List of Publications 2009

Allen JE, Bischof RJ, Sucie Chang H-Y, Hirota JA, Hirst SJ, Inman MD, Mitzner W and Sutherland TE - Animal models of airway inflammation and airway smooth muscle remodelling in asthma. Pulmonary pharmacology and therapeutics, Volume 22, Issue 5, October 2009, Pages 455-465 file

Allen, D.E. and T.J. Little - The molecular landscape of host-parasite coevolution. Cold Spring Harb Symp Quant Biol. 2009; 74:169-76. Epub 2009 Oct 20. file

Allen, JE and Wynn, TA - Macrophages in Helminth Infection: Effectors, Regulators, and Wound Healers. Phagocyte Pathogen Interactions (2009) vol. Pathogens of the professional phagocyte pp. 1-14 file
Attarzadeh-Yazdi, G., Fragkoudis, R., Chi, Y. S., Ricky W. C., Ulper, L., Barry, G., Rodriguez-Andres, J., Nash, A. A., Bouloy, M., Merits, A., Fazakerley, J. K. and Kohl, A. - Cell-to-Cell Spread of the RNA Interference Response Suppresses Semliki Forest Virus (SFV) Infection of Mosquito Cell Cultures and Cannot Be Antagonized by SFV, J. Virol. 2009 83: 5735-5748 file

Bailer, S and Haas, J. - Connecting viral with cellular interactomes. Curr. Opin. Microbiol. 12:453-459. 2009 file
Balic, A., Smith, K. A., Harcus, Y. and Maizels, R. M. - Dynamics of CD11c+ Dendritic Cell Subsets in Lymph Nodes Draining the Site of Intestinal Nematode Infection, Immunology Letters, 2009 file
Barry G.M., Breakwell L., Fragkoudis R., Attarzadeh-Yazdi G., Rodriguez-Andres J., Kohl A., Fazakerley J.K., - PKR acts early in infection to suppress Semliki Forest virus production and strongly enhances the type-I interferon response J Gen Virol 2009 0: vir.0.00733 file
Batchelor, N.A., Atkinson, P.M., Gething, P.W., Picozzi, K., Fèvre, E.M., Kakembo, A., and Welburn, S.C. - Spatial predictions of Rhodesian Human African Trypanosomiasis (sleeping sickness) prevalence in Kaberamaido and Dokolo, two newly affected districts of Uganda. PLoS Neglected Tropical Diseases, 15;3(12):e563 file
Bavan S, Straub VA, Blaxter ML and Ennion SJ - A P2X receptor from the tardigrade species Hypsibius dujardini with fast kinetics and sensitivity to zinc and copper. BMC Evol Biol 2009, 9:17. file

Benschop K, de Vries M, Minaar R, Stanway G, van der Hoek L, Wolthers K, and Simmonds P - Comprehensive full length sequence analyses of human parechoviruses; diversity and recombination. J. Gen..  Virol. Sep 16: 2009 file

Brownlie, R and Zamoyska, R.- Mutations in the adaptor molecule LAT can lead to autoimmunity. Immunity, 2009 file

Buckling, A, Brockhurst, M, MacClean, R. C. and Colegrave, N.- The beagle in a bottle: experimental evolution in microbes. Nature, 457. 824 – 829 file

Cecchi, G., Paone, M., Franco, J., Fèvre, E.M., Diarra, A., Ruiz, J., Mattioli, R., and Simarro, P. - Towards the Atlas of human African trypanosomiasis. International Journal of Health Geographics, 8, 15. file

Cheesman, S., Tanabe, K., Sawai, H., O'Mahony, E. and Carter, R. - Strain-specific immunity may drive adaptive polymorphism in the merozoite surface protein 1 of the rodent malaria parasite Plasmodium chabaudi, Infection, Genetics and Evolution 9 (2009) 248-255 file

Chieochansin T, Kapoor A, Delwart E, Poovorawan Y and Simmonds P - Absence of detectable replication of human bocavirus species 2 in the respiratroy tract. Emerg. Infect Dis. 15:1503-1505. 2009. file

Cliffe AR, Nash AA and Dutia BM - Selective uptake of small RNA molecules in the virion of MHV-68. J Virol. 83(5) 2321-6 file

