Saeij lab:Reprints: Difference between revisions
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==Publications== | ==Publications== | ||
Minot S$, Melo MB$, Li F, Lu D, Niedelman W, Levine SS, '''Saeij JPJ'''. Admixture and recombination among Toxoplasma gondii lineages explain global genome diversity. [http://www.ncbi.nlm.nih.gov/pubmed/22847430 Proc Natl Acad Sci U S A. 2012 ;109(33):13458-6.] | ($Denotes shared first author) | ||
Lim D, Gold DA, Julien L, Rosowski EE*, Niedelman W, Yaffe MB, '''Saeij JPJ'''. Structure of the Toxoplasma gondii ROP18 kinase domain reveals a second ligand binding pocket required for acute virulence. The Journal of Biological Chemistry. 2013. Accepted. | |||
Melo MB, Hassan MA, Nguyen QP, Butty V, Cordeiro C, Yang N, Rosowski EE, Julien L, McKell R, Darde M-L, Ajzenberg D, Fitzgerald K. Young LH, '''Saeij JPJ'''. Transcriptional analysis of murine macrophages infected with different Toxoplasma strains identifies novel regulation of host signaling pathways. PLoS Pathogens. 2013. Accepted. | |||
Niedelman W, Sprokholt JK, Clough B, Frickel EM, '''Saeij JPJ'''. Cell death of interferon-gamma stimulated human fibroblasts upon Toxoplasma gondii infection induces early parasite egress and limits parasite replication. Infection and Immunity. 2013. Accepted. | |||
Camejo A, Gold DA, Lu D, McFetridge K, Julien L, Yang N, Jensen KD, '''Saeij JPJ'''. Identification of three novel Toxoplasma gondii rhoptry proteins. International Journal for Parasitology. 2013. Accepted | |||
Yang N, Farrell A, Niedelman W, Melo MB, Lu D, Julien L, Marth GT, Gubbels MJ, '''Saeij JPJ'''. Genetic basis for phenotypic differences between different Toxoplasma gondii type I strains. BMC Genomics. 14:467; 2013. “Highly accessed” | |||
Jensen KD, Hu K, Whitmarsh RJ, Hassan MA, Julien L, Lu D, Chen L, Hunter CA, '''Saeij JPJ'''. Toxoplasma gondii rhoptry 16 kinase promotes host resistance to oral infection and intestinal inflammation only in the context of the dense granule protein GRA15. Infection and Immunity. 81(6):2156-67; 2013. ‘Article of significant interest’ selected by the editors, see Research Spotlight: Infection and Immunity, 81(6): 1859; 2013. | |||
Rosowski EE, '''Saeij JPJ'''. Toxoplasma gondii clonal strains all inhibit STAT1 transcriptional activity but polymorphic effectors differentially modulate IFNγ induced gene expression and STAT1 phosphorylation. PLoS One. 7(12):e51448; doi: 10.1371/journal.pone.0051448. 2012. | |||
Hassan MA, Melo MB, Haas B, Jensen KD, '''Saeij JPJ'''. De novo reconstruction of the Toxoplasma gondii transcriptome improves on the current genome annotation and reveals alternatively spliced transcripts and putative long non-coding RNAs. BMC Genomics. 13(1):696; 2012. “Highly accessed” | |||
Minot S$, Melo MB$, Li F, Lu D, Niedelman W, Levine SS, '''Saeij JPJ'''. Admixture and recombination among Toxoplasma gondii lineages explain global genome diversity. [http://www.ncbi.nlm.nih.gov/pubmed/22847430 Proc Natl Acad Sci U S A. 2012 ;109(33):13458-6.] <br><br> | |||
