Shewanella benthica KT99
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ABSTRACT:
PROVIDER: PRJNA13387 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Deep-sea piezophilic heterotrophic marine microbe
| PRJNA13583 | ENA
Project description:Physiological and gene expression studies of deep-sea bacteria under pressure conditions similar to those experienced in their natural habitat are critical to understand growth kinetics and metabolic adaptations to in situ conditions. The Epslilonproteobacterium, Nautilia sp. strain PV1, was isolated from hydrothermal fluids released from an active deep-sea hydrothermal vent at 9°N on the East Pacific Rise. Using a high pressure/high temperature continuous culture system we established that strain PV-1 has the shortest generation time of all known piezophilic microorganisms and we investigated its protein expression pattern in response to different hydrostatic pressures. Proteomic analyses of strain PV-1 grown at 200 Bars and 5 Bars showed that pressure adaptation is not restricted only to stress response or homeoviscous adaptation, but that it is more diversified and protein specific, with a fine and variegated regulation of enzymes involved even in the same metabolic pathway. As previously reported, proteins synthesis, motility, transport and energy metabolism are all affected by pressure, although to different extents. In strain PV-1, low pressure condition seems to activate the synthesis of phage-related proteins and an overexpression of enzymes involved in central carbon metabolism.
2023-05-10 | PXD022895 | Pride
Project description:A bacterium isolated from west Pacific deep-sea sediment
| PRJNA17675 | ENA
Project description:The goal of this study was to identify the key functions of the six main symbionts that are hosted in gills of the marine bivalve, Idas modiolaeformis, which lives at deep-sea hydrocarbon seeps and wood falls in the Eastern Atlantic Ocean and the Mediterranean Sea. These symbionts include the main autotrophic methane- and sulfur-oxidizing lineages (Methyloprofundus, Thioglobus, Thiodubillierella), as well as a Methylophagaceae methylotrophic autotroph, a flavobacterial degrader of complex polysaccharides Urechidicola and a Nitrincolaceae heterotroph that specializes in degradation of nitrogen-rich compounds such as peptides and nucleosides. Four I. modiolaeformis individuals were preserved in RNAlater following retrieval from a brine pool habitat in the Eastern Mediterranean at 1,150 m water depth (32° 13.4' N 34° 10.7' E), using a remotely-operated vehicle. RNAlater was discarded after 24 hours, and the specimens were kept at -80°C until DNA/RNA/protein co-extraction using the AllPrep DNA/RNA/Protein Mini Kit (Cat. No. 80004, Qiagen).
2023-07-20 | PXD040273 | Pride
Project description:Shewanella donghaensis strain:deep-sea sediments | isolate:deep-sea sediments Genome sequencing
| PRJNA556082 | ENA
Project description:Despite the fact that deep sea mining is becoming more popular nowadays in terms of obtaining metals ores for daily life purposes, its potential impact to the deep sea habitat, which is originally stable and converse, stills remains uncertain. In order to estimate and regulate the imapct of deep sea mining activities, an in-situ exposure experiment is performed to observe the change in proteomics expression of the deep-sea scvangers, Abyssorchomene distinctus, to copper exposure. This project aims to suggest a potenial protein bio-marker in Abyssorchomene distinctus to assess the impact of mining activities towards deep sea organisms and also discuss the potential application of other deep sea in-situ exposure experiment in the future.
2019-10-30 | PXD012778 | Pride
Project description:The sea cucumber Apostichopus japonicus withstands high water temperatures in the summer by suppressing metabolic rate and entering a state of aestivation. We hypothesized that changes in the expression of miRNAs could provide important post-transcriptional regulation of gene expression during hypometabolism via control over mRNA translation. The present study analyzed profiles of miRNA expression in the sea cucumber respiratory tree using Solexa deep sequencing technology. We identified 279 sea cucumber miRNAs, including 15 novel miRNAs specific to sea cucumber. Animals sampled during deep aestivation (DA; after at least 15 days of continuous torpor) were compared with animals from a non-aestivation (NA) state (animals that had passed through aestivation and returned to an active state). We identified 30 differentially expressed miRNAs ([RPM (reads per million) >10, |FC| (|fold change|) ≥1, FDR (false discovery rate) <0.01]) during aestivation, which were validated by two other miRNA profiling methods: miRNA microarray and real-time PCR. Among the most prominent miRNA species, miR-124, miR-124-3p, miR-79, miR-9 and miR-2010 were significantly over-expressed during deep aestivation compared with non-aestivation animals, suggesting that these miRNAs may play important roles in metabolic rate suppression during aestivation.
2014-10-01 | GSE52225 | GEO
Project description:The sea cucumber Apostichopus japonicus withstands high water temperatures in the summer by suppressing metabolic rate and entering a state of aestivation. We hypothesized that changes in the expression of miRNAs could provide important post-transcriptional regulation of gene expression during hypometabolism via control over mRNA translation. The present study analyzed profiles of miRNA expression in the sea cucumber respiratory tree using Solexa deep sequencing technology. We identified 279 sea cucumber miRNAs, including 15 novel miRNAs specific to sea cucumber. Animals sampled during deep aestivation (DA; after at least 15 days of continuous torpor) were compared with animals from a non-aestivation (NA) state (animals that had passed through aestivation and returned to an active state). We identified 30 differentially expressed miRNAs ([RPM (reads per million) >10, |FC| (|fold change|) ≥1, FDR (false discovery rate) <0.01]) during aestivation, which were validated by two other miRNA profiling methods: miRNA microarray and real-time PCR. Among the most prominent miRNA species, miR-124, miR-124-3p, miR-79, miR-9 and miR-2010 were significantly over-expressed during deep aestivation compared with non-aestivation animals, suggesting that these miRNAs may play important roles in metabolic rate suppression during aestivation.
2014-10-01 | GSE52224 | GEO