Project description:Investigation of whole genome gene expression level changes in Lactococcus lactis KCTC 3769T,L. raffinolactis DSM 20443T, L. plantarum DSM 20686T, L. fujiensis JSM 16395T, L. garvieae KCTC 3772T, L. piscium DSM 6634T and L. chungangensis CAU 28T . This proves that transcriptional profiling can facilitate in elucidating the genetic distance between closely related strains.

2014-05-28 | GSE58002 | GEO

Sphingopyxis granuli strain:RW412

Project description:Sphingopyxis granuli RW412 Genome sequencing and assembly

| PRJNA662464 | ENA

Differential RNA-Seq (dRNA-seq) data from Sphingopyxis granuli strain TFA grown in two different carbon sources and RNA-seq from Hfq-coIP experiment.

Project description:We performed differential RNA-sequencing (dRNA-seq) experiments in both minimal medium (MM) plus β-hydroxybutyrate (β-HB) and MM plus tetralin (THN) of Sphingopyxis granuli strain TFA. The objective was mapping the Transcription Start Site (TSS) of each gene in the genome in both conditions, detecting non-coding RNAs (ncRNAs) and comparing the gene expression profile in a preferential carbon source (β-HB) versus tetralin (an aromatic pollutant). The dRNA-seq technique consists of using a termination exonuclease (TEX) to allow the discrimination of primary and processed transcripts. Furthermore, to detect Hfq-bound RNAs we co-immunoprecipitated RNA from the wild type strain (negative control) and a TFA strain with an Hfq-3xFlag tagged version (MPO501 strain) using an anti-3xFlag antibody and performed RNA-sequencing from the precipitated RNA.

2018-08-14 | GSE111181 | GEO

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