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Comparative RNA seq analysis of Salmonella Typhimurium and pimt gene deletion strain

ABSTRACT: Inside the host, Salmonella Typhimurium suffers but survives various stresses. Proteins are the prime targets of host inflammatory responses. S. Typhimurium encodes two key protein repair enzymes, methionine sulfoxide reductase (Msr) and protein iso-aspartate methyltransferase (PIMT), that reactivates damaged proteins without their translational synthesis. Under stress, the accumulation of L-isoaspartate (Iso-asp) residues causes defects in protein shape and function, which lead to impaired bacterial survival. To examine the global transcriptional consequences of deleting pimt gene, RNA sequencing was performed on S. Typhimurium and Δpimt mutant strains. This dataset provides a comprehensive transcriptomic resource for investigating the impact of pimt deletion on virulence and pathogenicity in S. Typhimurium.

ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium

PROVIDER: GSE320470 | GEO | 2026/03/12

REPOSITORIES: GEO

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Project description:Beech trees produce seeds irregularly, necessitating the storage of these seeds for forestation. Despite the acquisition of desiccation tolerance during development, beech seeds lose viability during long-term storage faster than orthodox-type seeds. Seeds stored for short (3 years) and long (20 years) periods under optimal conditions were compared. Aged seeds characterized with germination capacity reduced to 30% displayed increased membrane damage, manifested as electrolyte leakage and lipid peroxidation levels. Analyses have been based on embryonic axes containing higher levels of reactive oxygen species (ROS) and higher levels of protein-bound methionine sulfoxide (MetO) in aged seeds. Using gel-free shotgun proteomics, 3,949 proteins were identified and 2,442 were reliably quantified to indicate 25 proteins with upregulated abundance and 35 with downregulated abundance in beech seeds under long-term storage compared to those under short-term storage. Functional analyses based on gene ontology annotations revealed that nucleic acid binding activity (biological process), hydrolases (molecular function), ribosome organization or biogenesis and transmembrane transport (cellular processes), and ATP synthesis (pathway) were affected in aged seeds. To verify whether MetO the oxidative posttranslational modification of proteins reversed via the action of methionine sulfoxide reductase (Msr) enzymes is involved in ageing of beech seeds we identified 316 and reliably quantified 226 MetO-containing proteins, among which 9 and 19 exhibited significantly up- and downregulated MetO levels, respectively, in beech seeds under long-term storage. Several Msr isoforms were identified and recognized as MsrA1-like, MsrA4, MsrB5 and MsrB5-like in beech seeds. Only MsrA1-like displayed decreased abundance in aged seeds. We demonstrated that the loss of membrane integrity reflected in elevated abundance of membrane proteins had higher impact on seed ageing progress rather than MetO/Msr system.

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Comparative RNA seq analysis of Salmonella Typhimurium and pimt gene deletion strain

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