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Items: 1 to 50 of 195

1.

Glycolysis is important for optimal asexual growth and formation of mature tissue cysts by Toxoplasma gondii.

Shukla A, Olszewski KL, Llinás M, Rommereim LM, Fox BA, Bzik DJ, Xia D, Wastling J, Beiting D, Roos DS, Shanmugam D.

Int J Parasitol. 2018 Oct;48(12):955-968. doi: 10.1016/j.ijpara.2018.05.013. Epub 2018 Aug 31.

PMID:
30176233
2.

FungiDB: An Integrated Bioinformatic Resource for Fungi and Oomycetes.

Basenko EY, Pulman JA, Shanmugasundram A, Harb OS, Crouch K, Starns D, Warrenfeltz S, Aurrecoechea C, Stoeckert CJ Jr, Kissinger JC, Roos DS, Hertz-Fowler C.

J Fungi (Basel). 2018 Mar 20;4(1). pii: E39. doi: 10.3390/jof4010039.

3.

EuPathDB: The Eukaryotic Pathogen Genomics Database Resource.

Warrenfeltz S, Basenko EY, Crouch K, Harb OS, Kissinger JC, Roos DS, Shanmugasundram A, Silva-Franco F.

Methods Mol Biol. 2018;1757:69-113. doi: 10.1007/978-1-4939-7737-6_5.

PMID:
29761457
4.

Flavor perception and the risk of malnutrition in patients with Parkinson's disease.

Roos DS, Oranje OJM, Freriksen AFD, Berendse HW, Boesveldt S.

J Neural Transm (Vienna). 2018 Jun;125(6):925-930. doi: 10.1007/s00702-018-1862-8. Epub 2018 Feb 22.

5.

MicrobiomeDB: a systems biology platform for integrating, mining and analyzing microbiome experiments.

Oliveira FS, Brestelli J, Cade S, Zheng J, Iodice J, Fischer S, Aurrecoechea C, Kissinger JC, Brunk BP, Stoeckert CJ Jr, Fernandes GR, Roos DS, Beiting DP.

Nucleic Acids Res. 2018 Jan 4;46(D1):D684-D691. doi: 10.1093/nar/gkx1027.

6.

EuPathDB: the eukaryotic pathogen genomics database resource.

Aurrecoechea C, Barreto A, Basenko EY, Brestelli J, Brunk BP, Cade S, Crouch K, Doherty R, Falke D, Fischer S, Gajria B, Harb OS, Heiges M, Hertz-Fowler C, Hu S, Iodice J, Kissinger JC, Lawrence C, Li W, Pinney DF, Pulman JA, Roos DS, Shanmugasundram A, Silva-Franco F, Steinbiss S, Stoeckert CJ Jr, Spruill D, Wang H, Warrenfeltz S, Zheng J.

Nucleic Acids Res. 2017 Jan 4;45(D1):D581-D591. doi: 10.1093/nar/gkw1105. Epub 2016 Nov 29.

7.

O-fucosylated glycoproteins form assemblies in close proximity to the nuclear pore complexes of Toxoplasma gondii.

Bandini G, Haserick JR, Motari E, Ouologuem DT, Lourido S, Roos DS, Costello CE, Robbins PW, Samuelson J.

Proc Natl Acad Sci U S A. 2016 Oct 11;113(41):11567-11572. Epub 2016 Sep 23.

8.

Local admixture of amplified and diversified secreted pathogenesis determinants shapes mosaic Toxoplasma gondii genomes.

Lorenzi H, Khan A, Behnke MS, Namasivayam S, Swapna LS, Hadjithomas M, Karamycheva S, Pinney D, Brunk BP, Ajioka JW, Ajzenberg D, Boothroyd JC, Boyle JP, Dardé ML, Diaz-Miranda MA, Dubey JP, Fritz HM, Gennari SM, Gregory BD, Kim K, Saeij JP, Su C, White MW, Zhu XQ, Howe DK, Rosenthal BM, Grigg ME, Parkinson J, Liu L, Kissinger JC, Roos DS, Sibley LD.