''In this manuscript we used a genome-wide SNP set from 26 different strains, representing global diversity, to show that most current isolates are recent recombinants and cannot be easily grouped into a limited number of haplogroups. A complex picture emerges in which some genomic regions have not been recently exchanged between any strains, and others recently spread from one strain to many others. Particularly, three haploblocks, on chrIa, XI, and XII, have recent common ancestry across multiple diverse lineages, perhaps suggesting that these regions may contain fitness loci. Our approach improves upon current methods because it analyzes recombination-defined haploblocks, building a more precise and comprehensive genealogy of Toxoplasma. We also put forward the hypothesis that the limited Toxoplasma diversity in North America might be a result of the [http://en.wikipedia.org/wiki/Quaternary_extinction_event late Pleistocene extinction] (∼11,500 y ago), which eliminated ∼80% of large vertebrates in North America, including most Felidae members, causing a severe bottleneck and the demise of most North American Toxoplasma strains.''<br><br> | ''In this manuscript we used a genome-wide SNP set from 26 different strains, representing global diversity, to show that most current isolates are recent recombinants and cannot be easily grouped into a limited number of haplogroups. A complex picture emerges in which some genomic regions have not been recently exchanged between any strains, and others recently spread from one strain to many others. Particularly, three haploblocks, on chrIa, XI, and XII, have recent common ancestry across multiple diverse lineages, perhaps suggesting that these regions may contain fitness loci. Our approach improves upon current methods because it analyzes recombination-defined haploblocks, building a more precise and comprehensive genealogy of Toxoplasma. We also put forward the hypothesis that the limited Toxoplasma diversity in North America might be a result of the [http://en.wikipedia.org/wiki/Quaternary_extinction_event late Pleistocene extinction] (∼11,500 y ago), which eliminated ∼80% of large vertebrates in North America, including most Felidae members, causing a severe bottleneck and the demise of most North American Toxoplasma strains.''<br><br> | ||
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[http://www.ncbi.nlm.nih.gov/pubmed/22154850 Int J Parasitol. 2012 Jan;42(1):21-32.]<br><br> | [http://www.ncbi.nlm.nih.gov/pubmed/22154850 Int J Parasitol. 2012 Jan;42(1):21-32.]<br><br> | ||
Melo MB | Melo MB, Jensen KDC, '''Saeij JPJ'''. Toxoplasma gondii effectors are master regulators of the inflammatory response. [http://www.ncbi.nlm.nih.gov/pubmed/21893432 Trends in Parasitology. 2011 Nov;27(11):487-95.] <br><br> | ||
Virreira-Winter S, Niedelman W, Jensen KD, Rosowski RE, Julien L, Spooner E, Caradonna K, Burleigh BA, '''Saeij JPJ''', Ploegh HL, Frickel E. Determinants of GBP recruitment to Toxoplasma gondii vacuoles and the parasitic factors that control it. [http://www.ncbi.nlm.nih.gov/pubmed/21931713 PLoS One. 2011;6(9):e24434.]<br><br> | Virreira-Winter S, Niedelman W, Jensen KD, Rosowski RE, Julien L, Spooner E, Caradonna K, Burleigh BA, '''Saeij JPJ''', Ploegh HL, Frickel E. Determinants of GBP recruitment to Toxoplasma gondii vacuoles and the parasitic factors that control it. [http://www.ncbi.nlm.nih.gov/pubmed/21931713 PLoS One. 2011;6(9):e24434.]<br><br> | ||
