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Items: 1 to 50 of 216

1.

Progression of the canonical reference malaria parasite genome from 2002-2019.

Böhme U, Otto TD, Sanders M, Newbold CI, Berriman M.

Version 2. Wellcome Open Res. 2019 May 28 [revised 2019 Jan 1];4:58. doi: 10.12688/wellcomeopenres.15194.2. eCollection 2019.

2.

Population genomic and evolutionary modelling analyses reveal a single major QTL for ivermectin drug resistance in the pathogenic nematode, Haemonchus contortus.

Doyle SR, Illingworth CJR, Laing R, Bartley DJ, Redman E, Martinelli A, Holroyd N, Morrison AA, Rezansoff A, Tracey A, Devaney E, Berriman M, Sargison N, Cotton JA, Gilleard JS.

BMC Genomics. 2019 Mar 15;20(1):218. doi: 10.1186/s12864-019-5592-6.

3.

Repeated clinical malaria episodes are associated with modification of the immune system in children.

Bediako Y, Adams R, Reid AJ, Valletta JJ, Ndungu FM, Sodenkamp J, Mwacharo J, Ngoi JM, Kimani D, Kai O, Wambua J, Nyangweso G, de Villiers EP, Sanders M, Lotkowska ME, Lin JW, Manni S, Addy JWG, Recker M, Newbold C, Berriman M, Bejon P, Marsh K, Langhorne J.

BMC Med. 2019 Mar 13;17(1):60. doi: 10.1186/s12916-019-1292-y.

4.

An experimental human blood stage model for studying Plasmodium malariae infection.

Woodford J, Collins KA, Odedra A, Wang C, Kyung JI, Domingo GJ, Watts R, Marquart L, Berriman M, Otto TD, McCarthy JS.

J Infect Dis. 2019 Mar 10. pii: jiz102. doi: 10.1093/infdis/jiz102. [Epub ahead of print]

PMID:
30852586
5.

Identification and expression profiling of microRNAs in Hymenolepis.

Macchiaroli N, Cucher M, Kamenetzky L, Yones C, Bugnon L, Berriman M, Olson PD, Rosenzvit MC.

Int J Parasitol. 2019 Mar;49(3-4):211-223. doi: 10.1016/j.ijpara.2018.07.005. Epub 2019 Jan 21.

PMID:
30677390
6.

Programmed genome editing of the omega-1 ribonuclease of the blood fluke, Schistosoma mansoni.

Ittiprasert W, Mann VH, Karinshak SE, Coghlan A, Rinaldi G, Sankaranarayanan G, Chaidee A, Tanno T, Kumkhaek C, Prangtaworn P, Mentink-Kane MM, Cochran CJ, Driguez P, Holroyd N, Tracey A, Rodpai R, Everts B, Hokke CH, Hoffmann KF, Berriman M, Brindley PJ.

Elife. 2019 Jan 15;8. pii: e41337. doi: 10.7554/eLife.41337.

7.

Exclusive dependence of IL-10Rα signalling on intestinal microbiota homeostasis and control of whipworm infection.

Duque-Correa MA, Karp NA, McCarthy C, Forman S, Goulding D, Sankaranarayanan G, Jenkins TP, Reid AJ, Cambridge EL, Ballesteros Reviriego C; Sanger Mouse Genetics Project; 3i consortium, Müller W, Cantacessi C, Dougan G, Grencis RK, Berriman M.

PLoS Pathog. 2019 Jan 14;15(1):e1007265. doi: 10.1371/journal.ppat.1007265. eCollection 2019 Jan.

8.

Genomic and transcriptomic comparisons of closely related malaria parasites differing in virulence and sequestration pattern.

Lin JW, Reid AJ, Cunningham D, Böhme U, Tumwine I, Keller-Mclaughlin S, Sanders M, Berriman M, Langhorne J.

Version 2. Wellcome Open Res. 2018 Dec 6 [revised 2018 Jan 1];3:142. doi: 10.12688/wellcomeopenres.14797.2. eCollection 2018.

9.

Pre-clinical evaluation of a P. berghei-based whole-sporozoite malaria vaccine candidate.