Nat Commun. 2016 Jan 7;7:10147. doi: 10.1038/ncomms10147.

9.

A Lipolytic Lecithin:Cholesterol Acyltransferase Secreted by Toxoplasma Facilitates Parasite Replication and Egress.

Pszenny V, Ehrenman K, Romano JD, Kennard A, Schultz A, Roos DS, Grigg ME, Carruthers VB, Coppens I.

J Biol Chem. 2016 Feb 19;291(8):3725-46. doi: 10.1074/jbc.M115.671974. Epub 2015 Dec 22.

10.

Population Genetics, Evolutionary Genomics, and Genome-Wide Studies of Malaria: A View Across the International Centers of Excellence for Malaria Research.

Carlton JM, Volkman SK, Uplekar S, Hupalo DN, Pereira Alves JM, Cui L, Donnelly M, Roos DS, Harb OS, Acosta M, Read A, Ribolla PE, Singh OP, Valecha N, Wassmer SC, Ferreira M, Escalante AA.

Am J Trop Med Hyg. 2015 Sep;93(3 Suppl):87-98. doi: 10.4269/ajtmh.15-0049. Epub 2015 Aug 10.

11.

The Orphan Nuclear Receptor TLX Is an Enhancer of STAT1-Mediated Transcription and Immunity to Toxoplasma gondii.

Beiting DP, Hidano S, Baggs JE, Geskes JM, Fang Q, Wherry EJ, Hunter CA, Roos DS, Cherry S.

PLoS Biol. 2015 Jul 21;13(7):e1002200. doi: 10.1371/journal.pbio.1002200. eCollection 2015 Jul.

12.

Chromerid genomes reveal the evolutionary path from photosynthetic algae to obligate intracellular parasites.

Woo YH, Ansari H, Otto TD, Klinger CM, Kolisko M, Michálek J, Saxena A, Shanmugam D, Tayyrov A, Veluchamy A, Ali S, Bernal A, del Campo J, Cihlář J, Flegontov P, Gornik SG, Hajdušková E, Horák A, Janouškovec J, Katris NJ, Mast FD, Miranda-Saavedra D, Mourier T, Naeem R, Nair M, Panigrahi AK, Rawlings ND, Padron-Regalado E, Ramaprasad A, Samad N, Tomčala A, Wilkes J, Neafsey DE, Doerig C, Bowler C, Keeling PJ, Roos DS, Dacks JB, Templeton TJ, Waller RF, Lukeš J, Oborník M, Pain A.

Elife. 2015 Jul 15;4:e06974. doi: 10.7554/eLife.06974.

13.

A large-scale proteogenomics study of apicomplexan pathogens-Toxoplasma gondii and Neospora caninum.

Krishna R, Xia D, Sanderson S, Shanmugasundram A, Vermont S, Bernal A, Daniel-Naguib G, Ghali F, Brunk BP, Roos DS, Wastling JM, Jones AR.

Proteomics. 2015 Aug;15(15):2618-28. doi: 10.1002/pmic.201400553. Epub 2015 May 15.

14.

Evolutionary cell biology: two origins, one objective.

Lynch M, Field MC, Goodson HV, Malik HS, Pereira-Leal JB, Roos DS, Turkewitz AP, Sazer S.

Proc Natl Acad Sci U S A. 2014 Dec 2;111(48):16990-4. doi: 10.1073/pnas.1415861111. Epub 2014 Nov 17.

15.

The Eukaryotic Pathogen Databases: a functional genomic resource integrating data from human and veterinary parasites.

Harb OS, Roos DS.

Methods Mol Biol. 2015;1201:1-18. doi: 10.1007/978-1-4939-1438-8_1.

16.

A review of the global burden, novel diagnostics, therapeutics, and vaccine targets for cryptosporidium.

