ArticleEnvironmental microbiology2012
Random and cyclical deletion of large DNA segments in the genome of Pseudomonas putida.
Article in Environmental microbiology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
30 citing papers in PubMed, 57 citations in OpenAlex.
- Predicting Strain-Specific Metabolic Capabilities in the GenusComputational and structural biotechnology journal · 2026Article
- Engineering structural variants to interrogate genome function.Nature genetics · 2024Review
- Recent advances in genome annotation and synthetic biology for the development of microbial chassis.Journal, genetic engineering & biotechnology · 2023Review
- Rational engineering of natural polyhydroxyalkanoates producing microorganisms for improved synthesis and recovery.Microbial biotechnology · 2023Review
- Nitrogen Metabolism in Pseudomonas putida: Functional Analysis Using Random Barcode Transposon Sequencing.Applied and environmental microbiology · 2022Article
- Bacterial genome reductions: Tools, applications, and challenges.Frontiers in genome editing · 2022Review
- Random genome reduction coupled with polyhydroxybutyrate biosynthesis to facilitate its accumulation inFrontiers in bioengineering and biotechnology · 2022Article
- LoxTnSeq: random transposon insertions combined with cre/lox recombination and counterselection to generate large random genome reductions.Microbial biotechnology · 2021Article
- Towards a 'chassis' for bacterial magnetosome biosynthesis: genome streamlining of Magnetospirillum gryphiswaldense by multiple deletions.Microbial cell factories · 2021Article
- Evaluation of existing guidelines for their adequacy for the microbial characterisation and environmental risk assessment of microorganisms obtained through synthetic biology.EFSA journal. European Food Safety Authority · 2020Article
- Industrial biotechnology of Pseudomonas putida: advances and prospects.Applied microbiology and biotechnology · 2020Review
- Exploring the fitness benefits of genome reduction in Escherichia coli by a selection-driven approach.Scientific reports · 2020Article
- An expanded CRISPRi toolbox for tunable control of gene expression in Pseudomonas putida.Microbial biotechnology · 2020Article
- Engineering Biology to Construct Microbial Chassis for the Production of Difficult-to-Express Proteins.International journal of molecular sciences · 2020Review
- Engineering and modification of microbial chassis for systems and synthetic biology.Synthetic and systems biotechnology · 2019Review
- Chasing bacterial chassis for metabolic engineering: a perspective review from classical to non-traditional microorganisms.Microbial biotechnology · 2019Review
- Genome editing and transcriptional repression in Pseudomonas putida KT2440 via the type II CRISPR system.Microbial cell factories · 2018Article
- Coupling the recombineering to Cre-lox system enables simplified large-scale genome deletion in Lactobacillus casei.Microbial cell factories · 2018Article
- The contribution of bacterial genome engineering to sustainable development.Microbial biotechnology · 2017Article
- Large-scale reduction of the Bacillus subtilis genome: consequences for the transcriptional network, resource allocation, and metabolism.Genome research · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cumulative site-directed mutagenesis is of limited suitability for the global analysis of the gene functions in the microbe's cellular network. In order to simplify and stabilize the genome of the soil bacterium Pseudomonas putida, we developed a recyclable three-step excision method based on the combination of customized mini-transposons and the FLP-FRT site-specific recombination system. To demonstrate the powerful potential of these tools, we first established insertion mutant libraries that allow users to study gene functions with respect either to phenotypic characteristics (single insertions) or to their involvement in predicted networks (double insertions). Based on these libraries, we generated as a proof-of-principle, single-deletion mutants lacking ~4.1% of the genome (~3.7% of the gene repertoire). A cyclical application of the method generated four double-deletion mutants of which a maximum of ~7.4% of the chromosome (~6.9% of the gene count) was excised. This procedure demonstrates a new strategy for rapid genome streamlining and gain of new insights into the molecular interactions and regulations.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.