List of Publications 2016

Al-Hamidhi S, Weir W, Kinnaird J, Tageledin M, Beja-Pereira A, Morrison I, Thompson J, Tait A, Shiels B, Babiker HA. - Theileria lestoquardi displays reduced genetic diversity relative to sympatric Theileria annulata in Oman. Infect Genet Evol. 2016 Sep;43:297-306. file

Allen JE - Microbiota, parasites and immunity. Parasite Immunol. 2016 Jan;38(1):3-4. file

Amanfo SA, Mduluza T, Midzi N, Cavanagh DR, Mutapi F - Seroepidemiology of Plasmodium species infections in Zimbabwean population. Malar J. 2016 May 10;15(1):267. file

Anastasi E, MacArthur I, Scortti M, Alvarez S, Giguère S, Vázquez-Boland JA. - Pangenome and Phylogenomic Analysis of the Pathogenic Actinobacterium Rhodococcus equi. Genome Biol Evol. 2016 Oct 23;8(10):3140-3148. file

Anh PH, Van Cuong N, Son NT, Tue NT, Kosoy M, Woolhouse ME, Baker S, Bryant JE, Thwaites G, Carrique-Mas JJ, Rabaa MA. - Diversity of Bartonella spp. in Bats, Southern Vietnam. Emerg Infect Dis. 2015 Jul;21(7):1266-7. file

Antwi EB, Haanstra JR, Ramasamy G, Jensen B, Droll D, Rojas F, Minia I, Terrao M, Mercé C, Matthews K, Myler PJ, Parsons M, Clayton C. - Integrative analysis of the Trypanosoma brucei gene expression cascade predicts differential regulation of mRNA processing and unusual control of ribosomal protein expression. BMC Genomics. 2016 Apr 26;17:306. file

Bahbahani H, Clifford H, Wragg D, Mbole-Kariuki MN, Van Tassell C, Sonstegard T, Woolhouse M, Hanotte O. - Signatures of positive selection in East African Shorthorn Zebu: A genome-wide single nucleotide polymorphism analysis. Sci Rep. 2015 Jul 1;5:11729. file

Benoit RM, Ostermeier C, Geiser M, Li JS, Widmer H, Auer M. - Seamless Insert-Plasmid Assembly at High Efficiency and Low Cost. PLoS One. 2016 Apr 13;11(4):e0153158. file

Bielejec F, Baele G, Vrancken B, Suchard MA, Rambaut A, Lemey P. - SpreaD3: Interactive Visualization of Spatiotemporal History and Trait Evolutionary Processes. Mol Biol Evol. 2016 Aug;33(8):2167-9. file

Blackley DJ, Wiley MR, Ladner JT, Fallah M, Lo T, Gilbert ML, Gregory C, D'ambrozio J, Coulter S, Mate S, Balogun Z, Kugelman J, Nwachukwu W, Prieto K, Yeiah A, Amegashie F, Kearney B, Wisniewski M, Saindon J, Schroth G, Fakoli L, Diclaro JW, Kuhn JH, Hensley LE, Jahrling PB, Ströher U, Nichol ST, Massaquoi M, Kateh F, Clement P, Gasasira A, Bolay F, Monroe SS, Rambaut A, Sanchez-Lockhart M, Scott Laney A, Nyenswah T, Christie A, Palacios G. - Reduced evolutionary rate in reemerged Ebola virus transmission chains. Sci Adv. 2016 Apr 29;2(4):e1600378. file

Blaxter M. - Imagining Sisyphus happy: DNA barcoding and the unnamed majority. Philos Trans R Soc Lond B Biol Sci. 2016 Sep 5;371(1702). file

Bourhy H, Nakouné E, Hall M, Nouvellet P, Lepelletier A, Talbi C, Watier L, Holmes EC, Cauchemez S, Lemey P, Donnelly CA, Rambaut A - Revealing the Micro-scale Signature of Endemic Zoonotic Disease Transmission in an African Urban Setting. PLoS Pathog. 2016 Apr 8;12(4):e1005525. file

Brown A, Halliday JS, Swadling L, Madden RG, Bendall R, Hunter JG, Maggs J, Simmonds P, Smith DB, Vine L, McLaughlin C, Collier J, Bonsall D, Jeffery K, Dunachie S, Klenerman P, Izopet J, Kamar N, Dalton HR, Barnes E. - Characterization of the Specificity, Functionality, and Durability of Host T-Cell Responses Against the Full-Length Hepatitis E Virus. Hepatology. 2016 Dec;64(6):1934-1950. file

