Taxonomic Diversity of Culturable Hydrocarbon-Oxidizing Bacteria in the Sea of Japan

Богатыренко, Е. А.; Kim, Alexandra; Dunkai, T. I.; Пономарева, А. Л.; Eskova, A. I.; Сидоренко, М. Л.; Okulov, A. K.

doi:10.1134/s1063074021030032

Cited by 4 publications

(3 citation statements)

References 22 publications

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“…Notably, Microbacteriaceae strains have also been recovered from marine environments. For example, Okibacterium , another plant‐associated genus closely related to Plantibacter , was recently isolated from marine sediments for the first time (Bogatyrenko et al., 2021). This suggests that many more plant‐associated bacteria could survive in marine environments and that the ocean could serve as an underappreciated reservoir for the plant‐associated microbiome.…”

Section: Discussionmentioning

confidence: 99%

Evolution and adaptation of terrestrial plant‐associated Plantibacter species into remote marine environments

Liao,

Qin,

et al. 2024

Molecular Ecology

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Microbes are thought to be distributed and circulated around the world, but the connection between marine and terrestrial microbiomes remains largely unknown. We use Plantibacter, a representative genus associated with plants, as our research model to investigate the global distribution and adaptation of plant‐related bacteria in plant‐free environments, particularly in the remote Southern Ocean and the deep Atlantic Ocean. The marine isolates and their plant‐associated relatives shared over 98% whole‐genome average nucleotide identity (ANI), indicating recent divergence and ongoing speciation from plant‐related niches to marine environments. Comparative genomics revealed that the marine strains acquired new genes via horizontal gene transfer from non‐Plantibacter species and refined existing genes through positive selection to improve adaptation to new habitats. Meanwhile, marine strains retained the ability to interact with plants, such as modifying root system architecture and promoting germination. Furthermore, Plantibacter species were found to be widely distributed in marine environments, revealing an unrecognized phenomenon that plant‐associated microbiomes have colonized the ocean, which could serve as a reservoir for plant growth‐promoting microbes. This study demonstrates the presence of an active reservoir of terrestrial plant growth‐promoting bacteria in remote marine systems and advances our understanding of the microbial connections between plant‐associated and plant‐free environments at the genome level.

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Section: Discussionmentioning

confidence: 99%

Evolution and adaptation of terrestrial plant‐associated Plantibacter species into remote marine environments

Liao,

Qin,

et al. 2024

Molecular Ecology

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“…Microbial degradation is believed to be one of the major pathways to purifying PAHcontaminated sediments. In a previous study, PAH-oxidizing bacteria isolated from the coastal water and sediments of the Sea of Japan and the Tatar Strait demonstrated high oxidative activity to decompose PAHs, which was explained by the severe oil pollution of their habitat [79,80]. Aerobic PAH degradation is often catalyzed at the first step by ringhydroxylating dioxygenases, which incorporate oxygen atoms into the benzene ring [8].…”

Section: The Sediment Degradation Potentialmentioning

confidence: 99%

“…We surveyed our sediment samples to find the nahA and narA genes responsible for encoding naphthalene-degrading enzymes found in the genus Pseudomonas of Gramnegative bacteria and Gram-positive Rhodococcus strains, respectively. Both genera are composed of genetically and physiologically diverse bacteria commonly found in various habitats [83][84][85], and their presence was revealed in the coastal environment of the Sea of Japan and the Tatar Strait [79,80,86].…”

Section: The Sediment Degradation Potentialmentioning

confidence: 99%

Occurrence and Sources of Polycyclic Aromatic Hydrocarbons and Factors Influencing Their Accumulation in Surface Sediment of a Deep-Sea Depression, Namely, the Tatar Trough (Tatar Strait, the Sea of Japan)

Koudryashova,

Chizhova,

Zadorozhny

et al. 2023

Water

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The concentrations of 14 polycyclic aromatic hydrocarbons (PAHs) in the sediment of the Tatar Trough were studied. Despite the increase in PAH concentrations over recent decades, which is likely the result of the handling and transportation of fossil fuels, PAH levels and ecological risk were found to be low. The spatial pattern revealed that higher PAH concentrations were mainly in the deeper water sites, suggesting that trough slope failure transported the PAHs to the deeper part of the basin. There was no correlation between the PAHs and grain size or the PAHs and organic carbon that is related to the PAH input from a variety of sources and the heterogeneity of organic matter. The PAH composition, isomer ratio, and PCA identified two areas with different PAH sources. The most northern part of the Tatar Trough received petrogenic PAHs that are probably transported downslope from the northern Tatar Strait where fossil fuels are handled in some ports. Another trough part was polluted by the PAHs from the combustion of coal and biomass and the exhaust of marine vehicles. The minor presence of genes responsible for aerobic PAH destruction can be explained by the anaerobic degradation of PAHs or the spontaneous creation of favorable conditions that promote bacterial PAH oxidation.

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Biodiversity and Metabolic Properties of Bacterial Communities from the Digestive System of the Bivalve Crenomytilus grayanus

Dunkai¹,

Богатыренко²,

Kim³

2023

Microbiology

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Abstract— Biodiversity of the bacterial communities in the digestive system of Crenomytilus grayanus inhabiting the coastal Sea of Japan waters with chronic anthropogenic pollution was investigated using metabarcoding. Apart from marine bacteria, the taxa typical under contamination with oil (Rhodobacteraceae, Corynebacteriaceae), heavy metals (Asinibacterium), and unprocessed municipal waste (Cloacibacterium,Globicatella) were revealed in the microbiota. A collection of 411 cultured heterotrophic bacterial strains isolated in the course of this study was characterized taxonomically. The intestinal microbiome of the studied mollusks was shown to have a unique composition, depending on their habitat. Ability of bacterial strains isolated from the C. grayanus digestive system to degrade various nutrient substrates (sugars, amino acids, and polysaccharides) and xenobiotics (oil hydrocarbons, bisphenol A, and atrazine) was studied. Most isolates degraded a broad range of organic substrates; 13% (54 strains) oxidized oil hydrocarbons; 1% (4 strains) oxidized bisphenol A; and 0.5% (2 strains) degraded atrazine. The possible role of the microbiome C. grayanus microbiome in symbiotic digestion and in detoxication of the mollusk is discussed.

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Taxonomic Diversity of Culturable Hydrocarbon-Oxidizing Bacteria in the Sea of Japan

Cited by 4 publications

References 22 publications

Evolution and adaptation of terrestrial plant‐associated Plantibacter species into remote marine environments

Evolution and adaptation of terrestrial plant‐associated Plantibacter species into remote marine environments

Occurrence and Sources of Polycyclic Aromatic Hydrocarbons and Factors Influencing Their Accumulation in Surface Sediment of a Deep-Sea Depression, Namely, the Tatar Trough (Tatar Strait, the Sea of Japan)

Biodiversity and Metabolic Properties of Bacterial Communities from the Digestive System of the Bivalve Crenomytilus grayanus

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