Collins S and Gardner A - Integrating physiological, ecological and evolutionary change: a Price equation approach. Ecology Letters 12, 744-757. file
Dahlroth, S.-L., Gurmu, D., Schmitzberger, F., Haas, J. , Erlandson, H. and Nordlund, P. - Crystal structure of the shutoff and exonuclease protein form the oncogenic Kaposi’s sarcoma associated herpesvirus. FEBS J. Oct 16 2009 file

Dahlroth, S.-L., Lieu, V., Haas, J. and Nordlund, P. - Screening Colonies of Pooled ORFeomes (SCOOP): A rapid and efficient strategy for expression screening ORFeomes in E. coli. Prot Exp Purif 68:121-7. 2009 file

Dean S, Marchetti R, Kirk K and Matthews KR - A surface transporter family conveys the trypanosome differentiation signal. Nature 2009 May 14; 459(7244):213-7. file

Doumbo OK, Thera MA, Koné AK, Raza A, Tempest LJ, Lyke KE, Plowe CV and Rowe JA - High levels of Plasmodium falciparum rosetting in all clinical forms of severe malaria in African children. American Journal of Tropical Medicine and Hygiene.  2009, 81, 987-993 file

Drexler JF, Kupfer B, Petersen N, Grotto RM, Rodrigues SM, Grywna K, Panning M, Annan A, Silva GF, Douglas J, Koay ES, Smuts H, Netto EM, Simmonds P, Pardini MI, Roth WK, and Drosten C - A novel diagnostic target in the hepatitis C virus genome. PLoS. Med. 6:e31 file

Duncan AB, Hall S and Little TJ  - Parasitism and environmental sex determination in Daphnia. Evolutionary Ecology Research 11: 965-973 file

Dutia BM, Reid SJ, Drummond DD, Ligertwood Y, Bennnet I, Rietberg W, Silvia O, Jarvis MA and Nash AA - A novel Cre recombinase imaging system for tracking lymphotropic virus infection in vivo. Plos One 4 (8) e6492. file

Fairlie-Clarke K.J., Shuker D.M. and Graham A.L.- Why do adaptive immune responses cross-react? Evolutionary Applications, Vol. 2, No. 1. (2009), pp. 122-131. file

Fernández, C. and Maizels, R.M. - Generating EST libraries: Trans-spliced cDNAs. Expressed Sequence Tags (ESTs): Generation and Analaysis (Ed Parkinson, J.) Humana Press, 24pp. MiMB 533:1-27 file

Flach, B., Steer, B., Thakur, N.N., Haas, J. and Adler, H. - The M10 locus of murine gammaherpesvirus 68 contributes to both the lytic and latent phase of infection. J.Virol. 83:8163-8172. 2009 file

Fossum, E., Friedel, C.C., Rajagopala, S.V., Titz, B., Baiker, A., Schmidt, T., Kraus, T., Stellberger, T., Rutenberg, C., Suthram, S., Bandyopadhyay, S., Rose, D., von Brunn, A., Uhlmann, M., Zeretzke, C., Dong, Y.-A., Boulet, H., Koegl, M., Bailer, S., Koszinowski, U., Ideker, T., Uetz, P., Zimmer, R. and Haas, J. - Evolutionarily conserved herpesviral protein interaction networks. PLOS Pathogens 5:e10000570. 2009 file

Fragkoudis R, Tamberg N, Siu R, Kiiver K, Kohl A, Merits A and Fazakerley JK.- Neurons and oligodendrocytes in the mouse brain differ in their ability to replicate Semliki Forest virus. J Neurovirol. 2009 Jan;15(1):57-70. file

Fragkoudis, R., Attarzadeh-Yazdi, G., Nash, A.A., Fazakerley, J.K. and Kohl A. - Advances in dissecting mosquito innate immune responses to arbovirus infection. Journal of General Virology Journal of General Virology 2009;90:2061, published online ahead of print on 1 July 2009 as doi:10.1099/vir.0.013201-0 file

Fraser C, Donnelly CA, Cauchemez S, Hanage WP, Van Kerkhove MD, Hollingsworth TD, Griffin J, Baggaley RF, Jenkins HE, Lyons EJ, Jombart T, Hinsley WR, Grassly NC, Balloux F, Ghani AC, Ferguson NM, Rambaut A, Pybus OG, Lopez-Gatell H, Apluche-Aranda CM, Chapela IB, Zavala EP, Guevara DME, Checchi E, Garcia E, Hugonnet S, Roth C & and The WHO Rapid Pandemic Assessment Collaboration. - Pandemic Potential of a Strain of Influenza A (H1N1) : Early Findings. Science, Science 2009: Vol. 324 no. 5934 pp. 1557-1561 DOI: 10.1126/science.1176062 . file

Gadsby, N., Lawrence, R. and Carter, R. - A study on pathogenicity and mosquito transmission success in the rodent malaria parasite Plasmodium chabaudi adami, International Journal for Parasitology 39 (2009) 347-354 file

Gangadharan B, Dutia BM, Rhind SM and Nash AA - Murid herpesvirus-4 induces chronic inflammation of intrahepatic bile ducts in mice deficient in gamma-interferon signalling. Hepatol Res.;39(2):187-94 file

Gardner A and Grafen A - Capturing the superorganism: a formal theory of group adaptation. Journal of Evolutionary Biology 22, 659-671file

Gardner A, Arce A and Alpedrinha J - Budding dispersal and the sex ratio. Journal of Evolutionary Biology 22, 1036-1045 file

Gaunt E, McWilliam-Leitch EC, Templeton K, and Simmonds P - Incidence, molecular epidemiology and clinical presentations of human metapneumovirus; assessment of its importance as a diagnostic screening target. J. Clin. Virol. 46:318-324. 2009. file

González, S., Fló, M., Margenat, M., Durán, R., González-Sapienza, G., Graña, M., Parkinson, J., Maizels, R.M., Salinas, G., Alvarez, B. and Fernández ,C.- A Family of Diverse Kunitz Inhibitors from Echinococcus granulosus Potentially Involved in Host-Parasite Cross-Talk, 2009 PLOS. file

Gray D. - Persistence or memory - which is best? Vaccines In Practice 2009; Vol 2 No 1 file

Haag CR, McTaggart SJ, Didier A, Little TJ and Charlesworth D. - Nucleotide polymorphism and within-gene recombination in Daphnia magna and D. pulex, two cyclical parthenogens, Genetics. 2009 May;182(1):313-23. file

Harcus, Y., Nicoll, G.,  Murray, J., Filbey, K., Gomez-Escobar, N. and Maizels, R. M. - C-type lectins from the nematode parasites Heligmosomoides polygyrus and Nippostrongylus brasiliensis, Parasitology International, Vol 58, Issue 4, December 2009, 461-470 Available online 12 September 2009, ISSN 1383-5769, file

Harvala H and Simmonds P - Human parechoviruses: biology, epidemiology and clinical significance. J. Clin. Virol. 45:1-9 file

Harvala H, Robertson I, McWilliam Leitch C, Chieochansin T, Templeton K, and Simmonds P - Specific association of human parechovirus type 3 in neonatal sepsis identified by direct typing assay on cerebrospinal fluid. J. Infect. Dis. 199: 1753-1760. file

Herrera A, Cockell CS, Self S, Blaxter M, Reitner J, Thorsteinsson T, Arp G, Drose W and Tindle AG - A cryptoendolithic community in volcanic glass. Astrobiology 2009, 9(4):369-381. file

Hewitson, J.P., Grainger, J.R. and Maizels, R.M. - Helminth immunoregulation: The role of parasite secreted proteins in modulating host immunity. Molecular and Biochemical Parasitology 167 : 1-11 file

Hoeve, MA, Mylonas, KJ, Fairlie-Clarke, KJ, Mahajan, SM, Allen, JE and Graham, ALPlasmodium chabaudi limits early Nippostrongylus brasiliensis-induced pulmonary immune activation and Th2 polarization in co-infected mice. BMC Immunol (2009) vol. 10 pp. 60 file

Howey, R., Quan, M., Savill, N.J., Matthews, L., Alexandersen, S. and Woolhouse, M.Effect of initial dose of foot-and-mouth disease virus on the early viral dynamics within pigs. Journal of the Royal Society Interface 6: 835-847. file

Hughes GJ, Fearnhill E, Dunn D, Lycett SJ, Rambaut A, Leigh Brown AJ; UK HIV Drug Resistance Collaboration - Molecular phylodynamics of the heterosexual HIV epidemic in the United Kingdom PLoS Pathog, 2009 Sep;5(9):e1000590. file
Hunt PW, McNally J, Barris W and Blaxter ML - Duplication and divergence: The evolution of nematode globins. J Nematol 2010, 41:35-51. file

Inglis RF, Gardner A, Cornelis P and Buckling A -  Spite and virulence in Pseudomonas aeruginosa. Proceedings of the National Academy of Sciences, USA 106, 5703-5707 file

Kabani, S,; Fenn, K.; Ross, A.; Ivens, A.; Smith, T.K.; Ghazal, P. and Matthews K. R. - Genome-wide expression profiling of in vivo-derived bloodstream parasite stages and dynamic analysis of mRNA alterations during synchronous differentiation in Trypanosoma brucei., BMC Genomics Sep 11;10(1):427. file

Kabani, S.; Waterfall, M., and Matthews, K.R. - Cell-cycle synchronisation of bloodstream forms of Tryanosoma brucei using Vybrant DyeCycle Violet-based sorting. Molecular & Biochemical Parasitology. Sep 1. file

Kapoor A, Slikas E, Simmonds P, Chieochansin T, Naeem A, Shaukat S, Alam MM, Sharif S, Angez M, Zaidi S, and Delwart E - A newly identified bocavirus species in human stool. J. Infect Dis. 199:196-200 file

Keele, B. F., Jones, J. H., Terio, K. A., Estes, J. D., Rudicell, R. S., Wilson, M. L., Li, Y., Learn, G. H., Beasley, T. M.,  Schumacher-Stankey, J., Wroblewski, E., Mosser, A., Raphael, J., Kamenya, S., Lonsdorf, E. V., Travis, D. A., Mlengeya, T., Kinsel, M. J., Else, J. G., Silvestri, G., Goodall, J., Sharp, P. M., Shaw, G. M., Pusey, A. E., Hahn, B. H. - Increased mortality and AIDS-like immunopathology in wild chimpanzees infected with SIVcpz – Nature 2009, 460, 515-519 file

Keightley PD, Trivedi U, Thomson M, Oliver F, Kumar S and Blaxter ML - Analysis of the genome sequences of three Drosophila melanogaster spontaneous mutation accumulation lines. Genome Res 2009, 19(7):1195-1201. file

Kosakovsky Pond SL, Posada D, Stawiski E, Chappey C, Poon AF, Hughes G, Fearnhill E, Gravenor MB, Leigh Brown AJ and Frost SD - An evolutionary model-based algorithm for accurate phylogenetic breakpoint mapping and subtype prediction in HIV-1, PLoS Comput Biol. 2009 Nov;5(11):e1000581. file

Kuiken C and Simmonds P - Nomenclature and numbering of the hepatitis C virus. Methods Mol. Biol. 510:33-53.:33-53 file
Labbé P, McTaggart SJ and Little TJ - An ancient immunity gene duplication in Daphnia magna: RNA expression and sequence analysis of two nitric oxide synthase genes, Dev Comp Immunol. 2009 Sep;33(9):1000-10. file

Labbé P and Little TJ - Prophenoloxidase in Daphnia magna: cDNA sequencing and expression in relation to resistance to parasitism. Developmental and Comparative Immunology 33: 674-680 file

Lazarro BP and Little TJ - Immunity in a variable world. Philosophical Transactions of the Royal Society 364: 15-26 file

Leitch EC, Harvala H, Robertson I, Ubillos I, Templeton K, and Simmonds P - Direct identification of human enterovirus serotypes in cerebrospinal fluid by amplification and sequencing of the VP1 region. J. Clin. Virol. 44:119-124 file

Lemey P, Rambaut A, Drummond AJ & Suchard MA - Bayesian Phylogeography Finds Its Roots. PLoS Comput Biol 5, e1000520. file
Lowder BV, Guinane CM, Zakour NLB, Weinert L, Conway-Morris A, Cartwright RA, Simpson AJ, Rambaut A, Nbel U, & Fitzgerald JR - Recent human to poultry host jump, adaptation, and pandemic spread of Staphylococcus aureus. PNAS 106, 19545-19550. file

Maizels, R. M., Pearce, E. J., Artis, D., Yazdanbakhsh, M. and Wynn, T. A. - Regulation of pathogenesis and immunity in helminth infections, J. Exp. Med., Sep 2009; doi:10.1084/jem.20091903 file

Maizels, R.M. - Exploring the immunology of parasitism: from surface antigens to the hygiene hypothesis. Parasitology 2009, 136: 1549-1564 doi: 10.1017/S0031182009006106  file

