Genome Sequences of Two Naphthalene-Degrading Strains of Pseudomonas balearica, Isolated from Polluted Marine Sediment and from an Oil Refinery Site

Salvà‐Serra, Francisco; Jakobsson, Hedvig E.; Busquets, Antonio; Gomila, Margarita; Jaén‐Luchoro, Daniel; Seguí, Carolina; Aliaga-Lozano, Francisco; Garcı́a-Valdés, Elena; Lalucat, Jorge; Moore, Edward R. B.; Bennasar, Antonio

doi:10.1128/genomea.00116-17

Cited by 3 publications

(3 citation statements)

References 15 publications

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“…Moreover, the genome sequences of two strains (S. balearica DSM 6083 T and strain LS401), which harbor the catechol meta-cleavage pathway, codified all components for channeling naphthalene into catechol (Figure 6), and both strains were able to grow using naphthalene and salicylate as sole carbon and energy sources (Table 1), which is in agreement with a previous study (Rossello et al, 1991). S. balearica strain CCUG 66667 (= st101), despite being originally described as naphthalene degrader (Dutta, 2001), was not able to grow on naphthalene as a sole carbon and energy source and no genes for naphthalene degradation were detected in its genome sequence, as previously reported (Salvà-Serra et al, 2017). This suggests that S. balearica strain st101 may have lost the naphthalene degradation capacity, which could be related to mobile genetic elements, such as plasmids, transposons, or integrative conjugative elements, being unstable in the absence of selective pressure (Phale et al, 2019).…”

Section: Degradation Of Aromatic Compounds By Stutzerimonas Balearicasupporting

confidence: 91%

Comparative genomics of Stutzerimonas balearica (Pseudomonas balearica): diversity, habitats, and biodegradation of aromatic compounds

Salvà-Serra,

Pérez-Pantoja,

Donoso

et al. 2023

Front. Microbiol.

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Stutzerimonas balearica (Pseudomonas balearica) has been found principally in oil-polluted environments. The capability of S. balearica to thrive from the degradation of pollutant compounds makes it a species of interest for potential bioremediation applications. However, little has been reported about the diversity of S. balearica. In this study, genome sequences of S. balearica strains from different origins were analyzed, revealing that it is a diverse species with an open pan-genome that will continue revealing new genes and functionalities as the genomes of more strains are sequenced. The nucleotide signatures and intra- and inter-species variation of the 16S rRNA genes of S. balearica were reevaluated. A strategy of screening 16S rRNA gene sequences in public databases enabled the detection of 158 additional strains, of which only 23% were described as S. balearica. The species was detected from a wide range of environments, although mostly from aquatic and polluted environments, predominantly related to petroleum oil. Genomic and phenotypic analyses confirmed that S. balearica possesses varied inherent capabilities for aromatic compounds degradation. This study increases the knowledge of the biology and diversity of S. balearica and will serve as a basis for future work with the species.

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Section: Degradation Of Aromatic Compounds By Stutzerimonas Balearicasupporting

confidence: 91%

Comparative genomics of Stutzerimonas balearica (Pseudomonas balearica): diversity, habitats, and biodegradation of aromatic compounds

Salvà-Serra,

Pérez-Pantoja,

Donoso

et al. 2023

Front. Microbiol.

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“…We identified specific microbes that can be used as sensitive indicators of aquaculture impacts. These included P. balearica ( Figure 4 ), which has been associated with other contaminated wetland systems, suggesting that this taxon could be a potential bio-indicator of a disturbed mangrove ecosystem ( Salvà-Serra et al., 2017 ). Similar studies have also identified aquaculture effluent as a source of pathogens to the coastal ecosystem ( Garren et al., 2009 ).…”

Section: Discussionmentioning

confidence: 99%

Sensitivity of the mangrove-estuarine microbial community to aquaculture effluent

Erazo

Bowman

2021

iScience

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Summary Mangrove-dominated estuaries host a diverse microbial assemblage that facilitates nutrient and carbon conversions and could play a vital role in maintaining ecosystem health. In this study, we used 16S rRNA gene analysis, metabolic inference, nutrient concentrations, and δ 13 C and δ 15 N isotopes to evaluate the impact of land use change on near-shore biogeochemical cycles and microbial community structures within mangrove-dominated estuaries. Samples in close proximity to active shrimp aquaculture were high in NH 4 + , NO 3 − NO 2 − , and PO 4 3− ; lower in microbial community and metabolic diversity; and dominated by putative nitrifiers, denitrifies, and sulfur-oxidizing bacteria. Near intact mangrove forests we observed the presence of potential nitrogen fixers of the genus Calothrix and order Rhizobiales. We identified possible indicators of aquaculture effluents such as Pseudomonas balearica, Ponitmonas salivi brio , family Chromatiaceae , and genus Arcobacter. These results highlight the sensitivity of the estuarine-mangrove microbial community, and their ecosystem functions, to land use changes.

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“…In contrast, 6,470scaffolds were produced for Sample C with an N50 of 24,471 bp and highest scaffold length 197,135 bp. Metassembler has been widely used to develop meta-genome assemblies [48] , [49] , [50] , [51] , [52] , [53] , [54] , [55] . The genome size of Sample C was 76.95Mb compared to 72.16Mb for Sample B.…”

Section: Discussionmentioning

confidence: 99%

Comparative analysis of draft genome assemblies developed from whole genome sequences of two Hyaloperonospora brassicae isolate samples differing in field virulence on Brassica napus

You

Akhatar

Mittal

et al. 2021

Biotechnology Reports

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Highlights We report first draft genome assemblies for two isolates Hyaloperonospora brassicae , differing for their virulence. These revealed genome sizes of genome sizes of 72.762 and 76.950Mb and 6,438 and 6,470 scaffolds respectively. In silico annotation allowed understanding of the genome architecture of H. brassicae in terms of genes for pathogenicity and virulence. The observed reduction in virulence or loss of pathogenicity in a larger number of genes in the sample with low virulence in comparison to sample with high virulence may reflect differential rates of mutation and selection during host–parasite co‐evolution. Genomic resources develop will aid in monitoring field prevalence of H. brassicae pathotypes and to detect early any virulence changes within pathogen populations.

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Genome Sequences of Two Naphthalene-Degrading Strains of Pseudomonas balearica, Isolated from Polluted Marine Sediment and from an Oil Refinery Site

Cited by 3 publications

References 15 publications

Comparative genomics of Stutzerimonas balearica (Pseudomonas balearica): diversity, habitats, and biodegradation of aromatic compounds

Comparative genomics of Stutzerimonas balearica (Pseudomonas balearica): diversity, habitats, and biodegradation of aromatic compounds

Sensitivity of the mangrove-estuarine microbial community to aquaculture effluent

Comparative analysis of draft genome assemblies developed from whole genome sequences of two Hyaloperonospora brassicae isolate samples differing in field virulence on Brassica napus

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