Transcriptome profile of BRD pathogen Mannheimia haemolytica PHL213 - SRA

SRX117697: Transcriptome profile of BRD pathogen Mannheimia haemolytica PHL213
2 ILLUMINA (Illumina Genome Analyzer II) runs: 18.1M spots, 1.4G bases, 868.8Mb downloads

Design: M. haemolytica PHL213 was cultured on brain heart infusion (BHI) agar and used to inoculate BHI broth cultures. Stationary-phase BHI broth cultures prepared at 37°C were used to inoculate 50 ml BHI cultures to an initial OD620 of 0.05. Total RNA was extracted from cells cultures once an OD620=0.8 was achieved. The bacterial culture was immediately treated with RNA protect Reagent (Qiagen, Valencia, CA) and stored at -80ºC. Total RNA was extracted using the RNeasy mini kit (Qiagen, Valencia, CA) following the manufacturer’s protocol. Total RNA preparations were treated with RNase-free DNAse (Invitrogen; Carlsbad, CA). We used the Bioanalyzer 2100 (Agilent Technologies, Santa Clara, CA) and determined the RIN of total RNA to be greater than 8. MICROBExpress™ Kit (Ambion) that specifically removes rRNAs was used for mRNA enrichment. Small RNAs (i.e., tRNA and 5S rRNA) are not removed with this enrichment step (confirmed by Bioanalyzer). We used 100 ng enriched mRNA with Illumina mRNA-Seq sample preparation kit (Illumina,San Diego, CA) for library construction following manufacturer’s protocols.

Submitted by: MISSISSIPPI STATE UNIVERSITY

Study: Mannheimia haemolytica PHL213 Transcriptome or Gene expression

PRJNA82179 • SRP010573 • All experiments • All runs

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RNA-Seq was conducted on Mannheimia haemolytica PHL213 to re-annotate its genome and to identify non-coding RNA that might play a role in Bovine Respiratory Disease.

Sample: A single sample of Mannheimia haemolytica PHL213

SAMN00778983 • SRS290227 • All experiments • All runs

Organism: Mannheimia haemolytica PHL213

Library:

Name: MannheimiaPHL213

Instrument: Illumina Genome Analyzer II

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: DNase

Layout: SINGLE

Spot descriptor:

1 forward

Links:

NCBI link: NCBI Entrez (PUBMED)

Runs: 2 runs, 18.1M spots, 1.4G bases, 868.8Mb

Run	# of Spots	# of Bases	Size	Published
SRR402063	9,055,826	688.2M	469.1Mb	2013-01-31
SRR402079	9,055,826	688.2M	399.7Mb	2013-01-31

ID:: 135533

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