Mendes AM, Reuling IJ, Andrade CM, Otto TD, Machado M, Teixeira F, Pissarra J, Gonçalves-Rosa N, Bonaparte D, Sinfrónio J, Sanders M, Janse CJ, Khan SM, Newbold CI, Berriman M, Lee CK, Wu Y, Ockenhouse CF, Sauerwein RW, Prudêncio M.

NPJ Vaccines. 2018 Nov 27;3:54. doi: 10.1038/s41541-018-0091-3. eCollection 2018.

10.

Genome-wide transcriptome profiling and spatial expression analyses identify signals and switches of development in tapeworms.

Olson PD, Zarowiecki M, James K, Baillie A, Bartl G, Burchell P, Chellappoo A, Jarero F, Tan LY, Holroyd N, Berriman M.

Evodevo. 2018 Nov 9;9:21. doi: 10.1186/s13227-018-0110-5. eCollection 2018.

11.

Biology and genome of a newly discovered sibling species of Caenorhabditis elegans.

Kanzaki N, Tsai IJ, Tanaka R, Hunt VL, Liu D, Tsuyama K, Maeda Y, Namai S, Kumagai R, Tracey A, Holroyd N, Doyle SR, Woodruff GC, Murase K, Kitazume H, Chai C, Akagi A, Panda O, Ke HM, Schroeder FC, Wang J, Berriman M, Sternberg PW, Sugimoto A, Kikuchi T.

Nat Commun. 2018 Aug 10;9(1):3216. doi: 10.1038/s41467-018-05712-5.

12.

Cyclin-dependent kinase 12 is a drug target for visceral leishmaniasis.

Wyllie S, Thomas M, Patterson S, Crouch S, De Rycker M, Lowe R, Gresham S, Urbaniak MD, Otto TD, Stojanovski L, Simeons FRC, Manthri S, MacLean LM, Zuccotto F, Homeyer N, Pflaumer H, Boesche M, Sastry L, Connolly P, Albrecht S, Berriman M, Drewes G, Gray DW, Ghidelli-Disse S, Dixon S, Fiandor JM, Wyatt PG, Ferguson MAJ, Fairlamb AH, Miles TJ, Read KD, Gilbert IH.

Nature. 2018 Aug;560(7717):192-197. doi: 10.1038/s41586-018-0356-z. Epub 2018 Jul 25.

13.

The mRNA cap methyltransferase gene TbCMT1 is not essential in vitro but is a virulence factor in vivo for bloodstream form Trypanosoma brucei.

Kelner A, Tinti M, Guther MLS, Foth BJ, Chappell L, Berriman M, Cowling VH, Ferguson MAJ.

PLoS One. 2018 Jul 24;13(7):e0201263. doi: 10.1371/journal.pone.0201263. eCollection 2018.

14.

Variant antigen repertoires in Trypanosoma congolense populations and experimental infections can be profiled from deep sequence data using universal protein motifs.

Silva Pereira S, Casas-Sánchez A, Haines LR, Ogugo M, Absolomon K, Sanders M, Kemp S, Acosta-Serrano Á, Noyes H, Berriman M, Jackson AP.

Genome Res. 2018 Sep;28(9):1383-1394. doi: 10.1101/gr.234146.118. Epub 2018 Jul 13.

15.

Eradication genomics-lessons for parasite control.

Cotton JA, Berriman M, Dalén L, Barnes I.

Science. 2018 Jul 13;361(6398):130-131. doi: 10.1126/science.aar6609. Epub 2018 Jul 12. No abstract available.

PMID:
30002241
16.

Long read assemblies of geographically dispersed Plasmodium falciparum isolates reveal highly structured subtelomeres.

Otto TD, Böhme U, Sanders M, Reid A, Bruske EI, Duffy CW, Bull PC, Pearson RD, Abdi A, Dimonte S, Stewart LB, Campino S, Kekre M, Hamilton WL, Claessens A, Volkman SK, Ndiaye D, Amambua-Ngwa A, Diakite M, Fairhurst RM, Conway DJ, Franck M, Newbold CI, Berriman M.