Buckner MM, Blair JM, La Ragione RM, Newcombe J, Dwyer DJ, Ivens A, Piddock LJ. - Beyond Antimicrobial Resistance: Evidence for a Distinct Role of the AcrD Efflux Pump in Salmonella Biology. MBio. 2016 Nov 22;7(6). file

Burn GL, Cornish GH, Potrzebowska K, Samuelsson M, Griffié J, Minoughan S, Yates M, Ashdown G, Pernodet N, Morrison VL, Sanchez-Blanco C, Purvis H, Clarke F, Brownlie RJ, Vyse TJ, Zamoyska R, Owen DM, Svensson LM, Cope AP. - Superresolution imaging of the cytoplasmic phosphatase PTPN22 links integrin-mediated T cell adhesion with autoimmunity. Sci Signal. 2016 Oct 4;9(448):ra99. file

Callaby R, Toye P, Jennings A, Thumbi SM, Coetzer JA, Conradie Van Wyk IC, Hanotte O, Mbole-Kariuki MN, Bronsvoort BM, Kruuk LE, Woolhouse ME, Kiara H - Seroprevalence of respiratory viral pathogens of indigenous calves in Western Kenya. Res Vet Sci. 2016 Oct;108:120-4. file

Campino S, Benavente ED, Assefa S, Thompson E, Drought LG, Taylor CJ, Gorvett Z, Carret CK, Flueck C, Ivens AC, Kwiatkowski DP, Alano P, Baker DA, Clark TG - Genomic variation in two gametocyte non-producing Plasmodium falciparum clonal lines. Malar J. 2016 Apr 21;15:229. file

Carter LM, Pollitt LC, Wilson LG, Reece SE - Ecological influences on the behaviour and fertility of malaria parasites. Malar J. 2016 Apr 18;15:220. file

Christensen LL, Selman C, Blount JD, Pilkington JG, Watt KA, Pemberton JM, Reid JM, Nussey DH. - Marker-dependent associations among oxidative stress, growth and survival during early life in a wild mammal. Proc Biol Sci. 2016 Oct 12;283(1840). file

Coakley G, Buck AH, Maizels RM. - Host parasite communications-Messages from helminths for the immune system: Parasite communication and cell-cell interactions. Mol Biochem Parasitol. 2016 Jul;208(1):33-40. file

Cuypers B, Lecordier L, Meehan CJ, Van den Broeck F, Imamura H, Büscher P, Dujardin JC, Laukens K, Schnaufer A, Dewar C, Lewis M, Balmer O, Azurago T, Kyei-Faried S, Ohene SA, Duah B, Homiah P, Mensah EK, Anleah F, Franco JR, Pays E, Deborggraeve S. - Apolipoprotein L1 Variant Associated with Increased Susceptibility to Trypanosome Infection. MBio. 2016 Apr 12;7(2):e02198-15. file

Diallo B, Sissoko D, Loman NJ, Bah HA, Bah H, Worrell MC, Conde LS, Sacko R, Mesfin S, Loua A, Kalonda JK, Erondu NA, Dahl BA, Handrick S, Goodfellow I, Meredith LW, Cotten M, Jah U, Guetiya Wadoum RE, Rollin P, Magassouba N, Malvy D, Anglaret X, Carroll MW, Aylward RB, Djingarey MH, Diarra A, Formenty P, Keïta S, Günther S, Rambaut A, Duraffour S. - Resurgence of Ebola Virus Disease in Guinea Linked to a Survivor With Virus Persistence in Seminal Fluid for More Than 500 Days. Clin Infect Dis. 2016 Nov 15;63(10):1353-1356. file

Diehl WE, Lin AE, Grubaugh ND, Carvalho LM, Kim K, Kyawe PP, McCauley SM, Donnard E, Kucukural A, McDonel P, Schaffner SF, Garber M, Rambaut A, Andersen KG, Sabeti PC, Luban J. - Ebola Virus Glycoprotein with Increased Infectivity Dominated the 2013-2016 Epidemic. Cell. 2016 Nov 3;167(4):1088-1098.e6. file

Duffin R, O'Connor RA, Crittenden S, Forster T, Yu C, Zheng X, Smyth D, Robb CT, Rossi F, Skouras C, Tang S, Richards J, Pellicoro A, Weller RB, Breyer RM, Mole DJ, Iredale JP, Anderton SM, Narumiya S, Maizels RM, Ghazal P, Howie SE, Rossi AG, Yao C - Prostaglandin E₂ constrains systemic inflammation through an innate lymphoid cell-IL-22 axis. Science. 2016 Mar 18;351(6279):1333-8. file