Checkley W, White AC Jr, Jaganath D, Arrowood MJ, Chalmers RM, Chen XM, Fayer R, Griffiths JK, Guerrant RL, Hedstrom L, Huston CD, Kotloff KL, Kang G, Mead JR, Miller M, Petri WA Jr, Priest JW, Roos DS, Striepen B, Thompson RC, Ward HD, Van Voorhis WA, Xiao L, Zhu G, Houpt ER.

Lancet Infect Dis. 2015 Jan;15(1):85-94. doi: 10.1016/S1473-3099(14)70772-8. Epub 2014 Sep 29. Review.

17.

Genomic profiling of human Leishmania braziliensis lesions identifies transcriptional modules associated with cutaneous immunopathology.

Novais FO, Carvalho LP, Passos S, Roos DS, Carvalho EM, Scott P, Beiting DP.

J Invest Dermatol. 2015 Jan;135(1):94-101. doi: 10.1038/jid.2014.305. Epub 2014 Jul 18.

18.

Standardized metadata for human pathogen/vector genomic sequences.

Dugan VG, Emrich SJ, Giraldo-Calderón GI, Harb OS, Newman RM, Pickett BE, Schriml LM, Stockwell TB, Stoeckert CJ Jr, Sullivan DE, Singh I, Ward DV, Yao A, Zheng J, Barrett T, Birren B, Brinkac L, Bruno VM, Caler E, Chapman S, Collins FH, Cuomo CA, Di Francesco V, Durkin S, Eppinger M, Feldgarden M, Fraser C, Fricke WF, Giovanni M, Henn MR, Hine E, Hotopp JD, Karsch-Mizrachi I, Kissinger JC, Lee EM, Mathur P, Mongodin EF, Murphy CI, Myers G, Neafsey DE, Nelson KE, Nierman WC, Puzak J, Rasko D, Roos DS, Sadzewicz L, Silva JC, Sobral B, Squires RB, Stevens RL, Tallon L, Tettelin H, Wentworth D, White O, Will R, Wortman J, Zhang Y, Scheuermann RH.

PLoS One. 2014 Jun 17;9(6):e99979. doi: 10.1371/journal.pone.0099979. eCollection 2014.

19.

Dynamics of the Toxoplasma gondii inner membrane complex.

Ouologuem DT, Roos DS.

J Cell Sci. 2014 Aug 1;127(Pt 15):3320-30. doi: 10.1242/jcs.147736. Epub 2014 Jun 13.

20.

Bystander chronic infection negatively impacts development of CD8(+) T cell memory.

Stelekati E, Shin H, Doering TA, Dolfi DV, Ziegler CG, Beiting DP, Dawson L, Liboon J, Wolski D, Ali MA, Katsikis PD, Shen H, Roos DS, Haining WN, Lauer GM, Wherry EJ.

Immunity. 2014 May 15;40(5):801-13. doi: 10.1016/j.immuni.2014.04.010.

21.

Differential induction of TLR3-dependent innate immune signaling by closely related parasite species.

Beiting DP, Peixoto L, Akopyants NS, Beverley SM, Wherry EJ, Christian DA, Hunter CA, Brodsky IE, Roos DS.

PLoS One. 2014 Feb 5;9(2):e88398. doi: 10.1371/journal.pone.0088398. eCollection 2014.

22.

Cryptic organelle homology in apicomplexan parasites: insights from evolutionary cell biology.

Klinger CM, Nisbet RE, Ouologuem DT, Roos DS, Dacks JB.

Curr Opin Microbiol. 2013 Aug;16(4):424-31. doi: 10.1016/j.mib.2013.07.015. Epub 2013 Aug 8.

23.

Cytotoxic T cells mediate pathology and metastasis in cutaneous leishmaniasis.

Novais FO, Carvalho LP, Graff JW, Beiting DP, Ruthel G, Roos DS, Betts MR, Goldschmidt MH, Wilson ME, de Oliveira CI, Scott P.

PLoS Pathog. 2013;9(7):e1003504. doi: 10.1371/journal.ppat.1003504. Epub 2013 Jul 18.