Jensen KDC, Wang Y, Wojno ED, Shastri AJ, Hu K, Cornel L, Boedec E, Ong Y, Chien Y, Hunter CA, Boothroyd JC, '''Saeij JPJ'''. Toxoplasma polymorphic effectors determine macrophage polarization and intestinal inflammation. [http://www.ncbi.nlm.nih.gov/pubmed/21669396 Cell Host & Microbe 9(6):472-83; 2011.]<br> | Jensen KDC, Wang Y, Wojno ED, Shastri AJ, Hu K, Cornel L, Boedec E, Ong Y, Chien Y, Hunter CA, Boothroyd JC, '''Saeij JPJ'''. Toxoplasma polymorphic effectors determine macrophage polarization and intestinal inflammation. [http://www.ncbi.nlm.nih.gov/pubmed/21669396 Cell Host & Microbe 9(6):472-83; 2011.]<br> | ||
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Reese ML, Zeiner GM, '''Saeij JP''', Boothroyd JC, Boyle JP. Polymorphic family of injected pseudokinases is paramount in Toxoplasma virulence. [http://www.ncbi.nlm.nih.gov/pubmed/21436047 PNAS 108(23):9625-30; 2011.] <br> | Reese ML, Zeiner GM, '''Saeij JP''', Boothroyd JC, Boyle JP. Polymorphic family of injected pseudokinases is paramount in Toxoplasma virulence. [http://www.ncbi.nlm.nih.gov/pubmed/21436047 PNAS 108(23):9625-30; 2011.] <br> | ||
Selected by Faculty of 1000: Factor 6.<br><br> | Selected by Faculty of 1000: Factor 6.<br><br> | ||
Rosowski E$, Lu D$, Julien L, Rodda L, Gaiser R, Kirk J, '''Saeij JPJ'''. Strain-specific activation of the NF-κB pathway by GRA15, a novel Toxoplasma dense granule protein. [http://www.ncbi.nlm.nih.gov/pubmed/21199955 J Exp Med 208(1):195-212; 2011.] | Rosowski E$, Lu D$, Julien L, Rodda L, Gaiser R, Kirk J, '''Saeij JPJ'''. Strain-specific activation of the NF-κB pathway by GRA15, a novel Toxoplasma dense granule protein. [http://www.ncbi.nlm.nih.gov/pubmed/21199955 J Exp Med 208(1):195-212; 2011.] <br> | ||
Selected by Faculty of 1000: Factor 6. <br> | Selected by Faculty of 1000: Factor 6. <br> | ||
'''Highlighted in: It takes II to induce NF-κB.''' [http://www.ncbi.nlm.nih.gov/pubmed/21451559 Nature Reviews Microbiology 9, 147, 2011. ]<br> | '''Highlighted in: It takes II to induce NF-κB.''' [http://www.ncbi.nlm.nih.gov/pubmed/21451559 Nature Reviews Microbiology 9, 147, 2011. ]<br> | ||
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''Here we removed for the first time four adjacent genes using double homologous recombination. These are surface antigens that are expressed in bradyzoites but not in tachyzoites. Interestingly, parasites without these surface antigens are less able to persist in the brain of mice. We also show that using a bradyzoite specific promoter driving luciferase expression can show stage conversion in real time in life mice in vivo (using an IVIS imaging system''). <br><br> | ''Here we removed for the first time four adjacent genes using double homologous recombination. These are surface antigens that are expressed in bradyzoites but not in tachyzoites. Interestingly, parasites without these surface antigens are less able to persist in the brain of mice. We also show that using a bradyzoite specific promoter driving luciferase expression can show stage conversion in real time in life mice in vivo (using an IVIS imaging system''). <br><br> | ||
Boyle JP, '''Saeij JPJ''', Boothroyd Inconsistent dissemination patterns of Toxoplasma gondii following oral infection. [http://www.ncbi.nlm.nih.gov/pubmed/17335814 Experimental Parasitology 116(3):302-305; 2007.] <br><br> | Boyle JP, '''Saeij JPJ''', Boothroyd Inconsistent dissemination patterns of Toxoplasma gondii following oral infection. [http://www.ncbi.nlm.nih.gov/pubmed/17335814 Experimental Parasitology 116(3):302-305; 2007.] <br><br> | ||