Easton S, Bartley DJ, Hotchkiss E, Hodgkinson JE, Pinchbeck GL, Matthews JB. - Use of a multiple choice questionnaire to assess UK prescribing channels' knowledge of helminthology and best practice surrounding anthelmintic use in livestock and horses. Prev Vet Med. 2016 Jun 1;128:70-7. file

Eves-van den Akker S, Laetsch DR, Thorpe P, Lilley CJ, Danchin EG, Da Rocha M, Rancurel C, Holroyd NE, Cotton JA, Szitenberg A, Grenier E, Montarry J, Mimee B, Duceppe MO, Boyes I, Marvin JM, Jones LM, Yusup HB, Lafond-Lapalme J, Esquibet M, Sabeh M, Rott M, Overmars H, Finkers-Tomczak A, Smant G, Koutsovoulos G, Blok V, Mantelin S, Cock PJ, Phillips W, Henrissat B, Urwin PE, Blaxter M, Jones JT. - The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence. Genome Biol. 2016 Jun 10;17(1):124. file

Eze AA, Gould MK, Munday JC, Tagoe DN1, Stelmanis V, Schnaufer A, De Koning HP.- Reduced Mitochondrial Membrane Potential Is a Late Adaptation of Trypanosoma brucei brucei to Isometamidium Preceded by Mutations in the γ Subunit of the F1Fo-ATPase. PLoS Negl Trop Dis. 2016 Aug 12;10(8):e0004791. file

Fairlamb AH, Gow NA, Matthews KR, Waters AP. - Drug resistance in eukaryotic microorganisms. Nat Microbiol. 2016 Jun 24;1(7):16092. file

Fairlie J, Holland R, Pilkington JG, Pemberton JM, Harrington L, Nussey DH. - Lifelong leukocyte telomere dynamics and survival in a free-living mammal. Aging Cell. 2016 Feb;15(1):140-8. file

Gerbe F, Sidot E, Smyth DJ, Ohmoto M, Matsumoto I, Dardalhon V, Cesses P, Garnier L, Pouzolles M, Brulin B, Bruschi M, Harcus Y, Zimmermann VS, Taylor N, Maizels RM, Jay P. - Intestinal epithelial tuft cells initiate type 2 mucosal immunity to helminth parasites. Nature. 2016 Jan 14;529(7585):226-30. file

Gibbons CL, van Bunnik BA, Blatchford O, Robertson C, Porphyre T, Imrie L, Wilson J, Fitzgerald JR, Woolhouse ME, Chase-Topping ME. - Not just a matter of size: a hospital-level risk factor analysis of MRSA bacteraemia in Scotland. BMC Infect Dis. 2016 May 21;16:222. file

Goplen NP, Saxena V, Knudson KM, Schrum AG, Gil D, Daniels MA, Zamoyska R, Teixeiro E. - IL-12 Signals through the TCR To Support CD8 Innate Immune Responses. J Immunol. 2016 Sep 15;197(6):2434-43. file

Graham AL, Nussey DH, Lloyd-Smith JO, Longbottom D, Maley M, Pemberton JM, Pilkington JG, Prager KC, Smith L, Watt KA, Wilson K, McNeilly TN, Brülisauer F. - Exposure to viral and bacterial pathogens among Soay sheep (Ovis aries) of the St Kilda archipelago. Epidemiol Infect. 2016 Feb 1:1-10. file

Granroth-Wilding HM, Daunt F, Cunningham EJ, Burthe SJ. - Between-individual variation in nematode burden among juveniles in a wild host. Parasitology. 2016 Nov 22:1-11. file

Grewal JS, McLuskey K, Das D, Myburgh E, Wilkes J, Brown E, Lemgruber L, Gould MK, Burchmore RJ, Coombs GH, Schnaufer A, Mottram JC. - PNT1 Is a C11 Cysteine Peptidase Essential for Replication of the Trypanosome Kinetoplast. J Biol Chem. 2016 Apr 29;291(18):9492-500. file

Hall M, Woolhouse M, Rambaut A. - Epidemic Reconstruction in a Phylogenetics Framework: Transmission Trees as Partitions of the Node Set. PLoS Comput Biol. 2015 Dec 30;11(12):e1004613. file

Hall MD, Woolhouse ME, Rambaut A. - The effects of sampling strategy on the quality of reconstruction of viral population dynamics using Bayesian skyline family coalescent methods: A simulation study. Virus Evol. 2016 Mar 2;2(1):vew003. eCollection 2016. file

