Genome analysis of Pseudomonas spp. CPA-7, a strain with potential as a biocontrol agent
We report the whole genome sequence of CPA-7, a strain isolated from apple surface and classified as Pseudomonas graminis, that has shown antagonistic activity against pathogenic bacteria in several food matrices. Its genome comprises 5,786,948 bp, with 60.5 % average of C + G content. From the 5122...
| Autores: | , , , , , , |
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| Tipo de recurso: | artículo |
| Estado: | Versión publicada |
| Fecha de publicación: | 2025 |
| País: | España |
| Institución: | Universitat de Lleida (UdL) |
| Repositorio: | Repositori Obert UdL |
| OAI Identifier: | oai:repositori.udl.cat:10459.1/468734 |
| Acceso en línea: | https://doi.org/10.1016/j.genrep.2025.102326 https://hdl.handle.net/10459.1/468734 |
| Access Level: | acceso abierto |
| Palabra clave: | Genome mining Biological control Comparative genomics Genome sequence Genome analysis |
| Sumario: | We report the whole genome sequence of CPA-7, a strain isolated from apple surface and classified as Pseudomonas graminis, that has shown antagonistic activity against pathogenic bacteria in several food matrices. Its genome comprises 5,786,948 bp, with 60.5 % average of C + G content. From the 5122 predicted protein coding sequences (CDSs), 4703 (91.8 %) were functionally annotated. Comparative genomic analyses using 366 fully sequenced Pseudomonas strains placed CPA-7 within the P. lutea group, more related to P. graminis UASWS1507. However, ANI values in respect to the other fully sequenced P. graminis (91–92 %), including the type strain DSM11363, were below the intraspecific bacterial threshold (95 %). Whole genomic digital DNA-DNA hybridization in the Type Strain Genome Server also gave a below threshold score for P. graminis (47.7 %), suggesting the need for revision of this taxon. BLAST analyses of 16S rRNA showed >99 % identity with other Pseudomonas spp. while the rpoD amplified sequence revealed a 100 % similarity with Pseudomonas sp. Irchel 1A17. Single orthologs analysis unraveled 341 CDSs unique to CPA-7 compared to the rest of P. graminis strains including genes involved in transport, adherence, and adaptability. Genome mining uncovered genes potentially involved in biological control, and plant growth promoting activities which corresponded to in vitro activities such as the production of siderophores, 1-aminocyclopropane-1-carboxylate deaminase, and Indole-3-acetic acid as well as Phosphorous solubilization. Furthermore, multiple genes associated with chemotaxis, colonization, and metabolic plasticity, unravel the genetic basis for the potentialities of CPA-7 as a biocontrol agent, opening several lines for further investigation. |
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