Wellcome Open Res. 2018 May 3;3:52. doi: 10.12688/wellcomeopenres.14571.1. eCollection 2018.

17.

Genomes of all known members of a Plasmodium subgenus reveal paths to virulent human malaria.

Otto TD, Gilabert A, Crellen T, Böhme U, Arnathau C, Sanders M, Oyola SO, Okouga AP, Boundenga L, Willaume E, Ngoubangoye B, Moukodoum ND, Paupy C, Durand P, Rougeron V, Ollomo B, Renaud F, Newbold C, Berriman M, Prugnolle F.

Nat Microbiol. 2018 Jun;3(6):687-697. doi: 10.1038/s41564-018-0162-2. Epub 2018 May 21.

18.

Histone methylation changes are required for life cycle progression in the human parasite Schistosoma mansoni.

Roquis D, Taudt A, Geyer KK, Padalino G, Hoffmann KF, Holroyd N, Berriman M, Aliaga B, Chaparro C, Grunau C, Augusto RC.

PLoS Pathog. 2018 May 21;14(5):e1007066. doi: 10.1371/journal.ppat.1007066. eCollection 2018 May.

19.

Using WormBase ParaSite: An Integrated Platform for Exploring Helminth Genomic Data.

Bolt BJ, Rodgers FH, Shafie M, Kersey PJ, Berriman M, Howe KL.

Methods Mol Biol. 2018;1757:471-491. doi: 10.1007/978-1-4939-7737-6_15.

PMID:
29761467
20.

Single-cell RNA-seq reveals hidden transcriptional variation in malaria parasites.

Reid AJ, Talman AM, Bennett HM, Gomes AR, Sanders MJ, Illingworth CJR, Billker O, Berriman M, Lawniczak MK.

Elife. 2018 Mar 27;7. pii: e33105. doi: 10.7554/eLife.33105.

21.

Flatworm-specific transcriptional regulators promote the specification of tegumental progenitors in Schistosoma mansoni.

Wendt GR, Collins JN, Pei J, Pearson MS, Bennett HM, Loukas A, Berriman M, Grishin NV, Collins JJ 3rd.

Elife. 2018 Mar 20;7. pii: e33221. doi: 10.7554/eLife.33221.

22.

Transcriptomic profiling of nematode parasites surviving vaccine exposure.

Sallé G, Laing R, Cotton JA, Maitland K, Martinelli A, Holroyd N, Tracey A, Berriman M, Smith WD, Newlands GFJ, Hanks E, Devaney E, Britton C.

Int J Parasitol. 2018 Apr;48(5):395-402. doi: 10.1016/j.ijpara.2018.01.004. Epub 2018 Mar 10.

23.

Genetic Diversity of Cryptosporidium hominis in a Bangladeshi Community as Revealed by Whole-Genome Sequencing.

Gilchrist CA, Cotton JA, Burkey C, Arju T, Gilmartin A, Lin Y, Ahmed E, Steiner K, Alam M, Ahmed S, Robinson G, Zaman SU, Kabir M, Sanders M, Chalmers RM, Ahmed T, Ma JZ, Haque R, Faruque ASG, Berriman M, Petri WA.

J Infect Dis. 2018 Jun 20;218(2):259-264. doi: 10.1093/infdis/jiy121.

24.

Complete avian malaria parasite genomes reveal features associated with lineage-specific evolution in birds and mammals.

Böhme U, Otto TD, Cotton JA, Steinbiss S, Sanders M, Oyola SO, Nicot A, Gandon S, Patra KP, Herd C, Bushell E, Modrzynska KK, Billker O, Vinetz JM, Rivero A, Newbold CI, Berriman M.

Genome Res. 2018 Apr;28(4):547-560. doi: 10.1101/gr.218123.116. Epub 2018 Mar 2.

25.

Tissue-specific transcriptome analyses provide new insights into GPCR signalling in adult Schistosoma mansoni.

Hahnel S, Wheeler N, Lu Z, Wangwiwatsin A, McVeigh P, Maule A, Berriman M, Day T, Ribeiro P, Grevelding CG.