Hall MD, Woolhouse ME, Rambaut A. - Using genomics data to reconstruct transmission trees during disease outbreaks. Rev Sci Tech. 2016 Apr;35(1):287-96. file

Handel I, Watt KA, Pilkington JG, Pemberton JM, Macrae A, Scott P, McNeilly TN, Berry JL, Clements DN, Nussey DH, Mellanby RJ. - Vitamin D status predicts reproductive fitness in a wild sheep population. Sci Rep. 2016 Jan 13;6:18986. file

Harijan RK, Mazet M, Kiema TR, Bouyssou G, Alexson SE, Bergmann U, Moreau P, Michels PA, Bringaud F, Wierenga RK - The SCP2-thiolase-like protein (SLP) of Trypanosoma brucei is an enzyme involved in lipid metabolism. Proteins. 2016 Aug;84(8):1075-96. file

Hemmink JD, Morgan SB, Aramouni M, Everett H, Salguero FJ, Canini L, Porter E, Chase-Topping M, Beck K, Loughlin RM, Carr BV, Brown IH, Bailey M, Woolhouse M, Brookes SM, Charleston B, Tchilian E. - Distinct immune responses and virus shedding in pigs following aerosol, intra-nasal and contact infection with pandemic swine influenza A virus, A(H1N1)09. Vet Res. 2016 Oct 20;47(1):103. file

Hewitson JP, Nguyen DL, van Diepen A, Smit CH, Koeleman CA, McSorley HJ, Murray J, Maizels RM, Hokke CH. - Novel O-linked methylated glycan antigens decorate secreted immunodominant glycoproteins from the intestinal nematode Heligmosomoides polygyrus. Int J Parasitol. 2016 Mar;46(3):157-70. file

Holmes EC, Dudas G, Rambaut A, Andersen KG. - The evolution of Ebola virus: Insights from the 2013-2016 epidemic. Nature. 2016 Oct 12;538(7624):193-200. file

Johnston CJ, Smyth DJ, Dresser DW, Maizels RM. - TGF-ß in tolerance, development and regulation of immunity. Cell Immunol. 2016 Jan;299:14-22. file

Koutsovoulos G, Kumar S, Laetsch DR, Stevens L, Daub J, Conlon C, Maroon H, Thomas F, Aboobaker AA, Blaxter M - No evidence for extensive horizontal gene transfer in the genome of the tardigrade Hypsibius dujardini. Proc Natl Acad Sci U S A. 2016 May 3;113(18):5053-8. file

Küpper C, Stocks M, Risse JE, Dos Remedios N, Farrell LL, McRae SB, Morgan TC, Karlionova N, Pinchuk P, Verkuil YI, Kitaysky AS, Wingfield JC, Piersma T, Zeng K, Slate J, Blaxter M, Lank DB, Burke T. - A supergene determines highly divergent male reproductive morphs in the ruff. Nat Genet. 2016 Jan;48(1):79-83. file

Laxminarayan R, Amábile-Cuevas CF, Cars O, Evans T, Heymann DL, Hoffman S, Holmes A, Mendelson M, Sridhar D, Woolhouse M, Røttingen JA. - UN High-Level Meeting on antimicrobials--what do we need? Lancet. 2016 Jul 16;388(10041):218-20. file

Laxminarayan R, Sridhar D, Blaser M, Wang M, Woolhouse M. - Achieving global targets for antimicrobial resistance. Science. 2016 Aug 26;353(6302):874-5. file

Lewis SH, Webster CL, Salmela H, Obbard DJ. - Repeated Duplication of Argonaute2 Is Associated with Strong Selection and Testis Specialization in Drosophila. Genetics. 2016 Oct;204(2):757-769. file

Little TJ, Colegrave N. - Caging and Uncaging Genetics. PLoS Biol. 2016 Jul 26;14(7):e1002525. file

Liu W, Sundararaman SA, Loy DE, Learn GH, Li Y, Plenderleith LJ, Ndjango JB, Speede S, Atencia R, Cox D, Shaw GM, Ayouba A, Peeters M, Rayner JC, Hahn BH, Sharp PM. - Multigenomic Delineation of Plasmodium Species of the Laverania Subgenus Infecting Wild-Living Chimpanzees and Gorillas. Genome Biol Evol. 2016 Jul 2;8(6):1929-39. file