Maizels, R.M. - Parasite immunomodulation and polymorphisms of the immune system, Journal of Biology 2009, 8:62, file

Maizels, R.M., Pearce, E.J., Artis, D,  Yazdanbakhsh, M. and Wynn, T.A. -  Regulation of pathology and immunity in helminth infections. Journal of Experimental Medicine 206: 2059-2066 file

Maizels, RM and Weidermann, U - Immunoregulation by microbes and parasites in the control of allergy and autoimmunity - The Hygiene Hypothesis and Darwinian Medicine (PiIR) ed. G Rook, Birkhäuser Publishing, Basel Switzerland, Progress in Inflammation Research, 2009, 45-75, DOI: 10.1007/978-3-7643-8903-1_3  file

Man, N., Nicholls, N., Woolhouse, M., Lewis, R. and Villanueva, B. - Evaluating different PrP genotype selection strategies for expected severity of scrapie outbreaks and genetic progress in performance in commercial sheep. Preventive Veterinary Medicine 91: 161-171. file

Matthews, L., Reeve, R., Woolhouse, M.E.J., Chase-Topping, M., Mellor, D.J., Pearce, M.C., Allison, L.J., Gunn, G.J., Low, J.C. and Reid, S.W.J. - Exploiting strain diversity to expose transmission heterogeneities and predict the impact of targeting supershedding. Epidemics 1: 221-229. file

McSorley, H.J., Grainger, J.R., Harcus, Y.M., Murray, J., Nisbet, A., Knox, D. P. and Maizels, R.M. - daf-7-related TGF- β homologues from trichostrongyloid nematodes show contrasting life cycle expression patterns. Parasitology  (2010), 137: 159-171  doi: 10.1017/S0031182009990321, Published online by Cambridge University Press 28 Aug 2009 file

McTaggart SJ, Conlon C, Colbourne JK, Blaxter ML and Little TJ - The components of the Daphnia pulex immune system as revealed by complete genome sequencing, BMC Genomics. 2009 Apr 22;10:175. file

McTaggart SJ and Crease TJ. - Length variation in 18S rRNA expansion segment 43/e4 of Daphnia obtusa: ancient or recurring polymorphism., J Mol Evol. 2009 Aug;69(2):142-9. file

McWilliam Leitch C, Bendig JW, Cabrerizo M, Cardosa J, Hyypia T, Ivanova OE, Kelly A, Kroes ACM, Lukashev AN, Macadam A, McMinn P, Roivainen M, Trallero G, Evans DJ and Simmonds P - Transmission networks and population turnover of echovirus 30. J. Virol. 83:2109-2118 file

Mylonas KJ, Nair MG, Prieto-Lafuente L, Paape D and Allen JE - Alternatively activated macrophages elicited by helminth infection can be reprogrammed to enable microbial killing. J Immunol 2009 vol. 182 (5) pp. 3084-94 file

Natesan, S.K.A; Peacock, L; Leung, K.F.; Matthews, K.R.; Gibson, W. and Field, M.C - The rab-related proteins RabX1 and RabX2 may be involved in fly infectivity but not intracellular trafficking in trypanosomes. PLoS One file

Ninomiya, M., Takahashi M, Hoshino Y, Ichiyama K, Simmonds P, and Okamoto H - Analysis of the entire genomes of torque teno midi virus variants in chimpanzees: infrequent cross-species infection between humans and chimpanzees. J. Gen. Virol. 90:347-358 file

Nolte-'t Hoen EN, Buschow SI, Anderton SM, Stoorvogel W and Wauben MH. - Activated T cells recruit exosomes secreted by dendritic cells via LFA-1, Blood. 2009 Feb 26; 113(9):1977-81. Epub 2008 Dec 8. Erratum in: Blood. 2009 Sep 24;114(13):2851. PMID: 19064723 file

Nussey, D.H., Kruuk, L. E. B., Morris, A., Clements, M.N., Pemberton, J.M. and Clutton-Brock, T.H. – Inter- and Intrasexual Variation in Aging Patterns across Reproductive Traits in a Wild Red Deer Population, The American Naturalist 2009 174:3, 342-357, DOI: 10.1086/603615 file

Nussey, D.H., Pemberton, J.M., Pilkington, J.G. and Blount, J.D. - Life history correlates of oxidative damage in a free-living mammal population, Functional Ecology 2009,23, 809-817 doi: 10.1111/j.1365-2435.2009.01555. file

Obbard DJ, Gordon KHJ, Buck AH and Jiggins FM - The evolution of RNAi as a defence against viruses and transposable elements. PhilosophicalTransactions of the Royal Society Series B 364 99-115. file

Obbard DJ, Welch JJ, Kim K-W and Jiggins FM - Quantifying Adaptive Evolution in the Drosophila Immune System. PLoS Genetics 5(10): e1000698. file

Obbard DJ, Welch JJ and Little TJ - Inferring selection in the Anopheles gambiae species complex: an example from immune-related serine protease inhibitors. Malaria Journal 8:117. file

Ouédraogo, A. , Bousema, T. and Schneider, P.  - Substantial contribution of submicroscopical /Plasmodium falciparum /gametocyte carriage to the infectious reservoir in an area of seasonal transmission. 2009 PloS One 4 (12): e8410. file

Parkinson J and Blaxter M - Expressed sequence tags: an overview. Methods Mol Biol 2009, 533:1-12. file

Pattaradilokrata, S., Culleton, R. L., Cheesman, S. J. and Carter, R., - Gene encoding erythrocyte binding ligand linked to blood stage multiplication rate phenotype in Plasmodium yoelii yoelii PNAS 2009 106:7161-7166; published online before print 9/04/09 file

Pearce, M.C., Chase-Topping, M.E., McKendrick, I.J., Mellor, D.J., Locking, M.E., Allison, L., Ternent, H.E., Matthews, L., Knight, H.I., Smith, A.W., Synge, B.A., Reilly, W., Low, J.C., Reid, S.W.J., Gunn, G.J. and Woolhouse, M.E.J. - Temporal and spatial patterns of bovine Escherichia coli O157 prevalence and comparison of temporal changes to the phage type patterns of cattle shedding and human E. coli O157 infections in Scotland between 1998-2000 and 2002-2004. BMC Microbiology 9: 276 (13pp). file

Perona-Wright G, Jenkins SJ, O'Connor RA, Zienkiewicz D, McSorley HJ, Maizels RM, Anderton SM and MacDonald AS - A pivotal role for CD40-mediated IL-6 production by dendritic cells during IL-17 induction in vivo, J Immunol. 2009 Mar 1;182(5):2808-15.PMID: 19234175 file

Prendergast CT and Anderton SM - Immune cell entry to central nervous system-current understanding and prospective therapeutic targets, Endocr Metab Immune Disord Drug Targets. 2009 Dec;9(4):315-27. file

Prieto-Lafuente L, Gregory WF, Allen JE and Maizels RM - MIF homologues from a filarial nematode parasite synergize with IL-4 to induce alternative activation of host macrophages. Journal of Leukocyte Biology (2009) vol. 85 (5) pp. 844-54 file

Pybus OG and Rambaut A - Evolutionary analysis of the dynamics of viral infectious disease. Nature Reviews Genetics 10, 540-550. file

Reece S.E., Ramiro R.S. and Nussey D.H. - Plastic parasites: sophisticated strategies for survival and reproduction? Evolutionary Applications 2:1, 11-23 Online publication date: 1-Mar-2009 file

Rettig, L., McNeill, L., Sarner, N., Guillaume, P., Luescher, I., Tolaini, M., Kioussis, D. and Zamoyska, R. - An essential role for the stalk region of CD8 beta in the coreceptor function of CD8. J Immunol 182:121-129. file

Rowe JA, Claessensa A, Corrigana RA and Armana M - Molecular mechanisms of Plasmodium falciparum adhesion to human cells and therapeutic implications, Expert Reviews in Molecular Medicine, doi:10.1017/S1462399409001082; Vol. 11; e16; May 2009 file

Rowe JA, Opi DH and Williams TN - Blood groups and malaria: insights into pathogenesis and identification of targets for intervention. Current Opinion in Hematology, 2009, 16:480-487. file

Salmond, R., Emery, J.,  Okkenhaug, K. and Zamoyska, R. - MAPK, Phosphatidylinositol 3-Kinase, and Mammalian Target of Rapamycin Pathways Converge at the Level of Ribosomal Protein S6 Phosphorylation to Control Metabolic Signaling in CD8 T Cells . J. Immunol. 183:7388-7397. 2009 file

Salmond RJ, Filby A, Qureshi I, Caserta S, and Zamoyska R - T-cell receptor proximal signaling via the Src-family kinases, Lck and Fyn, influences T-cell activation, differentiation, and tolerance. Immunol Rev 228:9-22. file

Savill, N. J., Chadwick, W. and Reece, S. R. - Quantitative analysis of mechanisms that govern red blood cell age structure and dynamics during anaemia, PloS Comput. Biol, 5(6): e1000416. file

Schmid R and Blaxter M - EST processing: from trace to sequence. Methods Mol Biol 2009, 533:189-220. file

Schroeder J and Aebischer T - Recombinant outer membrane vesicles to augment antigen-specific live vaccine responses. Vaccine Vol 27, Issue 48, 12 November 2009,  6748-6754 doi:10.1016/j.vaccine.2009.08.106 file

Sharp C P, Norja P, Anthony I.C, Bell JE, and Simmonds P - Reactivation and mutation of newly discovered WU, KI and Merkel cell carcinoma polyomaviruses in immunosuppressed individuals. J. Infect. Dis. 199:398-404 file
Sharp, C. P., Lail A, Donfield S, Simmons R, Leen C, Klenerman P, Delwart E, Gomperts ED and Simmonds P - High frequencies of exposure to the novel human parvovirus, PARV4 in haemophiliacs and injecting drug users detected by a serological assay for PARV4 antibodies. J. Infect Dis. 200(7):1119-25 file

Smargiasso, N., Gabelica, V., Damblon, C., Rosu, F., De Pauw, E., Teulade-Fichou, M.-P., Rowe, J. A, and Claessens, A. - Putative DNA G-quadruplex formation within the promoters of Plasmodium falciparum var genes, 2009, 10.1186/1471-2164-10-362, 362 BMC Genomics, 10, 1471-2164 file

Smith GJD, Vijaykrishna D, Bahl J, Lycett SJ, Worobey M, Pybus OG, Ma SK, Cheung CL, Raghwani J, Bhatt S, Peiris JSM, Guan Y and Rambaut A - Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic. Nature 459, 1122-1125. file

Smith, H., Holland, C., Taylor, M., Magnaval, J.-F., Schantz, P. and Maizels, R.M. - How common is human toxocariasis? Towards standardising our knowledge. Trends in Parasitology 25: 182-188 file

Smith, K.F., Acevedo-Whitehouse, K. and Pedersen, A.B. - The role of infectious diseases in contemporary and future wildlife extinctions. Animal Conservation 12; 1-12. file

Sorrell, I., White, A., Pedersen, A.B., Hails, R. & Boots, M. - The evolution of covert, silent  infection as a parasite strategy. Proceedings of the Royal Society London.2009 B 276: 2217-2216. file

Sponaas AM, Freitas do Rosario AP, Voisine C, Mastelic B, Thompson J, Koernig S, Jarra W, Renia L, Mauduit M, Potocnik AJ and Langhorne J - Migrating monocytes recruited to the spleen play an important role in control of blood stage malaria. Blood. 2009 Dec 24;114(27):5522-31. file

Stephens LA, Malpass KH and Anderton SM - Curing CNS autoimmune disease with myelin-reactive Foxp3+ Treg, Eur J Immunol. 2009 Apr;39(4):1108-17.PMID: 19350586 file

Suchard MA and Rambaut A - Many-Core Algorithms for Statistical Phylogenetics.   Bioinformatics (2009) 25 (11): 1370-1376. doi: 10.1093/bioinformatics/btp244 file

Sutherland, T., Maizels, R.M. and Allen, J.E. - Chitinases and chitinase-like proteins: potential therapeutic targets for treatment of Th2 allergies. Clinical and Experimental Allergy 39 : 943-955 file
Takahama Y, Saito T, Kawamoto H, Itoi M, Boyd RL, Chidgey A, Zamoyska R, Holländer GA, Anderson G, Taylor N, Petrie HT, Nikolich-Zugich J. - The Global Thymus Network: past, present and future, Trends Immunol. 30(5):191-2. file

Takehisa, J., Kraus, M. H., Ayouba, A., Bailes, E., Van Heuverswyn, F., Decker, J. M., Li, Y., Rudicell, R. S., Learn, G. H., Neel, C., Mpoudi Ngole, E., Shaw, G. M., Peeters, M., Sharp, P. M. and Hahn B. H.  - Origin and Biology of Simian Immunodeficiency Virus in Wild-Living Western Gorillas, Journal of Virology, Feb. 2009, p. 1635-1648 Vol. 83, No. 4, 0022-538X/09/$08.000 doi:10.1128/JVI.02311-08 file

