Dataset for transcriptome analysis of Salmonella enterica subsp. enterica serovar Typhimurium strain 14028S response to starvation.

Vladimir Ya. Kataev,Alexander S. Balkin,Yuri V. Gogolev,Sergey V. Cherkasov,Andrey O. Plotnikov,Elena I. Shagimardanova,Anastasia M. Subbot,Natalia E. Gogoleva

doi:10.1016/j.dib.2020.106008

Abstract

Salmonella enterica is an ubiquitous pathogen throughout the world causing gastroenteritis in humans and animals. Survival of pathogenic bacteria in the external environment may be associated with the ability to overcome the stress caused by starvation. The bacterial response to starvation is well understood in laboratory cultures with a sufficiently high cell density. However, bacterial populations often have a small size when facing this challenge in natural biotopes. The aim of this work was to find out if there are differences in the transcriptomes of S. enterica depending on the factor of cell density during starvation. Here we present transcriptome data of Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S grown in carbon rich or carbon deficient medium with high or low cell density. These data will help identify genes involved in adaptation of low-density bacterial populations to starvation conditions.

Highlights

Dataset for transcriptome analysis of Salmonella enterica subsp. enterica serovar Typhimurium strain 14028S response to starvation
We present transcriptome data of Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S grown in carbon rich or carbon deficient medium with high or low cell density
Raw reads filtered and analysed with statistical tests, FASTQ Total RNA was extracted from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S cells cultured under carbon and phosphorus starvation RNA from control and starving samples subjected to RNA-sequencing and transcriptome profiling with subsequent analysis Kazan Scientific Centre of RAS, Kazan, Russia

Summary

Data description

The dataset of this article provides information on raw RNA-seq reads obtained from samples of Salmonella enterica serovar Typhimurium 14028S cultures grown in a mineral medium providing carbon and phosphorus starvation, or in the medium supplemented with glucose as a carbon source. Up- and down-regulated genes were counted with the Differentially Expressed Genes (DEGs) analysis of transcriptomes of the salmonella cultures starved at high or low cell density, as well as the cultures grown in the glucose rich medium (Fig. 1). We evaluated the identity of 1000 the most variable genes associated with salmonella transcriptome responses to starvation with the heat map analysis (Fig. 2)

Strains and growth conditions

Experiment design

Library construction and sequencing

Sequence QC and filtering

Findings

Reads alignment to the reference genome and data analysis