Nanopore native RNA-seq for genome-wide identification of transcription units and transcriptional termination sites in the phytopathogen Dickeya dadantii 3937

ABSTRACT: In this study, based on Nanopore direct RNA-seq where native RNAs are sequenced directly as near full-length transcripts in the 3' to 5' direction, transcription units of the phytopathogen Dickeya dadantii 3937 were validated and transcriptional termination sites were determined. Briefly, D. dadantii cultures were grown in M63 medium supplemented with 0.2% glucose and 0.2% PGA, until the early exponential phase (A600nm = 0.2, condition 1), or the early stationary phase (A600nm = 1.8, condition 2). RNAs were extracted using a frozen acid-phenol method, as previously described (Hommais et al. 2008), and treated successively with Roche and Biolabs DNases. Two samples were prepared: 50 µg of RNAs from each condition were pulled into one sample (sample 1), whereas the other one contained 100 µg

INSTRUMENT(S): MinION

ORGANISM(S): Dickeya dadantii 3937

SUBMITTER: Sam Meyer 

PROVIDER: E-MTAB-10482 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress