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Sample GSM2544744 Query DataSets for GSM2544744
Status Public on Feb 13, 2018
Title T1G2
Sample type SRA
Source name Gammaproteobacteria isolated from El Yunque forest, Puerto Rico
Organism [Enterobacter] lignolyticus SCF1
Characteristics treatment: 60 mM Glucose
phase: Mid-exponential phase
biological replicates: Rep2
Treatment protocol Two conditions: 1) unamended control cultures: using glucose (60 mM) as main carbon source 2) lignin-amended treatment: using glucose (60 mM) as main carbon source + lignin (0.1%)
Growth protocol Cells were grown in anaerobic modified LS4D minimal media
Extracted molecule total RNA
Extraction protocol RNA was extracted using Trizol following by DNAseI treatment using Qiagen RNAseay mini column
Template cDNA was prepared using the Applied Biosystems SOLiD® Total RNA-Seq Kit (Life Technologies, Carlsbad, CA) according to manufacturer's protocol.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model AB 5500xl Genetic Analyzer
Data processing The 50-base short read sequences produced by the 5500XL SOLiD sequencer were mapped in color space using SOLiD LifeScope software version 2.5 using the default parameters
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample
Submission date Mar 20, 2017
Last update date May 15, 2019
Contact name Lye Meng Markillie
Phone 509 371 7300
Organization name Environmental Molecular Sciences Laboratory
Department Biosystems Dynamics & Simulation
Lab Cell Isolation and Systems Analysis
Street address 902 Battelle Blvd
City Richland
State/province WA
ZIP/Postal code 99352
Country USA
Platform ID GPL23197
Series (1)
GSE96828 Multi-time series RNA-Seq analysis of Enterobacter lignolyticus SCF1during growth in lignin-amended medium
BioSample SAMN06622150
SRA SRX2658011

Supplementary file Size Download File type/resource
GSM2544744_T1G2.txt.gz 92.2 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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