'''Saeij JPJ'''$, Coller S$, Boyle JP, Jerome ME, White MW, Boothroyd JC. Toxoplasma co-opts host gene expression by injection of a polymorphic kinase homologue | '''Saeij JPJ'''$, Coller S$, Boyle JP, Jerome ME, White MW, Boothroyd JC. Toxoplasma co-opts host gene expression by injection of a polymorphic kinase homologue. [http://www.ncbi.nlm.nih.gov/pubmed/17183270 Nature 445(7125): 324-327; 2007. ] <br> | ||
Selected by Faculty of 1000: Factor 17.<br> | Selected by Faculty of 1000: Factor 17.<br> | ||
'''Highlighted in: Toxo researchers spot the difference.''' [http://www.nature.com/nrmicro/journal/v5/n2/full/nrmicro1607.html Nature Reviews Microbiology 5, 86, 2007. ]<br><br> | '''Highlighted in: Toxo researchers spot the difference.''' [http://www.nature.com/nrmicro/journal/v5/n2/full/nrmicro1607.html Nature Reviews Microbiology 5, 86, 2007. ]<br><br> | ||
'''Saeij JPJ'''$, Boyle JP$, Coller SC, Taylor S, Sibley LD, Brooke-Powell ET, Ajioka JW, Boothroyd JC. Polymorphic secreted kinases are key virulence factors in toxoplasmosis | '''Saeij JPJ'''$, Boyle JP$, Coller SC, Taylor S, Sibley LD, Brooke-Powell ET, Ajioka JW, Boothroyd JC. Polymorphic secreted kinases are key virulence factors in toxoplasmosis. [http://www.ncbi.nlm.nih.gov/pubmed/17170306 Science 314(5806):1780-1783; 2006. ] <br> | ||
Selected by Faculty of 1000: Factor 14.<br> | Selected by Faculty of 1000: Factor 14.<br> | ||
'''Highlighted in: Toxo researchers spot the difference.''' Nature Reviews Microbiology 5, 86, 2007; Nature Immunology 8, 129 (2007). <br><br> | '''Highlighted in: Toxo researchers spot the difference.''' Nature Reviews Microbiology 5, 86, 2007; Nature Immunology 8, 129 (2007). <br><br> | ||
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Selected by Faculty of 1000: Factor 6. <br><br> | Selected by Faculty of 1000: Factor 6. <br><br> | ||
Boyle JP,''' Saeij JPJ''', Cleary MD, Boothroyd JC. Analysis of gene expression during development: lessons from the apicomplexa. [http://www.ncbi.nlm.nih.gov/pubmed/16697685 Microbes and Infection 8(6): 1623-1630; 2006. ] <br><br> | Boyle JP,''' Saeij JPJ''', Cleary MD, Boothroyd JC. Analysis of gene expression during development: lessons from the apicomplexa. [http://www.ncbi.nlm.nih.gov/pubmed/16697685 Microbes and Infection 8(6): 1623-1630; 2006. ] <br><br> | ||
'''Saeij JPJ'''$, Boyle JP$, Grigg ME, Arrizabalaga G, Boothroyd JC. Bioluminescence imaging of Toxoplasma gondii infection in living mice reveals dramatic differences between strains | '''Saeij JPJ'''$, Boyle JP$, Grigg ME, Arrizabalaga G, Boothroyd JC. Bioluminescence imaging of Toxoplasma gondii infection in living mice reveals dramatic differences between strains. [http://www.ncbi.nlm.nih.gov/pubmed/15664907 Infection and Immunity. 73(2): 695-702; 2005. ] <br> | ||
Selected by Faculty of 1000: Factor 6. <br><br> | Selected by Faculty of 1000: Factor 6. <br><br> | ||
'''Saeij JPJ''', Boyle JP, Boothroyd JC. Differences among the three major strains of Toxoplasma gondii and their specific interactions with the infected host. [http://www.ncbi.nlm.nih.gov/pubmed/16098810 Trends in Parasitology. 21(10): 476-81; 2005.] <br><br> | '''Saeij JPJ''', Boyle JP, Boothroyd JC. Differences among the three major strains of Toxoplasma gondii and their specific interactions with the infected host. [http://www.ncbi.nlm.nih.gov/pubmed/16098810 Trends in Parasitology. 21(10): 476-81; 2005.] <br><br> |
