-GEOD-36303 | biostudies-arrayexpress
Project description:Metal resistant bacterium Cupriavidus metallidurans CH34 uses non-conventional proteins to combat oxidative stress Keywords: Cupriavidus metallidurans; hydrogen peroxide; oxidative stress;
2014-09-13 | GSE24094 | GEO
Project description:Response of Cupriavidus metallidurans CH34, AE104 and delta zupT mutant to Zn/EDTA stress
2014-12-16 | GSE64196 | GEO
Project description:Response of Cupriavidus metallidurans CH34, AE104 and delta zupT mutant to Zn/EDTA stress In this study 3 different treatments were performed to acquire expression profiles of the total genome of Cupriavidus metallidurans
2014-12-16 | E-GEOD-64196 | biostudies-arrayexpress
Project description:BACKGROUND: Different Cupriavidus metallidurans strains isolated from metal-contaminated and other anthropogenic environments were genotypically and phenotypically compared with C. metallidurans type strain CH34. The latter is well-studied for its resistance to a wide range of metals, which is carried for a substantial part by its two megaplasmids pMOL28 and pMOL30. RESULTS: Comparative genomic hybridization (CGH) indicated that the extensive arsenal of determinants involved in metal resistance was well conserved among the different C. metallidurans strains. Contrary, the mobile genetic elements identified in type strain CH34 were not present in all strains but clearly showed a pattern, although, not directly related to a particular biotope nor location (geographical). One group of strains carried almost all mobile genetic elements, while these were much less abundant in the second group. This occurrence was also reflected in their ability to degrade toluene and grow autotrophically on hydrogen gas and carbon dioxide, which are two traits linked to separate genomic islands of the Tn4371-family. In addition, the clear pattern of genomic islands distribution allowed to identify new putative genomic islands on chromosome 1 and 2 of C. metallidurans CH34. CONCLUSIONS: Metal resistance determinants are shared by all C. metallidurans strains and their occurrence is apparently irrespective of the strain's isolation type and place. Cupriavidus metallidurans strains do display substantial differences in the diversity and size of their mobile gene pool, which may be extensive in some (including the type strain) while marginal in others.
| S-EPMC3384475 | biostudies-literature
Project description:Metal resistant bacterium Cupriavidus metallidurans CH34 uses non-conventional proteins to combat oxidative stress Keywords: Cupriavidus metallidurans; hydrogen peroxide; oxidative stress; Two-condition experiments. Comparing samples after challenging with oxidative stress versus non-induced samples. Biological triplicate. Each array contains 3 technical replicates.
2014-09-13 | E-GEOD-24094 | biostudies-arrayexpress
Project description:Response of Cupriavidus metallidurans AE104(delta zupT) mutant to Zn/EDTA stress
2015-08-01 | GSE71011 | GEO
Project description:Response of Cupriavidus metallidurans CH34 to cisplatin, Pt(IV)chloride and Au-NP
2016-02-27 | GSE78723 | GEO
Project description:Response of Cupriavidus metallidurans AE104(delta zupT) mutant to Zn/EDTA stress In this study 2 different treatments were performed to acquire expression profiles of the total genome of Cupriavidus metallidurans
2015-08-01 | E-GEOD-71011 | biostudies-arrayexpress