Loy DE, Liu W, Li Y, Learn GH, Plenderleith LJ, Sundararaman SA, Sharp PM, Hahn BH. - Out of Africa: origins and evolution of the human malaria parasites Plasmodium falciparum and Plasmodium vivax. Int J Parasitol. 2016 Jul 2. file

Lozano-Fernandez J, Carton R, Tanner AR, Puttick MN, Blaxter M, Vinther J, Olesen J, Giribet G, Edgecombe GD, Pisani D. - A molecular palaeobiological exploration of arthropod terrestrialization. Philos Trans R Soc Lond B Biol Sci. 2016 Jul 19;371(1699). file

Lu L, Van Dung N, Bryant JE, Carrique-Mas J, Van Cuong N, Anh PH, Rabaa MA, Baker S, Simmonds P, Woolhouse ME. - Evolution and phylogeographic dissemination of endemic porcine picornaviruses in Vietnam. Virus Evol. 2016 Feb 18;2(1):vew001. eCollection 2016. file

Mainda G, Bessell PR, Muma JB, McAteer SP, Chase-Topping ME, Gibbons J, Stevens MP, Gally DL, deC Bronsvoort BM. - Prevalence and patterns of antimicrobial resistance among Escherichia coli isolated from Zambian dairy cattle across different production systems. Sci Rep. 2015 Jul 27;5:12439. file

Mainda G, Lupolova N, Sikakwa L, Bessell PR, Muma JB, Hoyle DV, McAteer SP, Gibbs K, Williams NJ, Sheppard SK, La Ragione RM, Cordoni G, Argyle SA, Wagner S, Chase-Topping ME, Dallman TJ, Stevens MP, Bronsvoort BM, Gally DL. - Phylogenomic approaches to determine the zoonotic potential of Shiga toxin-producing Escherichia coli (STEC) isolated from Zambian dairy cattle. Sci Rep. 2016 May 25;6:26589. file

McGrann GR, Andongabo A, Sjökvist E, Trivedi U, Dussart F, Kaczmarek M, Mackenzie A, Fountaine JM, Taylor JM, Paterson LJ, Gorniak K, Burnett F, Kanyuka K, Hammond-Kosack KE, Rudd JJ, Blaxter M, Havis ND. - The genome of the emerging barley pathogen Ramularia collo-cygni. BMC Genomics. 2016 Aug 9;17:584. file

McNally L, Brown SP. - Microbiome: Ecology of stable gut communities. Nat Microbiol. 2016 Jan 11;1:15016. file

Mena I, Nelson MI, Quezada-Monroy F, Dutta J, Cortes-Fernández R, Lara-Puente JH, Castro-Peralta F, Cunha LF, Trovão NS, Lozano-Dubernard B, Rambaut A, van Bakel H, García-Sastre A. - Origins of the 2009 H1N1 influenza pandemic in swine in Mexico. Elife. 2016 Jun 28;5. file

Miesen P, Ivens A, Buck AH, van Rij RP. - Small RNA Profiling in Dengue Virus 2-Infected Aedes Mosquito Cells Reveals Viral piRNAs and Novel Host miRNAs. PLoS Negl Trop Dis. 2016 Feb 25;10(2):e0004452. file

Minutti CM, Knipper JA, Allen JE, Zaiss DM. - Tissue-specific contribution of macrophages to wound healing. Semin Cell Dev Biol. 2016 Aug 10. file

Moorad JA, Nussey DH. - Evolution of maternal effect senescence. Proc Natl Acad Sci U S A. 2016 Jan 12;113(2):362-7. file

Murray GG, Wang F, Harrison EM, Paterson GK, Mather AE, Harris SR, Holmes MA, Rambaut A, Welch JJ. - The effect of genetic structure on molecular dating and tests for temporal signal. Methods Ecol Evol. 2016 Jan;7(1):80-89. file

Mutapi F. - Getting a GRiPP on everyday schistosomiasis: experience from Zimbabwe. Parasitology. 2016 Oct 12:1-9. file

Nickbakhsh S, Hall MD, Dorigatti I, Lycett SJ, Mulatti P, Monne I, Fusaro A, Woolhouse ME, Rambaut A, Kao RR. - Modelling the impact of co-circulating low pathogenic avian influenza viruses on epidemics of highly pathogenic avian influenza in poultry. Epidemics. 2016 Oct 19;17:27-34. file

Nisbet AJ, McNeilly TN, Greer AW, Bartley Y, Oliver EM, Smith S, Palarea-Albaladejo J, Matthews JB. - Protection of ewes against Teladorsagia circumcincta infection in the periparturient period by vaccination with recombinant antigens. Vet Parasitol. 2016 Sep 15;228:130-136. file

