NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE52020 Query DataSets for GSE52020
Status Public on Jul 07, 2014
Title Mycobacterium tuberculosis transcriptional responses to acidic pH and carbon source
Organism Mycobacterium tuberculosis
Experiment type Expression profiling by high throughput sequencing
Summary The purpose of this study was to examine how Mtb integrates acidic pH and available carbon sources as environmental cues to regulate its metabolism and growth rate. RNA-seq transcriptional profiling of M. tuberculosis growing at acidic or neutral pH, in pyruvate or glycerol, was examined. These studies identified carbon source-dependent and -independent pH-dependent adaptations.
 
Overall design Mtb strain CDC1551 was grown in standing T-75 flasks in 40 mL of medium seeded an initial OD of 0.1. We examined medium in four conditions pH 7.0 10 mM glycerol, pH 5.7 10 mM glycerol, pH 7.0 10 mM pyruvate, pH 5.7 10 mM pyruvate. Following 3 days of incubation at 37C, RNA was isolated from the bacterial cultures and used for RNA-seq.
 
Contributor(s) Baker JJ, Johnson BK, Abramovitch RB
Citation(s) 24975990
Submission date Nov 01, 2013
Last update date Sep 06, 2018
Contact name Robert B. Abramovitch
Organization name Michigan State University
Department Microbiology and Molecular Genetics
Street address 567 Wilson Road
City East Lansing
State/province MI
ZIP/Postal code 48824
Country USA
 
Platforms (1)
GPL17879 Illumina HiSeq 2500 (Mycobacterium tuberculosis)
Samples (8)
GSM1257641 Glycerol pH 7.0, Rep A
GSM1257642 Glycerol pH 7.0, Rep B
GSM1257643 Glycerol pH 5.7, Rep A
Relations
BioProject PRJNA226557
SRA SRP032513

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE52020_SupplementalTable1.xls.gz 353.8 Kb (ftp)(http) XLS
GSE52020_SupplementalTable2.xls.gz 616.9 Kb (ftp)(http) XLS
GSE52020_SupplementalTable3.xls.gz 399.1 Kb (ftp)(http) XLS
GSE52020_SupplementalTable4.xls.gz 406.9 Kb (ftp)(http) XLS
Processed data is available on Series record
Raw data are available in SRA

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap