Aine O'Toole

Research Interests

Publications

Total publications: 20

Making genomic surveillance deliver: A lineage classification and nomenclature system to inform rabies elimination.: Campbell K, Gifford RJ, Singer J, Hill V, O'Toole Á, Rambaut A, Hampson K & Brunker K (2022) PLoS Pathogens 18, e1010023.

Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity.: Thomson EC, Rosen LE, Shepherd JG, Spreafico R, da Silva Filipe A, Wojcechowskyj JA, Davis C, Piccoli L, Pascall DJ, Dillen J, Lytras S, Czudnochowski N, Shah R, Meury M, Jesudason N, De Marco A, Li K, Bassi J, O'Toole A, Pinto D, Colquhoun RM, Culap K, Jackson B, Zatta F, Rambaut A, Jaconi S, Sreenu VB, Nix J, Zhang I, Jarrett RF, Glass WG, Beltramello M, Nomikou K, Pizzuto M, Tong L, Cameroni E, Croll TI, Johnson N, Di Iulio J, Wickenhagen A, Ceschi A, Harbison AM, Mair D, Ferrari P, Smollett K, Sallusto F, Carmichael S, Garzoni C, Nichols J, Galli M, Hughes J, Riva A, Ho A, Schiuma M, Semple MG, Openshaw PJM, Fadda E, Baillie JK, Chodera JD, Rihn SJ, Lycett SJ, Virgin HW, Telenti A, Corti D, Robertson DL, Snell G, The ISARIC4C Investigators & the COVID-19 Genomics UK (COG-UK) Consortium (2021) Cell 184, 1171-1187.

Addendum: A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology.: Rambaut A, Holmes EC, O'Toole Á, Hill V, McCrone JT, Ruis C, du Plessis L & Pybus OG (2021) Nature microbiology 6, 415.

Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK.: du Plessis L, McCrone JT, Zarebski AE, Hill V, Ruis C, Gutierrez B, Raghwani J, Ashworth J, Colquhoun R, Connor TR, Faria NR, Jackson B, Loman NJ, O'Toole Á, Nicholls SM, Parag KV, Scher E, Vasylyeva TI, Volz EM, Watts A, Bogoch II, Khan K, Aanensen DM, Kraemer MUG, Rambaut A & Pybus OG (2021) Science 371, 708-712.

Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity.: Volz E, Hill V, McCrone JT, Price A, Jorgensen D, O'Toole Á, Southgate J, Johnson R, Jackson B, Nascimento FF, Rey SM, Nicholls SM, Colquhoun RM, da Silva Filipe A, Shepherd J, Pascall DJ, Shah R, Jesudason N, Li K, Jarrett R, Pacchiarini N, Bull M, Geidelberg L, Siveroni I, COG-UK Consortium, Goodfellow I, Loman NJ, Pybus OG, Robertson DL, Thomson EC, Rambaut A & Connor TR (2021) Cell 184, 64-75.

Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England.: Volz E, Mishra S, Chand M, Barrett JC, Johnson R, Geidelberg L, Hinsley WR, Laydon DJ, Dabrera G, O'Toole Á, Amato R, Ragonnet-Cronin M, Harrison I, Jackson B, Ariani CV, Boyd O, Loman NJ, McCrone JT, Gon?alves S, Jorgensen D, Myers R, Hill V, Jackson DK, Gaythorpe K, Groves N, Sillitoe J, Kwiatkowski DP, Flaxman S, Ratmann O, Bhatt S, Hopkins S, Gandy A, Rambaut A, Ferguson NM & The COVID-19 Genomics UK (COG-UK) consortium (2021) Nature

Genomic epidemiology reveals multiple introductions of SARS-CoV-2 from mainland Europe into Scotland.: da Silva Filipe A, Shepherd JG, Williams T, Hughes J, Aranday-Cortes E, Asamaphan P, Ashraf S, Balcazar C, Brunker K, Campbell A, Carmichael S, Davis C, Dewar R, Gallagher MD, Gunson R, Hill V, Ho A, Jackson B, James E, Jesudason N, Johnson N, McWilliam Leitch EC, Li K, MacLean A, Mair D, McAllister DA, McCrone JT, McDonald SE, McHugh MP, Morris AK, Nichols J, Niebel M, Nomikou K, Orton RJ, O'Toole Á, Palmarini M, Parcell BJ, Parr YA, Rambaut A, Rooke S, Shaaban S, Shah R, Singer JB, Smollett K, Starinskij I, Tong L, Sreenu VB, Wastnedge E, Holden MTG, Robertson DL, Templeton K, Thomson EC & The COVID-19 Genomics UK (COG-UK) Consortium (2021) Nature Microbiology 6, 112-122.