Taylor, M.D., van der Werf, N., Harris, A., Graham, A.L., Bain, O., Allen, J.E. and Maizels, R.M. - Early recruitment of natural CD4+Foxp3+ regulatory T cells by infective larvae determines the outcome of filarial infection. EJoI 39: 192-206 file

Tildesley, M.J. and Keeling, M.J - Is R0 a good predictor of final epidemic size: Foot-and-mouth disease in the UK, Journal of Theoretical Biology, Volume 258, Issue 4, 21 June 2009, Pages 623-629, ISSN 0022-5193, DOI: 10.1016/j.jtbi.2009.02.019. file

Tildesley, M.J., Bessell, P.R., Keeling, M.J. and Woolhouse, M.E.J. - The role of pre-emptive culling in the control of foot-and-mouth diseases. Proceedings of the Royal Society of London, Series B 276: 3239-3248. file

Tree, J. J., Wang, D., McInally, C., Mahajan, A., Layton, A., Houghton, I., Elofsson, M., Stevens, M. P., Gally, D. L. and Roe, A. J. - Characterisation of the effects of salicylidene acylhydrazide compounds on type three secretion in Escherichia coli O157:H7 Infect. Immun. 2009 0: IAI.00562-09 file

Tree, J.J., Wolfson, E. B. , Wang, D., Roe, A. J. and Gally, D. L. - Controlling injection: regulation of type III secretion in enterohaemorrhagic Escherichia coli. Trends in Microbiology Review 2009 file

Vale P and Little TJ - Measuring parasite fitness under genetic and thermal variation. Heredity 103: 102-109 file
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Vizoso Pinto, M., Villegas, J., Peter, J., Haase, R., Haas, J., Lotz, A.S., Muntau, A.C. and Baiker, A. - LuMPIS - a modified LUMIER pull-down assay for the investigation of protein-protein interactions encoded by GC-low open reading frames (ORFs). Proteomics 9:5303-8. 2009 file

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Waiswa C., Fèvre E. M., Nsadha Z., Sikasunge C. S. and Willingham, III A. L., - Porcine Cysticercosis in Southeast Uganda: Seroprevalence in Kamuli and Kaliro Districts, Journal of Parasitology Research, vol. 2009, Article ID 375493, 5 pages, 2009. doi:10.1155/2009/375493 file

Wallace AE, Sales KJ, Catalano RD, Anderson RA, Williams ARW, Wilson MR, Schwarze J, Wang H, Rossi AG, and Jabbour HN - Prostaglandin F2A-F-Prostanoid Receptor Signaling Promotes Neutrophil Chemotaxis via Chemokine (C-X-C Motif) Ligand 1 in Endometrial Adenocarcinoma. Cancer Res 2009; 69: 5726-5733. file
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Wilson, A.J. and Nussey, D.H. - What is individual quality? An evolutionary perspective, Trends in Ecology and Evolution 2009 Vol.25 No.4; 207-214 file
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Wisdom, A., Kutkowska, A. , McWilliam-Leitch, E. C. , Gaunt, E. , Templeton, K. , Harvala, H. and Simmonds, P. - Genetics, Recombination and Clinical Features of Human Rhinovirus Species C (HRV-C) Infections; Interactions of HRV-C with Other Respiratory Viruses. PLoS. ONE. 4:e8518. 2009 file

Wisdom, A., McWilliam Leitch C, Gaunt E, Harvala H, and Simmonds P - Screening respiratory samples for human rhinoviruses (HRV) and enteroviruses: comprehensive VP4/2-typing reveals high incidence and genetic diversity of HRV species C. J. Clin. Microbiol. 47:3958-3967. 2009 file

Woolhouse, M. - The discovery and emergence of novel human pathogens. Culture 30: 9-12 file

Wu, L., Fossum, E., Joo, C.H., Lee K., Shin, Y.C., Johannsen, E., Hutt-Fletcher, L.M., Haas, J. and Jung, J.U. - Epstein-Barr virus LF2: An antagonist to type I interferon. 2009 J Virol. 83:1140-6.2009 file

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