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Qipengyuania flava

ABSTRACT: Erythrobacter flavus overview

PROVIDER: PRJNA547426 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
		Other
	DRR162742_1.fastq.gz	Fastqsanger.gz
	DRR162742_2.fastq.gz	Fastqsanger.gz
	SRR10917703_1.fastq.gz	Fastqsanger.gz
	SRR10917703_2.fastq.gz	Fastqsanger.gz

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Project description:Zero-valent sulfur (ZVS) and thiosulfate are important intermediates in the biogeochemical cycle of sulfur. The former has been proved to be existed in the cold seep and hydrothermal systems. Three thiosulfate oxidation pathways are already identified and here we found a novel one in Erythrobacter, which was the first genus in the family Erythrobacteraceae that could accumulate ZVS during thiosulfate oxidation. Erythrobacter flavus 21-3 was isolated from the sediment of clod seep. Genomic analyses showed the typical genes encoding Sox multienzyme complex were absent in the genome of E. flavus 21-3. Through proteome and genome data, we identified a three gene involved pathway of thiosulfate oxidation, including thiosulfate dehydrogenase (tsdA), thiosulfohydrolase (soxB) and sulfur dioxygenases (sdo). For the first time, genetic operating system was constructed in Erythrobacter, and mutant strains ΔtsdA, ΔsoxB, ΔsdoA, ΔsdoB and ΔsdoAB were constructed. Stoichiometry was calculated and tetrathionate and ZVS were found to be the intermediates in this novel thiosulfate oxidation pathway. The diverse and distribution of these proteins were investigated and this novel thiosulfate oxidation pathway may exist in bacteria formerly ignored the function of ZVS production. The results give a powerful evidence for a new source of biogenetic ZVS in cold seep.

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Light and polyphosphate kinase 2 cooperatively regulate the production of zero-valent sulfur in a deep-sea bacterium.

Project description:The existence of light in various deep-sea environments has been well established. Our previous research found blue light promotes zero-valent sulfur (ZVS) production in Erythrobacter flavus 21-3, a bacterium isolated from the deep-sea cold seep. E. flavus 21-3 can convert thiosulfate to ZVS through a novel thiosulfate oxidation pathway comprising a thiosulfate dehydrogenase (TsdA) and two thiosulfohydrolases (SoxB). Using proteomic analysis, bacterial two-hybrid system and heterologous expression assays, we found that infrared light also promotes zero-valent sulfur (ZVS) production in E. flavus 21-3. The bacteriophytochrome (bphp) Ef2bphp-15570 autophosphorylated and activated GGDEF domain-containing protein D0Y83_RS00450 to produce c-di-GMP. Subsequently, the PilZ protein mPilZ-1753 bound to c-di-GMP and activated downstream sulfur oxidation pathways. During this process, polyphosphate kinase 2 (PPK2) affects the content of c-di-GMP by competing for GTP, thereby together c-di-GMP regulating ZVS production, as well as other metabolic processes in E. flavus 21-3. This study provides a novel insight into a deep-sea non-photosynthetic bacterium which sensing infrared light to regulate sulfur metabolism through a bacteriophytochrome photoreceptor, thus offering new understandings perspectives on microbial utilization of light energy.

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In situ proteomic data of E. flavus 21-3 and corresponding mutants

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.

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