Revision as of 13:22, 26 October 2013
Publications($Denotes shared first author) Lim D, Gold DA, Julien L, Rosowski EE*, Niedelman W, Yaffe MB, Saeij JPJ. Structure of the Toxoplasma gondii ROP18 kinase domain reveals a second ligand binding pocket required for acute virulence. The Journal of Biological Chemistry. 2013. Accepted. Melo MB, Hassan MA, Nguyen QP, Butty V, Cordeiro C, Yang N, Rosowski EE, Julien L, McKell R, Darde M-L, Ajzenberg D, Fitzgerald K. Young LH, Saeij JPJ. Transcriptional analysis of murine macrophages infected with different Toxoplasma strains identifies novel regulation of host signaling pathways. PLoS Pathogens. 2013. Accepted. Niedelman W, Sprokholt JK, Clough B, Frickel EM, Saeij JPJ. Cell death of interferon-gamma stimulated human fibroblasts upon Toxoplasma gondii infection induces early parasite egress and limits parasite replication. Infection and Immunity. 2013. Accepted. Camejo A, Gold DA, Lu D, McFetridge K, Julien L, Yang N, Jensen KD, Saeij JPJ. Identification of three novel Toxoplasma gondii rhoptry proteins. International Journal for Parasitology. 2013. Accepted Yang N, Farrell A, Niedelman W, Melo MB, Lu D, Julien L, Marth GT, Gubbels MJ, Saeij JPJ. Genetic basis for phenotypic differences between different Toxoplasma gondii type I strains. BMC Genomics. 14:467; 2013. “Highly accessed” Jensen KD, Hu K, Whitmarsh RJ, Hassan MA, Julien L, Lu D, Chen L, Hunter CA, Saeij JPJ. Toxoplasma gondii rhoptry 16 kinase promotes host resistance to oral infection and intestinal inflammation only in the context of the dense granule protein GRA15. Infection and Immunity. 81(6):2156-67; 2013. ‘Article of significant interest’ selected by the editors, see Research Spotlight: Infection and Immunity, 81(6): 1859; 2013. Rosowski EE, Saeij JPJ. Toxoplasma gondii clonal strains all inhibit STAT1 transcriptional activity but polymorphic effectors differentially modulate IFNγ induced gene expression and STAT1 phosphorylation. PLoS One. 7(12):e51448; doi: 10.1371/journal.pone.0051448. 2012. Hassan MA, Melo MB, Haas B, Jensen KD, Saeij JPJ. De novo reconstruction of the Toxoplasma gondii transcriptome improves on the current genome annotation and reveals alternatively spliced transcripts and putative long non-coding RNAs. BMC Genomics. 13(1):696; 2012. “Highly accessed” Minot S$, Melo MB$, Li F, Lu D, Niedelman W, Levine SS, Saeij JPJ. Admixture and recombination among Toxoplasma gondii lineages explain global genome diversity. Proc Natl Acad Sci U S A. 2012 ;109(33):13458-6. Niedelman W, Gold DA, Rosowski EE, Sprokholt JK, Lim D, Farid Arenas A, Melo MB, Spooner E, Yaffe MB, Saeij JPJ. The Rhoptry Proteins ROP18 and ROP5 Mediate Toxoplasma gondii Evasion of the Murine, But Not the Human, Interferon-Gamma Response. PLoS Pathog. 2012 Jun;8(6):e1002784. Lim DC, Cooke BM, Doerig C, Saeij JPJ. Toxoplasma and Plasmodium protein kinases: roles in invasion and host cell remodelling.
Int J Parasitol. 2012 Jan;42(1):21-32. Melo MB, Jensen KDC, Saeij JPJ. Toxoplasma gondii effectors are master regulators of the inflammatory response. Trends in Parasitology. 2011 Nov;27(11):487-95. |