24.

Replication and distribution of Toxoplasma gondii in the small intestine after oral infection with tissue cysts.

Gregg B, Taylor BC, John B, Tait-Wojno ED, Girgis NM, Miller N, Wagage S, Roos DS, Hunter CA.

Infect Immun. 2013 May;81(5):1635-43. doi: 10.1128/IAI.01126-12. Epub 2013 Mar 4.

25.

EuPathDB: the eukaryotic pathogen database.

Aurrecoechea C, Barreto A, Brestelli J, Brunk BP, Cade S, Doherty R, Fischer S, Gajria B, Gao X, Gingle A, Grant G, Harb OS, Heiges M, Hu S, Iodice J, Kissinger JC, Kraemer ET, Li W, Pinney DF, Pitts B, Roos DS, Srinivasamoorthy G, Stoeckert CJ Jr, Wang H, Warrenfeltz S.

Nucleic Acids Res. 2013 Jan;41(Database issue):D684-91. doi: 10.1093/nar/gks1113. Epub 2012 Nov 21.

26.

SchistoDB: an updated genome resource for the three key schistosomes of humans.

Zerlotini A, Aguiar ER, Yu F, Xu H, Li Y, Young ND, Gasser RB, Protasio AV, Berriman M, Roos DS, Kissinger JC, Oliveira G.

Nucleic Acids Res. 2013 Jan;41(Database issue):D728-31. doi: 10.1093/nar/gks1087. Epub 2012 Nov 17.

27.

The cytokines interleukin 27 and interferon-γ promote distinct Treg cell populations required to limit infection-induced pathology.

Hall AO, Beiting DP, Tato C, John B, Oldenhove G, Lombana CG, Pritchard GH, Silver JS, Bouladoux N, Stumhofer JS, Harris TH, Grainger J, Wojno ED, Wagage S, Roos DS, Scott P, Turka LA, Cherry S, Reiner SL, Cua D, Belkaid Y, Elloso MM, Hunter CA.

Immunity. 2012 Sep 21;37(3):511-23. doi: 10.1016/j.immuni.2012.06.014. Epub 2012 Sep 13.

28.

Toxoplasma gondii seroprevalence in Mali.

Ouologuem DT, Djimdé AA, Diallo N, Doumbo OK, Roos DS.

J Parasitol. 2013 Apr;99(2):371-4. doi: 10.1645/GE-3239.1. Epub 2012 Aug 27.

PMID:
22924926
29.

Comparative genomics of the apicomplexan parasites Toxoplasma gondii and Neospora caninum: Coccidia differing in host range and transmission strategy.

Reid AJ, Vermont SJ, Cotton JA, Harris D, Hill-Cawthorne GA, Könen-Waisman S, Latham SM, Mourier T, Norton R, Quail MA, Sanders M, Shanmugam D, Sohal A, Wasmuth JD, Brunk B, Grigg ME, Howard JC, Parkinson J, Roos DS, Trees AJ, Berriman M, Pain A, Wastling JM.

PLoS Pathog. 2012;8(3):e1002567. doi: 10.1371/journal.ppat.1002567. Epub 2012 Mar 22.

30.

Toward community standards in the quest for orthologs.

Dessimoz C, Gabaldón T, Roos DS, Sonnhammer EL, Herrero J; Quest for Orthologs Consortium.

Bioinformatics. 2012 Mar 15;28(6):900-4. doi: 10.1093/bioinformatics/bts050. Epub 2012 Feb 12.

31.

Identification of surprisingly diverse type IV pili, across a broad range of gram-positive bacteria.

Imam S, Chen Z, Roos DS, Pohlschröder M.

PLoS One. 2011;6(12):e28919. doi: 10.1371/journal.pone.0028919. Epub 2011 Dec 21.

32.

Targeted disruption of Toxoplasma gondii serine protease inhibitor 1 increases bradyzoite cyst formation in vitro and parasite tissue burden in mice.

