Sample 4
SAMN19231933
External Id
Savitribai Phule Pune University
INSDC center name
2023-12-29T00:50:16.423Z
INSDC first public
2023-12-29T00:50:16.423Z
INSDC last update
SRS9001131
INSDC secondary accession
live
INSDC status
Microbe, viral or environmental
NCBI submission model
Microbe.1.0
NCBI submission package
SRS9001131
SRA accession
2018-02-16
collection_date
The RNA-Seq paired end sequencing library for Deinococcus radiodurans was prepared from the QC passed RNA sample using illumina TruSeq stranded mRNA sample preparation kit. Briefly, bacterial mRNA was enriched from the bacterial total RNA using MICROBExpress kit (Ambion), followed by enzymatic fragmentation, 1st strand cDNA conversion using SuperScript II and Act-D mix to facilitate RNA dependent synthesis. The 1st strand cDNA was then synthesized to second strand using second strand mix. The ds cDNA was then purified using Ampure XP beads followed by A-tailing, adapter ligation and then enriched by limited no of PCR cycles (25). The PCR enriched libraries were analyzed in 4200 Tape Station system (Agilent Technologies) using high sensitivity D1000 Screen tape as per manufacturer instructions. The PE illumina libraries were loaded onto NextSeq 500 for cluster generation and sequencing. Paired-End sequencing allows the template fragments to be sequenced in both the forward and reverse directions on NextSeq 500. The mean of the library fragment sizes ranges distributions are 541bp, 574bp, 548bp and 548bp for W UR 30, W IR 30, AM1 UR 30 and AM1 IR 30. The libraries were sequenced on NextSeq 500 using 2 x150 bp chemistry.
design_description
AM1IR30_R1.fq.gz
filename
AM1IR30_R2.fq.gz
filename2
fastq
filetype
India
geo_loc_name
Not applicable
host
NextSeq 500
instrument_model
BAA 816
isolate
Not applicable
isolation_source
AM1IR30
library_id
paired
library_layout
cDNA_oligo_dT
library_selection
TRANSCRIPTOMIC
library_source
RNA-Seq
library_strategy
Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
http://purl.obolibrary.org/obo/NCBITaxon_243230
organism
Deinococcis radiodurans R1 BAA816
organisms
ILLUMINA
platform
Total RNA
sample_type
R1
strain
D. radiodurans Dam1DR mutant_Irradiated
title
D. radiodurans Dam1DR mutant_Irradiated
title
type strain of Deinococcus radiodurans
type-material