This study simultaneously measured the taxonomic diversity of bacterial communities in both seawater and PM aerosol samples collected from the Northern Pacific Ocean during a cruise covering 7724 km between 37°N 126°E and 58°N 179°E. The relative abundance of Proteobacteria, Cyanobacteria, and Firmicutes were found to be more prevalent in aerosol samples (39 ± 16 %, 5.1 ± 1.
View Article and Find Full Text PDFA Gram-stain-negative, aerobic, rod-shaped and motile strain HL-JVS1, was isolated from the gastric tract of a juvenile Pacific white shrimp. Molecular phylogenetic analysis based on 16S rRNA gene sequences of strain HL-JVS1 revealed its affiliation with the genus Pleionea, with close relatives including Pleionea mediterranea MOLA115 (97.5%) and Pleionea sediminis S1-5-21 (96.
View Article and Find Full Text PDFInt J Syst Evol Microbiol
November 2023
A novel Gram-stain-negative, aerobic, rod-shaped bacterium, designated as HL-NP1, was isolated from the surface water of the northwestern Pacific Ocean after enrichment cultivation using the organic phosphorous compound of 2-aminoethylphosphonate. Phylogenetic analysis based on 16S rRNA gene sequences showed that the strain belonged to the genus , with the highest similarity to 40Bstr34 (98.7 %).
View Article and Find Full Text PDFA Gram-stain-negative, facultatively anaerobic, non-motile, rod-shaped bacterial strain, designated HL-MP18, was isolated from Arctic seawater after a prolonged incubation employing polypropylene as the sole carbon source. Phylogenetic analyses of the 16S rRNA gene sequence revealed that strain HL-MP18 was affiliated to the genus with close relatives LXJ103 (96.8 %) and KCTC 32327 (96.
View Article and Find Full Text PDFΦGT1 is a lytic podovirus of an alphaproteobacterial species, with few closely matching sequences among characterized phages, thus defying a useful description by simple sequence clustering methods. The history of the ΦGT1 core structure module was reconstructed using timetrees, including numerous related prospective prophages, to flesh out the evolutionary lineages spanning from the origin of the ejectosomal podovirus >3.2 Gya to the present genes of ΦGT1 and its closest relatives.
View Article and Find Full Text PDFInt J Syst Evol Microbiol
March 2023
A Gram-stain-negative, aerobic, rod-shaped bacterial strain, designated HL-LV01, was isolated from the intestinal tract content of the Pacific white shrimp . The 16S rRNA gene sequence of strain HL-LV01 showed that the strain was clearly a member of the genus . According to the phylogenetic analyses, strain HL-LV01 was most closely related to the species KCTC 42508 with 98.
View Article and Find Full Text PDFBackground: DNA methylation in prokaryotes is involved in many different cellular processes including cell cycle regulation and defense against viruses. To date, most prokaryotic methylation systems have been studied in culturable microorganisms, resulting in a limited understanding of DNA methylation from a microbial ecology perspective. Here, we analyze the distribution patterns of several microbial epigenetics marks in the ocean microbiome through genome-centric metagenomics across all domains of life.
View Article and Find Full Text PDFGram-stain-negative, strictly aerobic, red-pink-coloured, rod-shaped and non-motile bacterial strains PAMC 29290, PAMC 29294 and PAMC 29296 were isolated from marine surface sediment sampled in the East Siberian Sea and strains PAMC 26553 and PAMC 26554 were obtained from an Antarctic lichen. Strains PAMC 29290, PAMC 29294 and PAMC 29296 were closely related to (98.8 % 16S rRNA gene similarity), (97.
View Article and Find Full Text PDFThis study investigated the abundance and diversity of antibiotic resistance genes (ARGs) and the composition of bacterial communities along a transect covering the western Pacific Ocean (36°N) to the Southern Ocean (74°S) using the Korean icebreaker R/V Araon (total cruise distance: 14,942 km). The relative abundances of ARGs and bacteria were assessed with quantitative PCR and next generation sequencing, respectively. The absolute abundance of ARGs was 3.
View Article and Find Full Text PDFMicrobiol Resour Announc
August 2020
The bacteria are ubiquitous and important players in organic sulfur cycling in marine environments. Here, we report the complete genome sequence of ϕGT1 infecting sp. HGT1, both of which were isolated from coastal sediment.
View Article and Find Full Text PDFA Gram-stain-negative, non-motile, facultatively anaerobic and rod-shaped bacterial strain, designated PAMC 28131, was isolated from a sea surface microlayer sample in the open water of the Pacific Ocean. Phylogenetic analysis of the 16S rRNA gene sequence of strain PAMC 28131 revealed an affiliation to the genus with the closest species RB16-17 (sequence similarity of 98.2 %).
View Article and Find Full Text PDFInt J Syst Evol Microbiol
June 2020
Gram-stain-negative, aerobic and rod-shaped bacterial strains, designated SSM26 and SSM44, were isolated from a sea surface microlayer sample from the Ross Sea, Antarctica. Analysis of the 16S rRNA gene sequences of strains SSM26 and SSM44 revealed a clear affiliation with the genus . Based on the results of phylogenetic analysis, strains SSM26 and SSM44 showed the closest phylogenetic relationship with the species KCTC 22137 with the 16S rRNA gene sequence similarity level of 98.