Nowell RW, Laue BE, Sharp PM, Green S. - Comparative genomics reveals genes significantly associated with woody hosts in the plant pathogen Pseudomonas syringae. Mol Plant Pathol. 2016 Dec;17(9):1409-1424. file

Orsini L, Gilbert D, Podicheti R, Jansen M, Brown JB, Solari OS, Spanier KI, Colbourne JK, Rush D, Decaestecker E, Asselman J, De Schamphelaere KA, Ebert D, Haag CR, Kvist J, Laforsch C, Petrusek A, Beckerman AP, Little TJ, Chaturvedi A, Pfrender ME, De Meester L, Frilander MJ. - Daphnia magna transcriptome by RNA-Seq across 12 environmental stressors. Sci Data. 2016 May 10;3:160030. file

Palmer WH, Obbard DJ. - Variation and Evolution in the Glutamine-Rich Repeat Region of Drosophila Argonaute-2. G3 (Bethesda). 2016 Aug 9;6(8):2563-72. file

Peachey LE, Pinchbeck GL, Matthews JB, Burden FA, Behnke JM, Hodgkinson JE. - Papaya latex supernatant has a potent effect on the free-living stages of equid cyathostomins in vitro. Vet Parasitol. 2016 Sep 15;228:23-29. file

Pittini Á, Casaravilla C, Allen JE, Díaz Á. - Pharmacological inhibition of PI3K class III enhances the production of pro- and anti-inflammatory cytokines in dendritic cells stimulated by TLR agonists. Int Immunopharmacol. 2016 Jul;36:213-7. file

Porphyre T, Boden LA, Correia-Gomes C, Auty HK, Gunn GJ, Woolhouse ME. - Using national movement databases to help inform responses to swine disease outbreaks in Scotland: the impact of uncertainty around incursion time. Sci Rep. 2016 Feb 1;6:20258. file

Quintana JF, Babayan SA, Buck AH. - Small RNAs and extracellular vesicles in filarial nematodes: from nematode development to diagnostics. Parasite Immunol. 2016 Oct 17. file

Ragonnet-Cronin M, Lycett SJ, Hodcroft EB, Hué S, Fearnhill E, Brown AE, Delpech V, Dunn D, Leigh Brown AJ; United Kingdom HIV Drug Resistance Database. - Transmission of Non-B HIV Subtypes in the United Kingdom Is Increasingly Driven by Large Non-Heterosexual Transmission Clusters. J Infect Dis. 2016 May 1;213(9):1410-8. file

Rambaut A, Dudas G, de Carvalho LM, Park DJ, Yozwiak NL, Holmes EC, Andersen KG. - Comment on "Mutation rate and genotype variation of Ebola virus from Mali case sequences". Science. 2016 Aug 12;353(6300):658. file

Rambaut A, Lam TT, Max Carvalho L, Pybus OG. - Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen). Virus Evol. 2016 Apr 9;2(1):vew007. eCollection 2016. file

Ramiro RS, Khan SM, Franke-Fayard B, Janse CJ, Obbard DJ, Reece SE. - Hybridization and pre-zygotic reproductive barriers in Plasmodium. Proc Biol Sci. 2015 May 7;282(1806):20143027. file

Ramiro RS, Pollitt LC, Mideo N, Reece SE. - Facilitation through altered resource availability in a mixed-species rodent malaria infection. Ecol Lett. 2016 Sep;19(9):1041-50. file

Richmond GE, Evans LP, Anderson MJ, Wand ME, Bonney LC, Ivens A, Chua KL, Webber MA, Sutton JM, Peterson ML, Piddock LJ. - The Acinetobacter baumannii Two-Component System AdeRS Regulates Genes Required for Multidrug Efflux, Biofilm Formation, and Virulence in a Strain-Specific Manner. MBio. 2016 Apr 19;7(2):e00430-16. file

Robinson TP, Bu DP, Carrique-Mas J, Fèvre EM, Gilbert M, Grace D, Hay SI, Jiwakanon J, Kakkar M, Kariuki S, Laxminarayan R, Lubroth J, Magnusson U, Thi Ngoc P, Van Boeckel TP, Woolhouse ME. - Antibiotic resistance is the quintessential One Health issue. Trans R Soc Trop Med Hyg. 2016 Jul;110(7):377-80. file

Rund SS, O'Donnell AJ, Gentile JE, Reece SE - Daily Rhythms in Mosquitoes and Their Consequences for Malaria Transmission. Insects. 2016 Apr 14;7(2). pii: E14. file

