Ontology highlight
ABSTRACT:
PROVIDER: PRJNA768640 | ENA |
REPOSITORIES: ENA
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Project description:Zero-valent sulfur (ZVS) distributes widely in the deep-sea cold seep, which is important immediate in the active sulfur cycle of cold seep. In our preview work, a novel ZVS formation pathway discovered in the deep-sea cold weep bacterium Erythrobacter flavus 21-3 was described. However, whether this pathway worked and what function roles it played in the cold seep were unknown. In this study, E. flavus 21-3 was verified to produce zero-valent sulfur in the cold seep using genes soxB and tsdA as our preview report described. Based on proteomic data, stoichiometric methods and microscopic observation, this ZVS formation pathway benefited E. flavus 21-3 in the deep-sea cold seep. Notably, 30% metagenomes contained these two genes in the shallow sediments, which present the most abundant sulfur genes and active sulfur cycle in the cold seep sediments. It suggested that this sulfur formation pathway exist across many bacteria in the cold seep. This strongly indicates that this novel pathway might be frequently used by microbes and plays an important role in the biogeochemical sulfur cycle in cold seep.
2022-07-09 | PXD029383 | Pride
Project description:Bacteria isolated from diverse environments were found to sense blue light to regulate their biological functions. However, this ability of deep-sea bacteria has been studied rarely. In this study, we found serendipitously that blue light stimulated excess zero-valent sulfur (ZVS) production of E. flavus 21-3, which was isolated from the deep-sea cold seep and possessed a novel thiosulfate oxidation pathway. Its ZVS production responding to the blue light was mediated by a light-oxygen-voltage histidine kinase (LOV-1477), a diguanylate cyclase (DGC-2902), a PilZ protein (mPilZ-1753) and the key thiosulfate dehydrogenase (TsdA) in its thiosulfate oxidation pathway. Subsequently, the thiosulfohydrolase (SoxB-277) was found working with another SoxB (SoxB-285) and being as substitute for each other to generate ZVS. This study provided an example of deep-sea bacteria sensing blue light to regulate thiosulfate oxidation. Deep-sea blue light potentially helped these blue-light-sensing bacteria adapt harsh conditions by diversifying their biological processes.
2023-01-03 | PXD035435 | Pride
Project description:Light was a ubiquitous environmental stimulus. Deep-sea microorganisms were exposed to a pervasive blue light optical environment. The utilization of blue light by deep-sea microorganisms, especially non-photosynthetic microorganisms, and the downstream pathway after light reception were obscure. Under the enrichment condition surrounded by blue light, a potential novel species named Spongiibacter nanhainus CSC3.9 from the deep-sea cold seep was isolated. Its growth and metabolism under blue light were significantly better than other wavelengths of light. Six blue light sensing proteins, including four BLUF (Blue Light Using Flavin) and two bacteriophytochrome, were annotated in the genome of strain CSC3.9. Then, with the assist of proteomic analysis, we demonstrated that 15960-BLUF was a crucial blue light receptor that interfered with motor behavior through chemotaxis pathway by means of in vivo and in vitro verification. In addition, 15960-BLUF mediated part of the blue light to promote the growth of strain CSC3.9. Further, we summarized the functional BLUF proteins from isolated marine microorganisms, and the high abundance distribution of BLUF similar to the downstream unresponsive domain type in strain CSC3.9 was demonstrated. The widespread distribution of BLUF protein in marine bacteria implied the extensiveness of this regulatory mechanism, and wavelength variation of light was a potential means to isolate uncultured microorganisms. This was the first reported in deep-sea microorganisms that BLUF-dependent physiological response to blue light. It provided a new clue for the blue light adaptation of microorganisms in disphotic zone.
2022-01-18 | PXD028001 | Pride
Project description:Hydrate Ridge, OR - Deep sea cold seep ecosystem Targeted Locus (Loci)
| PRJNA290663 | ENA
Project description:Deep-sea water amplicon metagenomes
| PRJNA785963 | ENA
Project description:Red Sea cold seep sponge Suberites sp. Metagenome
| PRJNA275362 | ENA