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ORIGINAL RESEARCH article
Front. Microbiol.
Sec. Aquatic Microbiology
Volume 16 - 2025 | doi: 10.3389/fmicb.2025.1530878
Description of Pseudomonas imrae sp. nov., carrying a novel class C β-lactamase gene variant, isolated from gut samples of Atlantic mackerel (Scomber scombrus)
Provisionally accepted
Francisco Salvà-Serra 1
Priyank Nimje 2 Beatriz Piñeiro-Iglesias 3 Leonarda Achá Alarcón 3 Sofia Cardew 3 Elisabeth Inganäs 3 Susanne Jensie-Markopoulos 3 Maria Ohlén 3 Hanna-Sophia Sailer 3 Christel Unosson 3 Víctor Fernández-Juárez 4
Cesar Pacherres 5
Michael Kühl 5
Edward R.B. Moore 3
Nachiket Prakash Marathe 2*- 1 Research Institutes of Sweden (RISE), Gothenburg, Sweden
- 2 Norwegian Institute of Marine Research (IMR), Bergen, Norway
- 3 Culture Collection University of Gothenburg (CCUG), Gothenburg, Sweden
- 4 Nordic Center for Earth Evolution, Department of Biology, Faculty of Science, University of Southern Denmark, Odense, Denmark
- 5 Marine Biological Section, Department of Biology, Faculty of Natural and Life Sciences, University of Copenhagen, Copenhagen, Denmark
Three β-lactam resistant bacterial strains isolated from gut samples of wild Atlantic mackerel (Scomber scombrus) collected from the northern North Sea were characterized by polyphasic analyses. The strains were determined to belong to the genus Pseudomonas but could not be assigned to a known species. The nearly-complete 16S rRNA gene sequence showed the highest similarity (99.9%) to four different species, although partial rpoD sequence exhibited relatively low similarities to Pseudomonas proteolytica (93.4%) and other Pseudomonas spp. Genome sequencing and subsequent digital DNA-DNA hybridization (dDDH), average nucleotide identity (ANI) analysis and core genome analysis confirmed that these new strains represent a novel species within Pseudomonas. The three strains demonstrated ANIb values >99.5% with each other, confirming that all three strains (CCUG 74779 T = CECT 30571 T , CCUG 74780 and CCUG 74781) belong to the same genomospecies. Phylogenomic analysis confirmed that the strains form a distinct genomic clade, representing a novel taxonomic species, for which the name Pseudomonas imrae sp. nov., is proposed, with strain CCUG 74779 T (= CECT 30571 T ) designated as the type strain. We report the complete genome sequence of the type strain of P. imrae sp. nov. and show that it carries a gene encoding a novel variant of a chromosomally-encoded class C β-lactamase, which has been designated as PFL-7.
Keywords: Pseudomonas fluorescens group, Pseudomonas gessardii subgroup, β-lactamase novel variant, Novel species, polyphasic taxonomy, phylogenomics, Whole-genome sequencing
Received: 19 Nov 2024; Accepted: 18 Mar 2025.
Copyright: © 2025 Salvà-Serra, Nimje, Piñeiro-Iglesias, Achá Alarcón, Cardew, Inganäs, Jensie-Markopoulos, Ohlén, Sailer, Unosson, Fernández-Juárez, Pacherres, Kühl, Moore and Marathe. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
* Correspondence:
Nachiket Prakash Marathe, Norwegian Institute of Marine Research (IMR), Bergen, Norway
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