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SalmoBac

ABSTRACT: Whole genome sequencing of a collection of bacteria isolated from the salmon gut

PROVIDER: PRJEB45024 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR5950934.fastq.gz	Fastqsanger.gz
	ERR5957088.fastq.gz	Fastqsanger.gz

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Project description:Whole genome sequencing of a collection of bacteria isolated from the salmon gut

| PRJEB61648 | ENA

A multicenter translational biomarker phase II trial of regorafenib in patients with non-resectable pretreated colorectal cancer.

Project description:Primary objectives: The primary objective is to investigate circulating tumor DNA (ctDNA) via deep sequencing for mutation detection and by whole genome sequencing for copy number analyses before start (baseline) with regorafenib and at defined time points during administration of regorafenib for treatment efficacy in colorectal cancer patients in terms of overall survival (OS). Primary endpoints: circulating tumor DNA (ctDNA) via deep sequencing for mutation detection and by whole genome sequencing for copy number analyses before start (baseline) with regorafenib and at defined time points during administration of regorafenib for treatment efficacy in colorectal cancer patients in terms of overall survival (OS).

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Project description:Opioids such as morphine have many beneficial properties as analgesics, however, opioids may induce multiple adverse gastrointestinal symptoms. We have recently demonstrated that morphine treatment results in significant disruption in gut barrier function leading to increased translocation of gut commensal bacteria. However, it is unclear how opioids modulate the gut homeostasis. By using a mouse model of morphine treatment, we studied effects of morphine treatment on gut microbiome. We characterized phylogenetic profiles of gut microbes, and found a significant shift in the gut microbiome and increase of pathogenic bacteria following morphine treatment when compared to placebo. In the present study, wild type mice (C57BL/6J) were implanted with placebo, morphine pellets subcutaneously. Fecal matter were taken for bacterial 16s rDNA sequencing analysis at day 3 post treatment. A scatter plot based on an unweighted UniFrac distance matrics obtained from the sequences at OTU level with 97% similarity showed a distinct clustering of the community composition between the morphine and placebo treated groups. By using the chao1 index to evaluate alpha diversity (that is diversity within a group) and using unweighted UniFrac distance to evaluate beta diversity (that is diversity between groups, comparing microbial community based on compositional structures), we found that morphine treatment results in a significant decrease in alpha diversity and shift in fecal microbiome at day 3 post treatment compared to placebo treatment. Taxonomical analysis showed that morphine treatment results in a significant increase of potential pathogenic bacteria. Our study shed light on effects of morphine on the gut microbiome, and its role in the gut homeostasis.

2018-04-16 | E-MTAB-5546 | biostudies-arrayexpress

Commensal bacteria act as a broad genetic buffer that maintains phenotypic homogeneity and developmental robustness in Drosophila

Project description:Among the diverse forms of symbioses, facultative nutritional mutualism forged by the host and its resident gut microbiota permits the symbiont to adapt to the changing nutritional environment during the host’s life time. The horizontally acquired gut bacteria in Drosophila are a perfect example of nutritional mutualists. Here, we study the Lactobacillus plantarum (Lp WJL) infection effect in the Drosophila Genetic Reference Panel (DGRP) collection in context of larvae raised in chronic undernutrtion.

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2017-04-06 | GSE97448 | GEO

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Project description:Whole genome sequence of isolated bacteria

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