ArticleApplied microbiology and biotechnology2007
Genomotyping of Pseudomonas putida strains using P. putida KT2440-based high-density DNA microarrays: implications for transcriptomics studies.
Article in Applied microbiology and biotechnology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 32 citations in OpenAlex.
- Diversity of culturable aerobic denitrifying bacteria in the sediment, water and biofilms in Liangshui River of Beijing, China.Scientific reports · 2017Article
- Protective role of glycerol against benzene stress: insights from the Pseudomonas putida proteome.Current genetics · 2016Article
- Genome features of Pseudomonas putida LS46, a novel polyhydroxyalkanoate producer and its comparison with other P. putida strains.AMB Express · 2014Article
- The biology of habitat dominance; can microbes behave as weeds?Microbial biotechnology · 2013Review
- Development of a new strategy for production of medium-chain-length polyhydroxyalkanoates by recombinant Escherichia coli via inexpensive non-fatty acid feedstocks.Applied and environmental microbiology · 2012Article
- Hydrophobic substances induce water stress in microbial cells.Microbial biotechnology · 2010Article
- Comparative transcriptomics and proteomics of p-hydroxybenzoate producing Pseudomonas putida S12: novel responses and implications for strain improvement.Applied microbiology and biotechnology · 2010Article
- Establishment of oxidative D-xylose metabolism in Pseudomonas putida S12.Applied and environmental microbiology · 2009Article
- TrgI, toluene repressed gene I, a novel gene involved in toluene-tolerance in Pseudomonas putida S12.Extremophiles : life under extreme conditions · 2009Article
- Effect of permeate drag force on the development of a biofouling layer in a pressure-driven membrane separation system.Applied and environmental microbiology · 2008Article
- Transcriptome analysis of a phenol-producing Pseudomonas putida S12 construct: genetic and physiological basis for improved production.Journal of bacteriology · 2008Article
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Authors and funding
11 authors at 6 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Pseudomonas putida KT2440 is the only fully sequenced P. putida strain. Thus, for transcriptomics and proteomics studies with other P. putida strains, the P. putida KT2440 genomic database serves as standard reference. The utility of KT2440 whole-genome, high-density oligonucleotide microarrays for transcriptomics studies of other Pseudomonas strains was investigated. To this end, microarray hybridizations were performed with genomic DNAs of subcultures of P. putida KT2440 (DSM6125), the type strain (DSM291(T)), plasmid pWW0-containing KT2440-derivative strain mt-2 (DSM3931), the solvent-tolerant P. putida S12, and several other Pseudomonas strains. Depending on the strain tested, 22 to 99% of all genetic elements were identified in the genomic DNAs. The efficacy of these microarrays to study cellular function was determined for all strains included in the study. The vast majority of DSM6125 genes encoding proteins of primary metabolism and genes involved in the catabolism of aromatic compounds were identified in the genomic DNA of strain S12: a prerequisite for reliable transcriptomics analyses. The genomotypic comparisons between Pseudomonas strains were used to construct highly discriminative phylogenetic relationships. DSM6125 and DSM3931 were indistinguishable and clustered together with strain S12 in a separate group, distinct from DSM291(T). Pseudomonas monteilii (DSM14164) clustered well with P. putida strains.
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