Dataset Information

The impact of slyA on cell metabolism of Salmonella Typhimurium: a joint study of transcriptomics and metabolomics

ABSTRACT:

Salmonella Typhimurium (S. typhimurium), a gram-negative foodborne pathogen, is the leading cause of Salmonella food poisoning in humans. slyA has been demonstrated to be a critical transcriptional regulator in S. typhimurium, enabling the pathogen to survive in host cells by modulating the expression of hundreds of genes.

In this study, we used gas chromatography coupled with tandem mass spectrometry (GC-MS/MS) to investigate the potential effect of slyA on the cell metabolism of S. typhimurium. The metabolite profiling data were linked to the transcriptomic data to elucidate the possible roles of slyA in the metabolism of Salmonella. The metabolome data indicated that several glycolysis- and lipid metabolism-associated pathways, including the turnover of glycerolipid, pyruvate, butanoate and glycerophospholipid, were affected in the absence of slyA. In addition, the mRNA levels of several genes associated with glycolysis and lipid turnover were downregulated when slyA was deleted, including pagP, fadL, mgtB, iacp and yciA. Collectively, this evidence suggests that SlyA might impact glycolysis and lipid turnover in Salmonella at the transcriptional level.

Linked Data:

The transcriptomic data haa been deposited in the NCBI SRS database, access number PRJNA656165.

INSTRUMENT(S): Gas Chromatography MS - Positive (GC-MS (Positive))

SUBMITTER: Sicheng Tian

PROVIDER: MTBLS1858 | MetaboLights | 2020-10-11

REPOSITORIES: MetaboLights

ACCESS DATA

Dataset's files

Source:

			Action	DRS
	MTBLS1858	Other
	FILES	Other
	a_MTBLS1858_GCMS-MS___metabolite_profiling.txt	Txt
	i_Investigation.txt	Txt
	m_MTBLS1858_GCMS-MS__metabolite_profiling_v2_maf.tsv	Tabular

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Publications

The Impact of SlyA on Cell Metabolism of Salmonella typhimurium: A Joint Study of Transcriptomics and Metabolomics.

Tian Sicheng S Wang Chuan C Li Yongyu Y Bao Xiaoming X Zhang Yunwen Y Tang Tian T

Journal of proteome research 20201007 1

SlyA is an important transcriptional regulator in Salmonella typhimurium (S. typhimurium). Numerous reports have indicated the impact of SlyA on the virulence of S. typhimurium. Less information regarding the role of SlyA in the cell metabolism of S. typhimurium is available. To close this gap, we compared the growth kinetics of an S. typhimurium wild-type strain to a slyA deletion mutant strain. The data suggested that the cell growth of S. typhimuri ...[more]

PMID: 32969666

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Project description:Thiele2011 - Genome-scale metabolic network of Salmonella Typhimurium (STM_v1_0) This model is described in the article: A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2. Thiele I, Hyduke DR, Steeb B, Fankam G, Allen DK, Bazzani S, Charusanti P, Chen FC, Fleming RM, Hsiung CA, De Keersmaecker SC, Liao YC, Marchal K, Mo ML, Özdemir E, Raghunathan A, Reed JL, Shin SI, Sigurbjörnsdóttir S, Steinmann J, Sudarsan S, Swainston N, Thijs IM, Zengler K, Palsson BO, Adkins JN, Bumann D. BMC Syst Biol 2011; 5: 8 Abstract: BACKGROUND: Metabolic reconstructions (MRs) are common denominators in systems biology and represent biochemical, genetic, and genomic (BiGG) knowledge-bases for target organisms by capturing currently available information in a consistent, structured manner. Salmonella enterica subspecies I serovar Typhimurium is a human pathogen, causes various diseases and its increasing antibiotic resistance poses a public health problem. RESULTS: Here, we describe a community-driven effort, in which more than 20 experts in S. Typhimurium biology and systems biology collaborated to reconcile and expand the S. Typhimurium BiGG knowledge-base. The consensus MR was obtained starting from two independently developed MRs for S. Typhimurium. Key results of this reconstruction jamboree include i) development and implementation of a community-based workflow for MR annotation and reconciliation; ii) incorporation of thermodynamic information; and iii) use of the consensus MR to identify potential multi-target drug therapy approaches. CONCLUSION: Taken together, with the growing number of parallel MRs a structured, community-driven approach will be necessary to maximize quality while increasing adoption of MRs in experimental design and interpretation. This model is hosted on BioModels Database and identified by: MODEL1507180017. To cite BioModels Database, please use: BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

Dataset Information

The impact of slyA on cell metabolism of Salmonella Typhimurium: a joint study of transcriptomics and metabolomics

Dataset's files

Publications

The Impact of SlyA on Cell Metabolism of <i>Salmonella typhimurium</i>: A Joint Study of Transcriptomics and Metabolomics.

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