PLoS Pathog. 2018 Jan 18;14(1):e1006718. doi: 10.1371/journal.ppat.1006718. eCollection 2018 Jan. Review.

26.

A Genome Resequencing-Based Genetic Map Reveals the Recombination Landscape of an Outbred Parasitic Nematode in the Presence of Polyploidy and Polyandry.

Doyle SR, Laing R, Bartley DJ, Britton C, Chaudhry U, Gilleard JS, Holroyd N, Mable BK, Maitland K, Morrison AA, Tait A, Tracey A, Berriman M, Devaney E, Cotton JA, Sargison ND.

Genome Biol Evol. 2018 Feb 1;10(2):396-409. doi: 10.1093/gbe/evx269.

27.

A method for single pair mating in an obligate parasitic nematode.

Sargison ND, Redman E, Morrison AA, Bartley DJ, Jackson F, Naghra-van Gijzel H, Holroyd N, Berriman M, Cotton JA, Gilleard JS.

Int J Parasitol. 2018 Feb;48(2):159-165. doi: 10.1016/j.ijpara.2017.08.010. Epub 2017 Oct 27.

PMID:
29111440
28.

WormBase 2017: molting into a new stage.

Lee RYN, Howe KL, Harris TW, Arnaboldi V, Cain S, Chan J, Chen WJ, Davis P, Gao S, Grove C, Kishore R, Muller HM, Nakamura C, Nuin P, Paulini M, Raciti D, Rodgers F, Russell M, Schindelman G, Tuli MA, Van Auken K, Wang Q, Williams G, Wright A, Yook K, Berriman M, Kersey P, Schedl T, Stein L, Sternberg PW.

Nucleic Acids Res. 2018 Jan 4;46(D1):D869-D874. doi: 10.1093/nar/gkx998.

29.

Gene Expression in Leishmania Is Regulated Predominantly by Gene Dosage.

Iantorno SA, Durrant C, Khan A, Sanders MJ, Beverley SM, Warren WC, Berriman M, Sacks DL, Cotton JA, Grigg ME.

MBio. 2017 Sep 12;8(5). pii: e01393-17. doi: 10.1128/mBio.01393-17.

30.

A gene expression atlas of adult Schistosoma mansoni and their gonads.

Lu Z, Sessler F, Holroyd N, Hahnel S, Quack T, Berriman M, Grevelding CG.

Sci Data. 2017 Aug 22;4:170118. doi: 10.1038/sdata.2017.118.

31.

An improved Plasmodium cynomolgi genome assembly reveals an unexpected methyltransferase gene expansion.

Pasini EM, Böhme U, Rutledge GG, Voorberg-Van der Wel A, Sanders M, Berriman M, Kocken CH, Otto TD.

Wellcome Open Res. 2017 Jun 16;2:42. doi: 10.12688/wellcomeopenres.11864.1. eCollection 2017.

32.

The exported chaperone Hsp70-x supports virulence functions for Plasmodium falciparum blood stage parasites.

Charnaud SC, Dixon MWA, Nie CQ, Chappell L, Sanders PR, Nebl T, Hanssen E, Berriman M, Chan JA, Blanch AJ, Beeson JG, Rayner JC, Przyborski JM, Tilley L, Crabb BS, Gilson PR.

PLoS One. 2017 Jul 21;12(7):e0181656. doi: 10.1371/journal.pone.0181656. eCollection 2017.

33.

MiR-277/4989 regulate transcriptional landscape during juvenile to adult transition in the parasitic helminth Schistosoma mansoni.

Protasio AV, van Dongen S, Collins J, Quintais L, Ribeiro DM, Sessler F, Hunt M, Rinaldi G, Collins JJ, Enright AJ, Berriman M.

PLoS Negl Trop Dis. 2017 May 23;11(5):e0005559. doi: 10.1371/journal.pntd.0005559. eCollection 2017 May.

34.

Modulation of Aneuploidy in Leishmania donovani during Adaptation to Different In Vitro and In Vivo Environments and Its Impact on Gene Expression.

