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Series GSE28903 Query DataSets for GSE28903
Status Public on Aug 01, 2011
Title Growth phase-associated changes in Lactobacillus rhamnosus GG
Organism Lacticaseibacillus rhamnosus GG
Experiment type Expression profiling by array
Summary Transcriptional profiling of probiotic Lactobacillus rhamnosus GG during growth in industrial-type whey medium in pH-controlled bioreactor cultures at two different growth pH: 4.8 and 5.8.
Keywords: growth phase, growth pH
 
Overall design Cell samples from three biological replicates were harvested at mid-exponential (4 h), late exponential (12 h), stationary transition point (16 h), early stationary (20 h) and late stationary (31 h) phases, all these samples both from pH 4.8 and 5.8 cultivations. A total of 66 hybridizations were performed according to ANOVA design where all possible direct pair-wise comparisons within biological replicates were conducted. Growth series between treatments (pH 4.8 or pH 5.8) were combined together by hybridizing RNA samples from the treatments at time points 12 h and 31 h to microarrays using dye-swap replicates. Treatments were paired twice and each biological replicate was used only once to form the pairs. Other comparisons between the two pH treatments were estimated computationally.
 
Contributor(s) Laakso K, Koskenniemi K, Koponen J, Kankainen M, Surakka A, Salusjärvi T, Auvinen P, Savijoki K, Nyman TA, Kalkkinen N, Tynkkynen S, Varmanen P
Citation(s) 21883975
Submission date Apr 28, 2011
Last update date Mar 23, 2012
Contact name Kati Laakso
E-mail(s) kati.laakso@valio.fi
Organization name Valio Ltd
Department R&D
Street address Meijeritie 4
City Helsinki
ZIP/Postal code 00370
Country Finland
 
Platforms (1)
GPL10580 Lactobacillus rhamnosus GG whole genome microarray 4X44K
Samples (66)
GSM716170 pH 4.8 4h rep. A / pH 4.8 12h rep. A
GSM716171 pH 4.8 4h rep. A / pH 4.8 16h rep. A
GSM716172 pH 4.8 4h rep. A / pH 4.8 20h rep. A
Relations
BioProject PRJNA140663

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
GSE28903_RAW.tar 306.2 Mb (http)(custom) TAR (of GPR)
Processed data included within Sample table
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