View Article and Find Full Text PDFRecent recession of the Larsen Ice Shelf C has revealed microbial alterations of illite in marine sediments, a process typically thought to occur during low-grade metamorphism. In situ breakdown of illite provides a previously-unobserved pathway for the release of dissolved Fe to porewaters, thus enhancing clay-rich Antarctic sub-ice shelf sediments as an important source of Fe to Fe-limited surface Southern Ocean waters during ice shelf retreat after the Last Glacial Maximum. When sediments are underneath the ice shelf, Fe from microbial reductive dissolution of illite/Fe-oxides may be exported to the water column.
View Article and Find Full Text PDFTwo Gram-stain-negative, facultative anaerobic chemoheterotrophic, pink-coloured, rod-shaped and non-motile bacterial strains, PAMC 29128 and PAMC 29148, were isolated from lichen. Phylogenetic analysis based on the 16S rRNA gene sequences revealed that strains PAMC 29128 and PAMC 29148 belong to lichen-associated -1 (LAR1), an uncultured phylogenetic lineage of the order and the most closely related genera were (<93.9 %) and (<93.
View Article and Find Full Text PDFThe sources of primary and secondary aerosols in the Arctic are still poorly known. A number of surface seawater samples-with varying degrees of Arctic riverine and sea ice influences-were used in a sea spray generation chamber to test them for their potential to produce sea spray aerosols (SSA) and cloud condensation nuclei (CCN). Our interdisciplinary data showed that both sea salt and organic matter (OM) significantly influenced the SSA production.
View Article and Find Full Text PDFInt J Syst Evol Microbiol
August 2019
Two Gram-stain-negative, rod-shaped, facultatively anaerobic, iron-reducing bacterial strains, designated M2 and R106, were isolated from pelagic surface-sediment of the Ross Sea, Antarctica. The 16S rRNA gene sequence analysis revealed that strains M2 and R106 were affiliated to the genus Shewanellaand formed a distinct subline in a robust clade encompassing Shewanella vesiculosa, Shewanella livingstonensis, Shewanella arcticaand Shewanella frigidimarinawith a range of sequence similarities of 98.1-98.
View Article and Find Full Text PDFBackground: Pontimonas salivibrio strain CL-TW6 (=KCCM 90105 = JCM18206) was characterized as the type strain of a new genus within the Actinobacterial family Microbacteriaceae. It was isolated from a coastal marine environment in which members of Microbactericeae have not been previously characterized.
Results: The genome of P.
Int J Syst Evol Microbiol
July 2017
A taxonomic study was conducted on strain soj2014T, which was isolated from the surface water of a polynya in the Antarctic Sea. Comparative 16S rRNA gene sequence analysis showed that strain soj2014T belongs to the family Kiloniellaceae and is closely related to Kiloniella spongiae MEBiC09566T, 'Kiloniella litopenaei' P1-1T and Kiloniella laminariae LD81T (98.0 %, 97.
View Article and Find Full Text PDFThe increasing temperature in Arctic tundra deepens the active layer, which is the upper layer of permafrost soil that experiences repeated thawing and freezing. The increasing of soil temperature and the deepening of active layer seem to affect soil microbial communities. Therefore, information on soil microbial communities at various soil depths is essential to understand their potential responses to climate change in the active layer soil.
View Article and Find Full Text PDFProkaryotes were extracted from skates and fermented skates purchased from fish markets and a local manufacturer in South Korea. The prokaryotic community composition of skates and fermented skates was investigated using 16S rRNA pyrosequencing. The ranges for pH and salinity of the grinded tissue extract from fermented skates were 8.
View Article and Find Full Text PDFThe taxonomic relationship between Halomonas sinaiensis DSM 18067(T) and Halomonas caseinilytica JCM 14802(T) has not been established, despite the high similarity (99.6 %) of their 16S rRNA gene sequences. To clarify their taxonomic positions, a polyphasic approach was applied to both type strains.
View Article and Find Full Text PDFA Gram-stain-negative, facultatively anaerobic, rod-shaped and motile strain, designated PAMC 28425T, was isolated from a sea surface microlayer sample from the Ross Sea, Antarctica. Analysis of the 16S rRNA gene sequence of strain PAMC 28425T showed an affiliation with the genus Pseudoalteromonas. Phylogenetic analyses revealed that strain PAMC 28425T formed a clade with Pseudoalteromonas prydzensis MB8-11T and Pseudoalteromonas mariniglutinosaKMM 3635T with 16S rRNA gene sequence similarities of 98.
View Article and Find Full Text PDFThe virion proteins of Pseudoalteromonas phage φRIO-1 were identified and quantitated by mass spectrometry and gel densitometry. Bioinformatic methods customized to deal with extreme divergence defined a φRIO-1 tail structure homology group of phages, which was further related to T7 tail and internal virion proteins (IVPs). Similarly, homologs of tubular tail components and internal virion proteins were identified in essentially all completely sequenced podoviruses other than those in the subfamily Picovirinae.
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