Dumetz F, Imamura H, Sanders M, Seblova V, Myskova J, Pescher P, Vanaerschot M, Meehan CJ, Cuypers B, De Muylder G, Späth GF, Bussotti G, Vermeesch JR, Berriman M, Cotton JA, Volf P, Dujardin JC, Domagalska MA.

MBio. 2017 May 23;8(3). pii: e00599-17. doi: 10.1128/mBio.00599-17.

35.

Genomic Characterization of Recrudescent Plasmodium malariae after Treatment with Artemether/Lumefantrine.

Rutledge GG, Marr I, Huang GKL, Auburn S, Marfurt J, Sanders M, White NJ, Berriman M, Newbold CI, Anstey NM, Otto TD, Price RN.

Emerg Infect Dis. 2017 Aug;23(8):1300-1307. doi: 10.3201/eid2308.161582. Epub 2017 Aug 15.

36.

Antibody-independent mechanisms regulate the establishment of chronic Plasmodium infection.

Brugat T, Reid AJ, Lin J, Cunningham D, Tumwine I, Kushinga G, McLaughlin S, Spence P, Böhme U, Sanders M, Conteh S, Bushell E, Metcalf T, Billker O, Duffy PE, Newbold C, Berriman M, Langhorne J.

Nat Microbiol. 2017 Feb 6;2:16276. doi: 10.1038/nmicrobiol.2016.276.

37.

pfk13-Independent Treatment Failure in Four Imported Cases of Plasmodium falciparum Malaria Treated with Artemether-Lumefantrine in the United Kingdom.

Sutherland CJ, Lansdell P, Sanders M, Muwanguzi J, van Schalkwyk DA, Kaur H, Nolder D, Tucker J, Bennett HM, Otto TD, Berriman M, Patel TA, Lynn R, Gkrania-Klotsas E, Chiodini PL.

Antimicrob Agents Chemother. 2017 Feb 23;61(3). pii: e02382-16. doi: 10.1128/AAC.02382-16. Print 2017 Mar.

38.

Plasmodium malariae and P. ovale genomes provide insights into malaria parasite evolution.

Rutledge GG, Böhme U, Sanders M, Reid AJ, Cotton JA, Maiga-Ascofare O, Djimdé AA, Apinjoh TO, Amenga-Etego L, Manske M, Barnwell JW, Renaud F, Ollomo B, Prugnolle F, Anstey NM, Auburn S, Price RN, McCarthy JS, Kwiatkowski DP, Newbold CI, Berriman M, Otto TD.

Nature. 2017 Feb 2;542(7639):101-104. doi: 10.1038/nature21038. Epub 2017 Jan 25.

39.

A new Plasmodium vivax reference sequence with improved assembly of the subtelomeres reveals an abundance of pir genes.

Auburn S, Böhme U, Steinbiss S, Trimarsanto H, Hostetler J, Sanders M, Gao Q, Nosten F, Newbold CI, Berriman M, Price RN, Otto TD.

Wellcome Open Res. 2016 Nov 15;1:4. doi: 10.12688/wellcomeopenres.9876.1.

40.

Whole genome sequencing of Plasmodium falciparum from dried blood spots using selective whole genome amplification.

Oyola SO, Ariani CV, Hamilton WL, Kekre M, Amenga-Etego LN, Ghansah A, Rutledge GG, Redmond S, Manske M, Jyothi D, Jacob CG, Otto TD, Rockett K, Newbold CI, Berriman M, Kwiatkowski DP.

Malar J. 2016 Dec 20;15(1):597. doi: 10.1186/s12936-016-1641-7.

41.

Dataset for a Dugesia japonica de novo transcriptome assembly, utilized for defining the voltage-gated like ion channel superfamily.

Chan JD, Zhang D, Liu X, Zarowiecki MZ, Berriman M, Marchant JS.

Data Brief. 2016 Nov 16;9:1044-1047. eCollection 2016 Dec.

42.

WormBase ParaSite - a comprehensive resource for helminth genomics.

Howe KL, Bolt BJ, Shafie M, Kersey P, Berriman M.

Mol Biochem Parasitol. 2017 Jul;215:2-10. doi: 10.1016/j.molbiopara.2016.11.005. Epub 2016 Nov 27.

