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Complete genome sequence of Pseudomonas sp. PP3, a dehalogenase-producing bacterium, confirms the unusual mobile genetic element DEH

Summary

Scientists completed the full genetic sequence of a special bacterium called Pseudomonas sp. PP3 that can break down harmful chlorinated chemicals used in herbicides and pesticides. The bacterium carries unusual mobile genetic elements that contain genes for dehalogenase enzymes, which enable it to remove chlorine atoms from these pollutants. This discovery helps us understand how bacteria can be used to clean up contaminated soil and water. The research confirms that this organism is closely related to another known Pseudomonas species and provides valuable information for developing better bioremediation strategies.

Background

Halo-organic compounds are widely used as herbicides, pesticides, preservatives, and solvents but raise environmental concerns due to their persistence and toxicity. Pseudomonas species are known for biodegradation of such compounds. Pseudomonas sp. strain PP3 was isolated from soil enriched on 2,2-dichloropropionic acid as a sole carbon source.

Objective

To obtain and analyze the complete genome sequence of Pseudomonas sp. PP3 to confirm the presence and characterization of the unusual mobile genetic element DEH and its dehalogenase genes involved in bioremediation of halogenated organic pollutants.

Results

The assembled 6.42 Mb genome contains 5,745 coding DNA sequences, 19 rRNAs, 71 tRNAs, and 59.17% G+C content. Two 2-haloalkanoate dehalogenase genes and one silent dehI gene were identified. The DEH mobile genetic element was confirmed to contain a dehI family gene and regulatory gene dehRI flanked by IS Ppu12 insertion sequences, located near a separate putative dehalogenase operon.

Conclusion

The complete genome of Pseudomonas sp. PP3 confirms the presence of the unusual mobile genetic element DEH and multiple dehalogenase genes. ANI values suggest PP3 is most closely related to P. reinekei, though dDDH analysis suggests it may represent a new species. This well-characterized organism continues to provide insights into adaptive dehalogenase-mediated bioremediation.
  • Published in:Microbiology Resource Announcements,
  • Study Type:Genome Sequencing and Annotation,
  • Source: PMID: 40257265, DOI: 10.1128/mra.00089-25
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