Pszenny V, Davis PH, Zhou XW, Hunter CA, Carruthers VB, Roos DS.

Infect Immun. 2012 Mar;80(3):1156-65. doi: 10.1128/IAI.06167-11. Epub 2011 Dec 27.

33.

TDR Targets: a chemogenomics resource for neglected diseases.

Magariños MP, Carmona SJ, Crowther GJ, Ralph SA, Roos DS, Shanmugam D, Van Voorhis WC, Agüero F.

Nucleic Acids Res. 2012 Jan;40(Database issue):D1118-27. doi: 10.1093/nar/gkr1053. Epub 2011 Nov 23.

34.

A monomorphic haplotype of chromosome Ia is associated with widespread success in clonal and nonclonal populations of Toxoplasma gondii.

Khan A, Miller N, Roos DS, Dubey JP, Ajzenberg D, Dardé ML, Ajioka JW, Rosenthal B, Sibley LD.

MBio. 2011 Nov 8;2(6):e00228-11. doi: 10.1128/mBio.00228-11. Print 2011.

35.

FungiDB: an integrated functional genomics database for fungi.

Stajich JE, Harris T, Brunk BP, Brestelli J, Fischer S, Harb OS, Kissinger JC, Li W, Nayak V, Pinney DF, Stoeckert CJ Jr, Roos DS.

Nucleic Acids Res. 2012 Jan;40(Database issue):D675-81. doi: 10.1093/nar/gkr918. Epub 2011 Nov 7.

36.

Comparative genomics of the pathogenic ciliate Ichthyophthirius multifiliis, its free-living relatives and a host species provide insights into adoption of a parasitic lifestyle and prospects for disease control.

Coyne RS, Hannick L, Shanmugam D, Hostetler JB, Brami D, Joardar VS, Johnson J, Radune D, Singh I, Badger JH, Kumar U, Saier M, Wang Y, Cai H, Gu J, Mather MW, Vaidya AB, Wilkes DE, Rajagopalan V, Asai DJ, Pearson CG, Findly RC, Dickerson HW, Wu M, Martens C, Van de Peer Y, Roos DS, Cassidy-Hanley DM, Clark TG.

Genome Biol. 2011 Oct 17;12(10):R100. doi: 10.1186/gb-2011-12-10-r100.

37.

Using OrthoMCL to assign proteins to OrthoMCL-DB groups or to cluster proteomes into new ortholog groups.

Fischer S, Brunk BP, Chen F, Gao X, Harb OS, Iodice JB, Shanmugam D, Roos DS, Stoeckert CJ Jr.

Curr Protoc Bioinformatics. 2011 Sep;Chapter 6:Unit 6.12.1-19. doi: 10.1002/0471250953.bi0612s35.

38.

The search for the missing link: a relic plastid in Perkinsus?

Fernández Robledo JA, Caler E, Matsuzaki M, Keeling PJ, Shanmugam D, Roos DS, Vasta GR.

Int J Parasitol. 2011 Oct;41(12):1217-29. doi: 10.1016/j.ijpara.2011.07.008. Epub 2011 Aug 22. Review.

PMID:
21889509
39.

Subcellular antigen location influences T-cell activation during acute infection with Toxoplasma gondii.

Gregg B, Dzierszinski F, Tait E, Jordan KA, Hunter CA, Roos DS.

PLoS One. 2011;6(7):e22936. doi: 10.1371/journal.pone.0022936. Epub 2011 Jul 28.

40.

The Strategies WDK: a graphical search interface and web development kit for functional genomics databases.

Fischer S, Aurrecoechea C, Brunk BP, Gao X, Harb OS, Kraemer ET, Pennington C, Treatman C, Kissinger JC, Roos DS, Stoeckert CJ.

Database (Oxford). 2011 Jun 23;2011:bar027. doi: 10.1093/database/bar027. Print 2011.

41.

Motor and non-motor correlates of olfactory dysfunction in Parkinson's disease.

