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CRIB genome sequencing

ABSTRACT: Genome sequence of the rat gut bacterium Romboutsia ilealis CRIB

PROVIDER: PRJEB4727 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	ERR366773.fastq.gz	Fastqsanger.gz
	ERR368948_1.fastq.gz	Fastqsanger.gz
	ERR368948_2.fastq.gz	Fastqsanger.gz
	ERR430958_1.fastq.gz	Fastqsanger.gz
	ERR430967.fastq.gz	Fastqsanger.gz

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CRIB (Cancer Rehabilitation In Bowel cancer): the use of cardiac rehabilitation services to aid the recovery of colorectal cancer patients: a pilot randomised controlled trial (RCT) with embedded feasibility study

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Integration of transcriptome and proteome annotation in the naive Ixodes ricinus midgut with genome sequencing

Project description:In Europe, ticks are the most important vectors of diseases threatening humans, livestock, wildlife and companion animals. Nevertheless, genomic sequence information and functional annotation of proteins of the most important European tick, Ixodes ricinus, is limited. Here we present the first analysis of the I. ricinus genome and of the transcriptome of the unfed I. ricinus midgut. We combined and integrated data from genome, transcriptome and proteome. The de novo assembly of 1 billion paired-end sequences identified 6,415 putative genes providing an unprecedented insight into the I. ricinus genome. Mapping of our midgut mRNA reads to the assembled contigs let us estimate to cover around two third of the unique genomic sequences. In addition, more than 10,000 transcripts from naïve midgut were annotated functionally and/or locally. By combining the alignment-based with a motif-search based annotation approach, we could double the number of annotations throughout all groups without shifting the dataset. Moreover, 1,175 proteins expressed in the naïve midgut were identified by mass spectrometry confirming the high completeness of our transcriptome database, and 608 were significantly annotated for function and/or localization. This multiple-omics study vastly extends the publicly available DNA, RNA and protein databases for I. ricinus and ticks in general.

2015-11-04 | PXD001796 | Pride

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