43.

Stage-Specific Transcriptome and Proteome Analyses of the Filarial Parasite Onchocerca volvulus and Its Wolbachia Endosymbiont.

Bennuru S, Cotton JA, Ribeiro JM, Grote A, Harsha B, Holroyd N, Mhashilkar A, Molina DM, Randall AZ, Shandling AD, Unnasch TR, Ghedin E, Berriman M, Lustigman S, Nutman TB.

MBio. 2016 Nov 23;7(6). pii: e02028-16. doi: 10.1128/mBio.02028-16.

44.

The genome of Onchocerca volvulus, agent of river blindness.

Cotton JA, Bennuru S, Grote A, Harsha B, Tracey A, Beech R, Doyle SR, Dunn M, Hotopp JC, Holroyd N, Kikuchi T, Lambert O, Mhashilkar A, Mutowo P, Nursimulu N, Ribeiro JM, Rogers MB, Stanley E, Swapna LS, Tsai IJ, Unnasch TR, Voronin D, Parkinson J, Nutman TB, Ghedin E, Berriman M, Lustigman S.

Nat Microbiol. 2016 Nov 21;2:16216. doi: 10.1038/nmicrobiol.2016.216.

45.

Activation of Bicyclic Nitro-drugs by a Novel Nitroreductase (NTR2) in Leishmania.

Wyllie S, Roberts AJ, Norval S, Patterson S, Foth BJ, Berriman M, Read KD, Fairlamb AH.

PLoS Pathog. 2016 Nov 3;12(11):e1005971. doi: 10.1371/journal.ppat.1005971. eCollection 2016 Nov.

46.

Utilizing the planarian voltage-gated ion channel transcriptome to resolve a role for a Ca2+ channel in neuromuscular function and regeneration.

Chan JD, Zhang D, Liu X, Zarowiecki M, Berriman M, Marchant JS.

Biochim Biophys Acta Mol Cell Res. 2017 Jun;1864(6):1036-1045. doi: 10.1016/j.bbamcr.2016.10.010. Epub 2016 Oct 19.

47.

HIV-1 Integrates Widely throughout the Genome of the Human Blood Fluke Schistosoma mansoni.

Suttiprapa S, Rinaldi G, Tsai IJ, Mann VH, Dubrovsky L, Yan HB, Holroyd N, Huckvale T, Durrant C, Protasio AV, Pushkarsky T, Iordanskiy S, Berriman M, Bukrinsky MI, Brindley PJ.

PLoS Pathog. 2016 Oct 20;12(10):e1005931. doi: 10.1371/journal.ppat.1005931. eCollection 2016 Oct.

48.

Schistosome sex matters: a deep view into gonad-specific and pairing-dependent transcriptomes reveals a complex gender interplay.

Lu Z, Sessler F, Holroyd N, Hahnel S, Quack T, Berriman M, Grevelding CG.

Sci Rep. 2016 Aug 8;6:31150. doi: 10.1038/srep31150.

49.

Companion: a web server for annotation and analysis of parasite genomes.

Steinbiss S, Silva-Franco F, Brunk B, Foth B, Hertz-Fowler C, Berriman M, Otto TD.

Nucleic Acids Res. 2016 Jul 8;44(W1):W29-34. doi: 10.1093/nar/gkw292. Epub 2016 Apr 21.

50.

Evolutionary genomics of epidemic visceral leishmaniasis in the Indian subcontinent.

Imamura H, Downing T, Van den Broeck F, Sanders MJ, Rijal S, Sundar S, Mannaert A, Vanaerschot M, Berg M, De Muylder G, Dumetz F, Cuypers B, Maes I, Domagalska M, Decuypere S, Rai K, Uranw S, Bhattarai NR, Khanal B, Prajapati VK, Sharma S, Stark O, Schönian G, De Koning HP, Settimo L, Vanhollebeke B, Roy S, Ostyn B, Boelaert M, Maes L, Berriman M, Dujardin JC, Cotton JA.

Elife. 2016 Mar 22;5. pii: e12613. doi: 10.7554/eLife.12613.

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