Rund SS, Yoo B, Alam C, Green T, Stephens MT, Zeng E, George GF, Sheppard AD, Duffield GE, Milenković T, Pfrender ME. - Genome-wide profiling of 24 hr diel rhythmicity in the water flea, Daphnia pulex: network analysis reveals rhythmic gene expression and enhances functional gene annotation. BMC Genomics. 2016 Aug 18;17:653. file

Seeker LA, Holland R, Underwood S, Fairlie J, Psifidi A, Ilska JJ, Bagnall A, Whitelaw B, Coffey M, Banos G, Nussey DH. - Method Specific Calibration Corrects for DNA Extraction Method Effects on Relative Telomere Length Measurements by Quantitative PCR. PLoS One. 2016 Oct 10;11(10):e0164046. file

Simbari F, McCaskill J, Coakley G, Millar M, Maizels RM, Fabriás G, Casas J, Buck AH. - Plasmalogen enrichment in exosomes secreted by a nematode parasite versus those derived from its mouse host: implications for exosome stability and biology. J Extracell Vesicles. 2016 Jul 5;5:30741. file

Smith DB, Becher P, Bukh J, Gould EA, Meyers G, Monath T, Muerhoff AS, Pletnev A, Rico-Hesse R, Stapleton JT, Simmonds P. - Proposed update to the taxonomy of the genera Hepacivirus and Pegivirus within the Flaviviridae family. J Gen Virol. 2016 Nov;97(11):2894-2907. file

Smith DB, Gaunt ER, Digard P, Templeton K, Simmonds P. - Detection of influenza C virus but not influenza D virus in Scottish respiratory samples. J Clin Virol. 2016 Jan;74:50-3. file

Smith DB, Ijaz S, Tedder RS, Hogema B, Zaaijer HL, Izopet J, Bradley-Stewart A, Gunson R, Harvala H, Kokki I, Simmonds P. - Variability and pathogenicity of hepatitis E virus genotype 3 variants. J Gen Virol. 2015 Nov;96(11):3255-64. file

Smith DB, Simmonds P, Izopet J, Oliveira-Filho EF, Ulrich RG, Johne R, Koenig M, Jameel S, Harrison TJ, Meng XJ, Okamoto H, Van der Poel WH, Purdy MA. - Proposed reference sequences for hepatitis E virus subtypes. J Gen Virol. 2016 Mar;97(3):537-42. file

Stacy A, McNally L, Darch SE, Brown SP, Whiteley M. - The biogeography of polymicrobial infection. Nat Rev Microbiol. 2016 Feb;14(2):93-105. file

Sundararaman SA, Plenderleith LJ, Liu W, Loy DE, Learn GH, Li Y, Shaw KS, Ayouba A, Peeters M, Speede S, Shaw GM, Bushman FD, Brisson D, Rayner JC, Sharp PM, Hahn BH - Genomes of cryptic chimpanzee Plasmodium species reveal key evolutionary events leading to human malaria. Nat Commun. 2016 Mar 22;7:11078. file

Surve SV, Jensen BC, Heestand M, Mazet M, Smith TK, Bringaud F, Parsons M, Schnaufer A. - NADH dehydrogenase of Trypanosoma brucei is important for efficient acetate production in bloodstream forms. Mol Biochem Parasitol. 2016 Oct 4. file

Tostevin A, White E, Dunn D, Croxford S, Delpech V, Williams I, Asboe D, Pozniak A, Churchill D, Geretti AM, Pillay D, Sabin C, Leigh-Brown A, Smit E; UK HIV Drug Resistance Database. - Recent trends and patterns in HIV-1 transmitted drug resistance in the United Kingdom. HIV Med. 2016 Aug 1. file

Trainor-Moss S, Mutapi F. - Schistosomiasis therapeutics: whats in the pipeline? Expert Rev Clin Pharmacol. 2016;9(2):157-60. file

Trikin R, Doiron N, Hoffmann A, Haenni B, Jakob M, Schnaufer A, Schimanski B, Zuber B, Ochsenreiter T. - TAC102 Is a Novel Component of the Mitochondrial Genome Segregation Machinery in Trypanosomes. PLoS Pathog. 2016 May 11;12(5):e1005586. file

Tzelos T, Matthews JB, Buck AH, Simbari F, Frew D, Inglis NF, McLean K, Nisbet AJ, Whitelaw CB, Knox DP, McNeilly TN. - A preliminary proteomic characterisation of extracellular vesicles released by the ovine parasitic nematode, Teladorsagia circumcincta. Vet Parasitol. 2016 May 15;221:84-92. file

