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Record W2949203676 · doi:10.1074/mcp.ra118.001093

Salmonella Effectors SseK1 and SseK3 Target Death Domain Proteins in the TNF and TRAIL Signaling Pathways*

2019· article· en· W2949203676 on OpenAlexafffund
Joshua P. M. Newson, Nichollas E. Scott, Ivy Yeuk Wah Chung, Tania Wong Fok Lung, Cristina Giogha, Jiyao Gan, Nancy Wang, Richard A. Strugnell, Nathaniel F. Brown, Mirosław Cygler, Jaclyn S. Pearson, Elizabeth L. Hartland

Bibliographic record

VenueMolecular & Cellular Proteomics · 2019
Typearticle
Languageen
FieldAgricultural and Biological Sciences
TopicSalmonella and Campylobacter epidemiology
Canadian institutionsCanada's Michael Smith Genome Sciences CentreUniversity of British ColumbiaUniversity of Saskatchewan
FundersNational Research Council CanadaWestern Economic Diversification CanadaCanadian Institutes of Health ResearchNational Health and Medical Research CouncilNatural Sciences and Engineering Research Council of CanadaGovernment of CanadaUniversity of SaskatchewanCanadian Light Source
KeywordsEffectorSalmonellaSignal transductionCell biologySignaling proteinsTumor necrosis factor alphaDeath domainComputational biologyBiologyChemistryProgrammed cell deathBiochemistryGeneticsApoptosisBacteriaImmunology