Berendse HW, Roos DS, Raijmakers P, Doty RL.

J Neurol Sci. 2011 Nov 15;310(1-2):21-4. doi: 10.1016/j.jns.2011.06.020. Epub 2011 Jun 25.

PMID:
21705022
42.

Fosmidomycin uptake into Plasmodium and Babesia-infected erythrocytes is facilitated by parasite-induced new permeability pathways.

Baumeister S, Wiesner J, Reichenberg A, Hintz M, Bietz S, Harb OS, Roos DS, Kordes M, Friesen J, Matuschewski K, Lingelbach K, Jomaa H, Seeber F.

PLoS One. 2011 May 4;6(5):e19334. doi: 10.1371/journal.pone.0019334.

43.

Identity crisis? The need for systematic gene IDs.

Parsons M, Myler PJ, Berriman M, Roos DS, Stuart KD.

Trends Parasitol. 2011 May;27(5):183-4. doi: 10.1016/j.pt.2011.02.007. Epub 2011 Apr 5.

44.

Crystal structure of Toxoplasma gondii porphobilinogen synthase: insights on octameric structure and porphobilinogen formation.

Jaffe EK, Shanmugam D, Gardberg A, Dieterich S, Sankaran B, Stewart LJ, Myler PJ, Roos DS.

J Biol Chem. 2011 Apr 29;286(17):15298-307. doi: 10.1074/jbc.M111.226225. Epub 2011 Mar 7.

45.

A systems biological view of intracellular pathogens.

Beiting DP, Roos DS.

Immunol Rev. 2011 Mar;240(1):117-28. doi: 10.1111/j.1600-065X.2010.00998.x. Review.

46.

An insertional trap for conditional gene expression in Toxoplasma gondii: identification of TAF250 as an essential gene.

Jammallo L, Eidell K, Davis PH, Dufort FJ, Cronin C, Thirugnanam S, Chiles TC, Roos DS, Gubbels MJ.

Mol Biochem Parasitol. 2011 Feb;175(2):133-43. doi: 10.1016/j.molbiopara.2010.10.007. Epub 2010 Oct 28.

47.

AmoebaDB and MicrosporidiaDB: functional genomic resources for Amoebozoa and Microsporidia species.

Aurrecoechea C, Barreto A, Brestelli J, Brunk BP, Caler EV, Fischer S, Gajria B, Gao X, Gingle A, Grant G, Harb OS, Heiges M, Iodice J, Kissinger JC, Kraemer ET, Li W, Nayak V, Pennington C, Pinney DF, Pitts B, Roos DS, Srinivasamoorthy G, Stoeckert CJ Jr, Treatman C, Wang H.

Nucleic Acids Res. 2011 Jan;39(Database issue):D612-9. doi: 10.1093/nar/gkq1006. Epub 2010 Oct 24.

48.

A novel multifunctional oligonucleotide microarray for Toxoplasma gondii.

Bahl A, Davis PH, Behnke M, Dzierszinski F, Jagalur M, Chen F, Shanmugam D, White MW, Kulp D, Roos DS.

BMC Genomics. 2010 Oct 25;11:603. doi: 10.1186/1471-2164-11-603.

49.

Identification of attractive drug targets in neglected-disease pathogens using an in silico approach.

Crowther GJ, Shanmugam D, Carmona SJ, Doyle MA, Hertz-Fowler C, Berriman M, Nwaka S, Ralph SA, Roos DS, Van Voorhis WC, Agüero F.

PLoS Negl Trop Dis. 2010 Aug 24;4(8):e804. doi: 10.1371/journal.pntd.0000804.

50.

Integrative genomic approaches highlight a family of parasite-specific kinases that regulate host responses.

Peixoto L, Chen F, Harb OS, Davis PH, Beiting DP, Brownback CS, Ouloguem D, Roos DS.

Cell Host Microbe. 2010 Aug 19;8(2):208-18. doi: 10.1016/j.chom.2010.07.004.

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