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Series GSE69350 Query DataSets for GSE69350
Status Public on May 28, 2016
Title Transcriptome and translatome landscape of Streptomyces coelicolor M145
Organism Streptomyces coelicolor
Experiment type Expression profiling by high throughput sequencing
Summary We have integrated nucleotide resolution genome-scale measurements of the transcriptome and translatome of the Streptomyces coelicolor A3(2), the model antibiotic-producing actinomycete. Our systematic study determined 3,473 transcription start sites, leading to discovery of a high proportion (~21%) of leaderless mRNAs and 230 non-coding RNAs; this enabled deduction of promoter architecture on a genome-scale. Ribosome profiling analysis revealed that the translation efficiency was negatively correlated for secondary metabolic genes. These results provide novel fundamental insights into translational regulation of secondary metabolism that enables rational synthetic biology approaches to awaken such ‘silent’ secondary metabolic pathways.
Overall design Profiles of primary transcripts, whole transcripts, and ribosome protected fragments (RPFs) of Streptomyces coelicolor were generated by deep sequencing using Illumina Miseq.
Contributor(s) Jeong Y, Kim J, Kim M, Bucca G, Cho S, Yoon Y, Kim B, Kim S, Roe J, Smith CP, Cho B
Citation(s) 27251447
Submission date May 28, 2015
Last update date May 15, 2019
Contact name Yujin Jeong
Organization name KAIST
Street address 291 Daehak-ro
City Daejeon
ZIP/Postal code 34141
Country South Korea
Platforms (1)
GPL20259 Illumina MiSeq (Streptomyces coelicolor)
Samples (14)
GSM1698360 TSS_TEX
GSM1698361 TSS_TAP
GSM1698362 RNA_M1
BioProject PRJNA285265
SRA SRP058830

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

Supplementary file Size Download File type/resource
GSE69350_RNA_L.txt.gz 98.5 Kb (ftp)(http) TXT
GSE69350_RNA_M.txt.gz 98.1 Kb (ftp)(http) TXT
GSE69350_RNA_S.txt.gz 98.6 Kb (ftp)(http) TXT
GSE69350_RNA_T.txt.gz 97.9 Kb (ftp)(http) TXT
GSE69350_Ribo_L.txt.gz 85.7 Kb (ftp)(http) TXT
GSE69350_Ribo_M.txt.gz 84.6 Kb (ftp)(http) TXT
GSE69350_Ribo_S.txt.gz 86.1 Kb (ftp)(http) TXT
GSE69350_Ribo_T.txt.gz 83.2 Kb (ftp)(http) TXT
GSE69350_TSS_processed.txt.gz 27.2 Kb (ftp)(http) TXT
Raw data are available in SRA
Processed data is available on Series record

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