Abstract

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Strains of Salmonella utilize two distinct type three secretion systems to deliver effector proteins directly into host cells. The Salmonella effectors SseK1 and SseK3 are arginine glycosyltransferases that modify mammalian death domain containing proteins with N-acetyl glucosamine (GlcNAc) when overexpressed ectopically or as recombinant protein fusions. Here, we combined Arg-GlcNAc glycopeptide immunoprecipitation and mass spectrometry to identify host proteins GlcNAcylated by endogenous levels of SseK1 and SseK3 during Salmonella infection. We observed that SseK1 modified the mammalian signaling protein TRADD, but not FADD as previously reported. Overexpression of SseK1 greatly broadened substrate specificity, whereas ectopic co-expression of SseK1 and TRADD increased the range of modified arginine residues within the death domain of TRADD. In contrast, endogenous levels of SseK3 resulted in modification of the death domains of receptors of the mammalian TNF superfamily, TNFR1 and TRAILR, at residues Arg376 and Arg293 respectively. Structural studies on SseK3 showed that the enzyme displays a classic GT-A glycosyltransferase fold and binds UDP-GlcNAc in a narrow and deep cleft with the GlcNAc facing the surface. Together our data suggest that salmonellae carrying sseK1 and sseK3 employ the glycosyltransferase effectors to antagonise different components of death receptor signaling. Strains of Salmonella utilize two distinct type three secretion systems to deliver effector proteins directly into host cells. The Salmonella effectors SseK1 and SseK3 are arginine glycosyltransferases that modify mammalian death domain containing proteins with N-acetyl glucosamine (GlcNAc) when overexpressed ectopically or as recombinant protein fusions. Here, we combined Arg-GlcNAc glycopeptide immunoprecipitation and mass spectrometry to identify host proteins GlcNAcylated by endogenous levels of SseK1 and SseK3 during Salmonella infection. We observed that SseK1 modified the mammalian signaling protein TRADD, but not FADD as previously reported. Overexpression of SseK1 greatly broadened substrate specificity, whereas ectopic co-expression of SseK1 and TRADD increased the range of modified arginine residues within the death domain of TRADD. In contrast, endogenous levels of SseK3 resulted in modification of the death domains of receptors of the mammalian TNF superfamily, TNFR1 and TRAILR, at residues Arg376 and Arg293 respectively. Structural studies on SseK3 showed that the enzyme displays a classic GT-A glycosyltransferase fold and binds UDP-GlcNAc in a narrow and deep cleft with the GlcNAc facing the surface. Together our data suggest that salmonellae carrying sseK1 and sseK3 employ the glycosyltransferase effectors to antagonise different components of death receptor signaling. Pathogenic serovars of Salmonella utilize two type three secretion systems (T3SS) 1The abbreviations used are: T3SStype 3 secretion systemsEPECenteropathogenic Escherichia coliGlcNAcN acetylglucosaminePRMparallel reaction monitoring. 1The abbreviations used are: T3SStype 3 secretion systemsEPECenteropathogenic Escherichia coliGlcNAcN acetylglucosaminePRMparallel reaction monitoring., encoded by Salmonella pathogenicity island-1 and -2 (SPI-1 and SPI-2) to deliver distinct cohorts of effector proteins into host cells during infection (1Galan J.E. Curtiss 3rd., R. Cloning and molecular characterization of genes whose products allow Salmonella typhimurium to penetrate tissue culture cells.Proc. Natl. Acad. Sci. U.S.A. 1989; 86: 6383-6387Crossref PubMed Scopus (759) Google Scholar, 2Shea J.E. Hensel M. Gleeson C. Holden D.W. Identification of a virulence locus encoding a second type III secretion system in Salmonella typhimurium.Proc. Natl. Acad. Sci. U.S.A. 1996; 93: 2593-2597Crossref PubMed Scopus (639) Google Scholar). These effector proteins subvert normal cellular processes and collectively enable the bacteria to invade and persist within host cells, partially through the manipulation of inflammatory cell signaling and programmed cell death (reviewed in (3Jennings E. Thurston T.L.M. Holden D.W. Salmonella SPI-2 Type III Secretion System Effectors: Molecular Mechanisms And Physiological Consequences.Cell Host Microbe. 2017; 22: 217-231Abstract PubMed Scopus Google Scholar, with host PubMed Scopus Google the of effector to the of effectors effectors by the SPI-2 encoded type 3 secretion systems Escherichia reaction monitoring. type 3 secretion systems Escherichia reaction monitoring. and SseK3 a of Salmonella effectors that are by the SPI-2 during infection SseK1 and are proteins of Salmonella PubMed Scopus Google Scholar, Salmonella a of the effector PubMed Scopus Google Scholar). to a effector protein Escherichia as arginine glycosyltransferase and the of (GlcNAc) to arginine residues of the mammalian signaling FADD and TRADD, a modification C. M. type III effector death receptor during PubMed Scopus Google Scholar, host death receptor by arginine of death PubMed Scopus Google Scholar). that SseK1 and but not as Arg-GlcNAc Holden D.W. Thurston SseK1 and SseK3 type III secretion system effectors signaling and cell death in 2017; Google Scholar). of a within SseK1 and SseK3 glycosyltransferase Holden D.W. Thurston SseK1 and SseK3 type III secretion system effectors signaling and cell death in 2017; Google with C. M. type III effector death receptor during PubMed Scopus Google Scholar, host death receptor by arginine of death PubMed Scopus Google Scholar). These studies of the glycosyltransferases to the of C. and of the arginine glycosyltransferase effector Escherichia PubMed Scopus Google Scholar). as are the host of the that recombinant SseK1 recombinant TRADD in host death receptor by arginine of death PubMed Scopus Google whereas a SseK1 TRADD and FADD when ectopically in mammalian cell Holden D.W. Thurston SseK1 and SseK3 type III secretion system effectors signaling and cell death in 2017; Google Scholar). in that recombinant SseK1 but not FADD C. R. effectors Escherichia distinct in host substrate 2017; PubMed Scopus Google Scholar). SseK3 on the to but not modify the C. E. SseK3 a Salmonella effector that binds and the Google and to modify TRADD but not FADD Holden D.W. Thurston SseK1 and SseK3 type III secretion system effectors signaling and cell death in 2017; Google Scholar). studies the of effectors through that endogenous levels of the effectors and host proteins C. The arginine glycosyltransferase effector death domain protein 2017; PubMed Scopus Google Scholar). Here, we the endogenous Arg-GlcNAc glycosyltransferase of SseK1 and SseK3 during Salmonella infection. a mass to arginine GlcNAcylated host cells C. 