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Whole transcriptomic analysis of Novosphingobium tardaugens NBRC 16725 grown in estradiol raw sequence reads

ABSTRACT: Whole transcriptomic analysis of Novosphingobium tardaugens NBRC 16725 grown in estradiol raw sequence reads

PROVIDER: PRJEB39081 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR4296810_1.fastq.gz	Fastqsanger.gz
	ERR4296810_2.fastq.gz	Fastqsanger.gz
	ERR4296808_1.fastq.gz	Fastqsanger.gz
	ERR4296808_2.fastq.gz	Fastqsanger.gz
	ERR4296809_1.fastq.gz	Fastqsanger.gz

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Caenibius tardaugens NBRC 16725

Project description:Novosphingobium tardaugens NBRC 16725 genome sequencing project

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Caenibius tardaugens NBRC 16725

Project description:Whole transcriptomic analysis of Novosphingobium tardaugens NBRC 16725 grown in estradiol raw sequence reads

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Novosphingobium tardaugens NBRC 16725 genome sequencing and assembly

Project description:High quality whole genome sequence of Novosphingobium tardaugens NBRC 16725

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Caenibius tardaugens NBRC 16725 isolate:ARI-1

Project description:High quality whole genome sequence of the estradiol degrader strain Novosphingobium tardaugens NBRC 16725

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Caenibius tardaugens NBRC 16725

Project description:Whole transcriptomic analysis of Novosphingobium tardaugens NBRC 16725 grown in testosterone raw sequence reads

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Caenibius tardaugens NBRC 16725

Project description:Whole transcriptomic analysis of Novosphingobium tardaugens NBRC 16725 grown in pyruvate raw sequence reads

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Unraveling the 17β-Estradiol Degradation Pathway in <i>Novosphingobium tardaugens</i> NBRC 16725.

Project description:We have analyzed the catabolism of estrogens in Novosphingobium tardaugens NBRC 16725, which is able to use endocrine disruptors such as 17β-estradiol, estrone, and estriol as sole carbon and energy sources. A transcriptomic analysis enabled the identification of a cluster of catabolic genes (edc cluster) organized in two divergent operons that are involved in estrogen degradation. We have developed genetic tools for this estrogen-degrading bacterium, allowing us to delete by site-directed mutagenesis some of the genes of the edc cluster and complement them by using expression plasmids to better characterize their precise role in the estrogen catabolism. Based on these results, a catabolic pathway is proposed. The first enzyme of the pathway (17β-hydroxysteroid dehydrogenase) used to transform 17β-estradiol into estrone is encoded out of the cluster. A CYP450 encoded by the edcA gene performs the second metabolic step, i.e., the 4-hydroxylation of estrone in this strain. The edcB gene encodes a 4-hydroxyestrone-4,5-dioxygenase that opens ring A after 4-hydroxylation. The initial steps of the catabolism of estrogens and cholate proceed through different pathways. However, the degradation of estrogens converges with the degradation of testosterone in the final steps of the lower catabolic pathway used to degrade the common intermediate 3aα-H-4α(3'-propanoate)7a-β-methylhexahydro-1,5-indanedione (HIP). The TonB-dependent receptor protein EdcT appears to be involved in estrogen uptake, being the first time that this kind of proteins has been involved in steroid transport.

| S-EPMC7793797 | biostudies-literature

High-Quality Whole-Genome Sequence of an Estradiol-Degrading Strain, Novosphingobium tardaugens NBRC 16725.

Project description:In this work we report the complete sequence and assembly of the estradiol-degrading bacterium Novosphingobium tardaugens NBRC 16725 genome into a single contig using the Pacific Biosciences RS II system.

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Caenibius tardaugens

Project description:Novosphingobium tardaugens overview

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Identification of the EdcR Estrogen-Dependent Repressor in Caenibius tardaugens NBRC 16725: Construction of a Cellular Estradiol Biosensor.

Project description:In this work, Caenibius tardaugens NBRC 16725 (strain ARI-1) (formerly Novosphingobium tardaugens) was isolated due to its capacity to mineralize estrogenic endocrine disruptors. Its genome encodes the edc genes cluster responsible for the degradation of 17β-estradiol, consisting of two putative operons (OpA and OpB) encoding the enzymes of the upper degradation pathway. Inside the edc cluster, we identified the edcR gene encoding a TetR-like protein. Genetic studies carried out with C. tardaugens mutants demonstrated that EdcR represses the promoters that control the expression of the two operons. These genetic analyses have also shown that 17β-estradiol and estrone, the second intermediate of the degradation pathway, are the true effectors of EdcR. This regulatory system has been heterologously expressed in Escherichia coli, foreseeing its use to detect estrogens in environmental samples. Genome comparisons have identified a similar regulatory system in the edc cluster of Altererythrobacter estronivorus MHB5, suggesting that this regulatory arrangement has been horizontally transferred to other bacteria.

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