Vale PF, Jardine MD. - Infection avoidance behavior: Viral exposure reduces the motivation to forage in female Drosophila melanogaster. Fly (Austin). 2016 Jun 30:1-7. file

Vale PF, McNally L, Doeschl-Wilson A, King KC, Popat R, Domingo-Sananes MR, Allen JE, Soares MP, Kümmerli R. - Beyond killing: Can we find new ways to manage infection? Evol Med Public Health. 2016 Apr 18;2016(1):148-57. file

van Bunnik BA, Ciccolini M, Gibbons CL, Edwards G, Fitzgerald R, McAdam PR, Ward MJ, Laurenson IF, Woolhouse ME. - Efficient national surveillance for health-care-associated infections. BMC Public Health. 2015 Aug 28;15:832. file

Van Dung N, Anh PH, Van Cuong N, Hoa NT, Carrique-Mas J, Hien VB, Sharp C, Rabaa M, Berto A, Campbell J, Baker S, Farrar J, Woolhouse ME, Bryant JE, Simmonds P. - Large-scale screening and characterization of enteroviruses and kobuviruses infecting pigs in Vietnam. J Gen Virol. 2016 Feb;97(2):378-88. file

Vermeren S, Miles K, Chu JY, Salter D, Zamoyska R, Gray M. - PTPN22 Is a Critical Regulator of Fcγ Receptor-Mediated Neutrophil Activation. J Immunol. 2016 Dec 15;197(12):4771-4779. file

Wami WM, Nausch N, Midzi N, Gwisai R, Mduluza T, Woolhouse ME, Mutapi F. - Comparative Assessment of Health Benefits of Praziquantel Treatment of Urogenital Schistosomiasis in Preschool and Primary School-Aged Children. Biomed Res Int. 2016;2016:9162631. file

Ward MJ, Goncheva M, Richardson E, McAdam PR, Raftis E, Kearns A, Daum RS, David MZ, Lauderdale TL, Edwards GF, Nimmo GR, Coombs GW, Huijsdens X, Woolhouse ME, Fitzgerald JR. - Identification of source and sink populations for the emergence and global spread of the East-Asia clone of community-associated MRSA. Genome Biol. 2016 Jul 26;17(1):160. file

Webster CL, Longdon B, Lewis SH, Obbard DJ. - Twenty-Five New Viruses Associated with the Drosophilidae (Diptera). Evol Bioinform Online. 2016 Jun 20;12(Suppl 2):13-25. file

Widder S, Allen RJ, Pfeiffer T, Curtis TP, Wiuf C, Sloan WT, Cordero OX, Brown SP, Momeni B, Shou W1, Kettle H, Flint HJ, Haas AF, Laroche B, Kreft JU, Rainey PB, Freilich S, Schuster S, Milferstedt K, van der Meer JR, Groβkopf T, Huisman J, Free A, Picioreanu C, Quince C, Klapper I, Labarthe S, Smets BF, Wang H; Isaac Newton Institute Fellows, Soyer OS. - Challenges in microbial ecology: building predictive understanding of community function and dynamics. ISME J. 2016 Nov;10(11):2557-2568. file

Wijayanti SP, Porphyre T, Chase-Topping M, Rainey SM, McFarlane M, Schnettler E, Biek R, Kohl A - The Importance of Socio-Economic Versus Environmental Risk Factors for Reported Dengue Cases in Java, Indonesia. PLoS Negl Trop Dis. 2016 Sep 7;10(9):e0004964. file

Withenshaw SM, Devevey G, Pedersen AB, Fenton A. - Multihost Bartonella parasites display covert host specificity even when transmitted by generalist vectors. J Anim Ecol. 2016 Nov;85(6):1442-1452. file

Woolhouse M, Waugh C, Perry MR, Nair H. - Global disease burden due to antibiotic resistance - state of the evidence. J Glob Health. 2016 Jun;6(1):010306. file

Yebra G, Kalish ML, Leigh Brown AJ. - Reconstructing the HIV-1 CRF02_AG and CRF06_cpx epidemics in Burkina Faso and West Africa using early samples. Infect Genet Evol. 2016 Dec;46:209-218. file

Zimmermann S, Hall L, Riley S, Sørensen J, Amaro RE, Schnaufer A. - A novel high-throughput activity assay for the Trypanosoma brucei editosome enzyme REL1 and other RNA ligases. Nucleic Acids Res. 2016 Feb 18;44(3):e24. file