Illumina HiSeq 2000 sequencing; Comparative transcriptomics of Rhizob... - SRA

ERX1268082: Illumina HiSeq 2000 sequencing; Comparative transcriptomics of Rhizobium mesoamericanum STM3625, Cupriavidus taiwanensis LMG19424 and Burkholderia phymatum STM815 when induced by root exudates of Mimosa pudica
1 ILLUMINA (Illumina HiSeq 2000) run: 81.6M spots, 4.2G bases, 2.7Gb downloads

Design: Comparative transcriptomics of Rhizobium mesoamericanum STM3625, Cupriavidus taiwanensis LMG19424 and Burkholderia phymatum STM815 when induced by root exudates of Mimosa pudica

Submitted by: IRD (Institute of Research for Development)

Study: Comparative transcriptomics of Rhizobium mesoamericanum STM3625, Cupriavidus taiwanensis LMG19424 and Burkholderia phymatum STM815 when induced by root exudates of Mimosa pudica

PRJEB12202 • ERP013649 • All experiments • All runs

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We analysed the transcriptomic response of 3 rhizobial symbionts of Mimosa pudica (Rhizobium mesoamericanum STM3625, Cupriavidus taiwanensis LMG19424 and Burkholderia phymatum STM815) when cultivated in a minimum culture medium (control condition) versus induced by root exudates of their host plant Mimosa pudica. We used RNAseq using illumina technology.

Sample: CT-Control3

SAMEA3715954 • ERS1023103 • All experiments • All runs

Organism: Cupriavidus taiwanensis LMG 19424

Library:

Name: CT-Control3

Instrument: Illumina HiSeq 2000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: RANDOM

Layout: SINGLE

Construction protocol: Bacteria were grown in VSG medium (Vincent-Succinate-Glutamate, Vincent, 1970) supplemented with root exudates of Mimosa pudica (induced condition) or not (control condition) Total RNA were extracted at mid log pahse of growth (4,5 for BP and CT, 6h for RM) using the RiboPure kit (Ambion), and rRNA were subtracted by two steps of MicrobeExpress kit (Ambion) extracted following Libraries were built by GATC company using the Trueseq Illumina kit

Experiment attributes:

Experimental Factor: Cupriavidus taiwanensis LMG19424: organism

Runs: 1 run, 81.6M spots, 4.2G bases, 2.7Gb

Run	# of Spots	# of Bases	Size	Published
ERR1194769	81,579,923	4.2G	2.7Gb	2018-01-16

ID:: 4950331

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