5prime_27_CGATGT_L001_R1_001.fastq_noindex.bam
Streptomyces davaonensis JCM 4913
Protocols: S. davaonensis was grown in YS and cells were harvested in the exponential growth phase (after 18 h of growth) and from the stationary growth phase (after 48 h of growth). For each condition three independent cultures inoculated with the same amount of spores were analyzed. S. davaonensis was grown in YS and cells were harvested in the exponential growth phase (after 18 h of growth) and from the stationary growth phase (after 48 h of growth). For each condition three independent cultures inoculated with the same amount of spores were analyzed. Total RNA was isolated from three biological replicates using RNeasy Mini Kit along with a DNase Kit (both from Qiagen). For primary 5′-end-enriched cDNA libraries, rRNA-depleted RNA samples obtained from 2 × 5μg of total RNA were used. The cDNA library preparation was performed as originally described in Peifer-Sancar et al. (2013) with the additional modifications to strongly reduce the number of false positives described in Kranz et al. 2018. In brief, rRNA-depleted mRNA was treated with 5′-monophosphate-dependent exonuclease to digest transcripts with 5'-monophosphates. Undigested transcripts were ligated to an RNA 5′-index adapter. Conversion of true primary 5′-triphosphate ends to 5′-monophosphate ends with RNA 5′-polyphosphatase (RPP) treatment prepared the transcripts for 5′-adapter ligation. Reverse transcription with a stem-loop DNA adapter and library amplification was performed as described Kranz et al. 2018
ENA-FIRST-PUBLIC
2020-01-31T04:02:54Z
ENA-LAST-UPDATE
2020-01-10T15:35:22Z
External Id
SAMEA6465648
INSDC center name
Bielefeld University, Center for Biotechnology (CeBiTec), Microbial Genomics and Biotechnology
INSDC first public
2020-01-31T04:02:54Z
INSDC last update
2020-01-10T15:35:22Z
INSDC status
public
Submitter Id
E-MTAB-8679:5prime_27_CGATGT_L001_R1_001.fastq_noindex.bam
broker name
ArrayExpress
genotype
wild type genotype
growth condition
exp and stat growth combined
sample name
E-MTAB-8679:5prime_27_CGATGT_L001_R1_001.fastq_noindex.bam
scientific_name
Streptomyces davaonensis JCM 4913