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Thurston SseK1 and SseK3 type III secretion system effectors signaling and cell death in 2017; Google Scholar, C. R. effectors Escherichia distinct in host substrate 2017; PubMed Scopus Google Scholar). studies the of SseK1 to a the substrate and of the identify the range of host we a mass spectrometry to arginine C. The arginine glycosyltransferase effector death domain protein 2017; PubMed Scopus Google Scholar). mass spectrometry to the with sseK1 or levels of cells with SseK1 or a range of that modified in the of SseK1 TRADD at a of we of the and as as the proteins and and proteins and We previously that of to levels of cellular arginine C. The arginine glycosyltransferase effector death domain protein 2017; PubMed Scopus Google Scholar). that the of SseK1 and SseK3 to the range of to endogenous type levels of and we the of endogenous SseK1 during infection of cells our of C. The arginine glycosyltransferase effector death domain protein 2017; PubMed Scopus Google Scholar). we during infection with a a Salmonella a of the effector PubMed Scopus Google Scholar). In to data to the of we reaction a reaction and mass PubMed Scopus Google to the of and FADD we that at the of the previously of TRADD GlcNAcylated by in host death receptor by arginine of death PubMed Scopus Google Scholar). of within the TRADD the substrate when SseK1 at levels during infection. We that the SseK1 in cells. and with and to by endogenous levels of observed with that with by that carrying the at levels to TRADD when ectopically with in mammalian cells Holden D.W. Thurston SseK1 and SseK3 type III secretion system effectors signaling and cell death in 2017; Google Scholar). data that at when SseK1 but that the of when SseK1 at levels during infection. 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Thurston SseK1 and SseK3 type III secretion system effectors signaling and cell death in 2017; Google Scholar, C. R. effectors Escherichia distinct in host substrate 2017; PubMed Scopus Google Scholar, C. E. SseK3 a Salmonella effector that binds and the Google but studies on in recombinant proteins or of the effectors in mammalian cells. Here, we the of SseK1 and SseK3 when at levels during infection of cells. to endogenous levels of the effectors to the modification of host proteins infection to a of host protein to of by and and studies to modification the of in and mammalian cell TRADD and FADD of SseK1 host death receptor by arginine of death PubMed Scopus Google Scholar, Holden D.W. Thurston SseK1 and SseK3 type III secretion system effectors signaling and cell death in 2017; Google Scholar, C. R. effectors Escherichia distinct in host substrate 2017; PubMed Scopus Google our data that TRADD the substrate of as we not modification of FADD during infection. TRADD a in the of signaling to secretion (reviewed in of death receptor signaling by the PubMed Scopus Google Scholar, The of TNF a we PubMed Scopus Google and programmed cell death TNF or Molecular of cellular PubMed Scopus Google Scholar). that SseK1 a in and cell death in Holden D.W. Thurston SseK1 and SseK3 type III secretion system effectors signaling and cell death in 2017; Google and that SseK1 to TNF signaling as of not a SseK1 in infection SseK1 and are proteins of Salmonella PubMed Scopus Google Scholar, M. of the of Salmonella effectors to and in and cell infection Google Scholar, effectors are Salmonella in a infection PubMed Scopus Google Scholar). We that SseK1 in with effectors in to of signaling during infection. SseK3 to with TRADD and Holden D.W. Thurston SseK1 and SseK3 type III secretion system effectors signaling and cell death in 2017; Google Scholar, C. E. 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PubMed Scopus Google of signaling the of manipulation of signaling. showed in to infection with Salmonella with type M. as a of cell PubMed Scopus Google and we in of during or not infection. that TNFR1 a in mammalian with TNFR1 are to Salmonella infection M. to Salmonella typhimurium infection and of in in the PubMed Google Scholar). studies with increased to Salmonella infection in M. of and genes with to Salmonella in Google Scholar, R. M. The of in genes on to Salmonella in Sci. PubMed Scopus Google to Salmonella in and SseK3 In to the of host we observed the of SseK1 and SseK3 when in with increased levels of during that when the effectors are These are to a that of in of a range of C. The arginine glycosyltransferase effector death domain protein 2017; PubMed Scopus Google Scholar). 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Structural arginine of host by effector PubMed Scopus Google Scholar). of of the in the of the and substrate the that residues in UDP-GlcNAc and substrate and The substrate to proteins to and the molecular in not of the of SseK3 and SseK1 a the substrate in SseK1 with a by a of the the substrate in whereas the in the These the the substrate In we the endogenous host of SseK1 and SseK3 during Salmonella infection. The substrate of SseK1 the signaling TRADD, whereas SseK3 the death domains of and TNFR1 at a arginine that Salmonella the effectors to components of death receptor inflammatory and cell death in spectrometry data to the the with the data within the in SseK3 and in the data with and with We are to the of in and at the by the and of the of the of the and the of with

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How this classification was reachedexpand

Full frame distilled prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.

metaresearch head score (Codex)0.001
metaresearch head score (Gemma)0.000
Version: codex-gemma-dda1882f352aValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Bench or experimental · Consensus signal: Bench or experimental
GenreCandidate signal: Empirical · Consensus signal: Empirical
Teacher disagreement score0.089
Threshold uncertainty score0.478

Codex and Gemma teacher scores by category

CategoryCodexGemma
Metaresearch0.0010.000
Meta-epidemiology (narrow)0.0000.000
Meta-epidemiology (broad)0.0000.000
Bibliometrics0.0000.000
Science and technology studies0.0000.000
Scholarly communication0.0000.000
Open science0.0000.000
Research integrity0.0000.000
Insufficient payload (model declined to judge)0.0000.000

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.012
GPT teacher head0.192
Teacher spread0.180 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; a candidate call from one teacher head, not a consensus.

The models applied no category: nothing in the taxonomy fit this work.
Study designBench or experimental
Domainnot available
GenreEmpirical

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

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Citations60
Published2019
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