Genome assembly and annotation of passerine Salmonella Typhimurium
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ABSTRACT:
PROVIDER: PRJEB11556 | ENA |
REPOSITORIES: ENA
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Project description:Passerine Salmonella Typhimurium
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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.
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2015-07-30 | MODEL1507180017 | BioModels
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Project description:Salmonella enterica serotype Typhimurium produces a variety of fimbrial appendages, among which the type 1 fimbriae is the most common type. In vitro static broth culture favors S. Typhimurium to produce type 1 fimbriae, while solid agar inhibits its expression. A transposon inserted in the stbC gene, which would encode an usher protein for Stb fimbriae of a non-flagellar S. Typhimurium LB5010 strain, conferred it to agglutinate yeast cells on both cultures, and was mannose-sensitive. Reverse transcription polymerase chain reaction (RT-PCR) revealed that the expression of the fimbrial major subunit gene fimA, and fimZ, a positive regulator gene of fimA, were both increased in the stbC mutant strain when grown on LB agar; fimW, a repressor gene of fimA, exhibited lower expression. Flagella were observed in the stbC mutant and this phenotype was correlated with the motile phenotype detected by MSRV agar medium and reaction with flagella antiserum. Microarray data and RT-PCR also indicated that the expression of three genes, motA, motB, and cheM, was enhanced in the stbC mutant. The S. Typhimurium stbC mutant was resistant to a variety of antibiotics, consistent with the finding that expression of yhcQ and ramA, two genes involved in multidrug resistance, was enhanced. A complementation test revealed that transforming a recombinant plasmid possessing the coding sequence of the stbC gene restored the mannose-sensitive agglutination phenotype to the stbC mutant much as that in the parental S. Typhimurium LB5010 strain, indicating the possibility of an interplay of different fimbrial systems in coordinating their expression. Key Words: Salmonella enterica serotype Typhimurium, fimbriae, type 1 fimbriae, stbC, transposon, multidrug resistant, flagella
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