Transcriptome library_exponential growth
SAMN19090736
External Id
University Leipzig
INSDC center name
2022-01-13T00:00:00Z
INSDC first public
2023-12-07T21:08:34.875Z
INSDC last update
SRS8910556
INSDC secondary accession
live
INSDC status
Microbe, viral or environmental
NCBI submission model
Microbe.1.0
NCBI submission package
SRS8910556
SRA accession
2021-01-25
collection date
180 ml medium 63 (DSMZ) was inoculated with 400 l liquid culture of Desulfovibrio vulgaris (DSM 644) and incubated at 37C for 92 h (exponential growth) under anaerobic conditions. After total RNA isolation with TRIzolTM reagent (Thermo Scientific), 1 g total RNA was used for short RNA enrichment with polyethylene glycol and NaCl (Lu et al. 2007, https://doi.org/10.1016/j.ymeth.2007.05.002). 40 pmol DNA-adapter with a unique molecular identifier that was pre-adenylated with the TS2126 RNA ligase 1 was used in ligation reaction with enriched RNA using T4 RNA ligase 2 truncated KQ. Then, ligation product was reverse transcribed by SuperScript IV and RNA was degraded using NaOH. Second adapter was ligated to gel-purified cDNA with T4 RNA ligase 1 and used for DNA amplification with TruSeq Small RNA Illumina primers. Sample was sequenced with ~ 30M reads and 150 bp paired-end.
description
Germany: Leipzig
geo loc name
Transcriptome library_exponential growth
isolation source
Nitratidesulfovibrio vulgaris str. Hildenborough
http://purl.obolibrary.org/obo/NCBITaxon_882
organism
cell culture
sample type
Hildenborough
strain
transcriptome_1
title
type strain of Desulfovibrio vulgaris
type material