CLIMB-COVID: continuous integration supporting decentralised sequencing for SARS-CoV-2 genomic surveillance.: Nicholls SM, Poplawski R, Bull MJ, Underwood A, Chapman M, Abu-Dahab K, Taylor B, Colquhoun RM, Rowe WPM, Jackson B, Hill V, O'Toole Á, Rey S, Southgate J, Amato R, Livett R, Gonçalves S, Harrison EM, Peacock SJ, Aanensen DM, Rambaut A, Connor TR, Loman NJ & The COVID-19 Genomics UK (COG-UK) Consortium (2021) Genome Biology 22, 196.

Recurrent emergence of SARS-CoV-2 spike deletion H69/V70 and its role in the Alpha variant B.1.1.7.: Meng B, Kemp SA, Papa G, Datir R, Ferreira IATM, Marelli S, Harvey WT, Lytras S, Mohamed A, Gallo G, Thakur N, Collier DA, Mlcochova P, Robson SC, Loman NJ, Connor TR, Golubchik T, Martinez Nunez RT, Ludden C, Corden S, Johnston I, Bonsall D, Smith CP, Awan AR, Bucca G, Torok ME, Saeed K, Prieto JA, Jackson DK, Hamilton WL, Snell LB, Moore C, Harrison EM, Goncalves S, Fairley DJ, Loose MW, Watkins J, Livett R, Moses S, Amato R, Nicholls S, Bull M, Smith DL, Barrett J, Aanensen DM, Curran MD, Parmar S, Aggarwal D, Shepherd JG, Parker MD, Glaysher S, Bashton M, Underwood AP, Pacchiarini N, Loveson KF, Templeton KE, Langford CF, Sillitoe J, de Silva TI, Wang D, Kwiatkowski D, Rambaut A, O'Grady J, Cottrell S, Holden MTG, Thomson EC, Osman H, Andersson M, Chauhan AJ, Hassan-Ibrahim MO, Lawniczak M, Alderton A, Chand M, Constantinidou C, Unnikrishnan M, Darby AC, Hiscox JA, Paterson S, Martincorena I, Volz EM, Page AJ, Pybus OG, Bassett AR, Ariani CV, Chapman MHS, Li KK, Shah RN, Jesudason NG, Taha Y, McHugh MP, Dewar R, Jahun AS, McMurray C, Pandey S, McKenna JP, Nelson A, Young GR, McCann CM, Elliott S, Lowe H, Temperton B, Roy S, Price A, Rey S, Wyles M, Rooke S, Shaaban S, de Cesare M, Letchford L, Silveira S, Pelosi E, Wilson-Davies E, Hosmillo M, O'Toole Á, Hesketh AR, Stark R, du Plessis L, Ruis C, Adams H, Bourgeois Y, Michell SL, Gramatopoulos D, Edgeworth J, Breuer J, Todd JA, Fraser C, Buck D, John M, Kay GL, Palmer S, Peacock SJ, Heyburn D, Weldon D, Robinson E, McNally A, Muir P, Vipond IB, Boyes J, Sivaprakasam V, Salluja T, Dervisevic S, Meader EJ, Park NR, Oliver K, Jeffries AR, Ott S, da Silva Filipe A, Simpson DA, Williams C, Masoli JAH, Knight BA, Jones CR, Koshy C, Ash A, Casey A, Bosworth A, Ratcliffe L, Xu-McCrae L, Pymont HM, Hutchings S, Berry L, Jones K, Halstead F, Davis T, Holmes C, Iturriza-Gomara M, Lucaci AO, Randell PA, Cox A, Madona P, Harris KA, Brown JR, Mahungu TW, Irish-Tavares D, Haque T, Hart J, Witele E, Fenton ML, Liggett S, Graham C, Swindells E, Collins J, Eltringham G, Campbell S, McClure PC, Clark G, Sloan TJ, Jones C, Lynch J, Warne B, Leonard S, Durham J, Williams T, Haldenby ST, Storey N, Alikhan N-F, Holmes N, Moore C, Carlile M, Perry M, Craine N, Lyons RA, Beckett AH, Goudarzi S, Fearn C, Cook K, Dent H, Paul H, Davies R, Blane B, Girgis ST, Beale MA, Bellis KL, Dorman MJ, Drury E, Kane L, Kay S, McGuigan S, Nelson R, Prestwood L, Rajatileka S, Batra R, Williams RJ, Kristiansen M, Green A, Justice A, Mahanama AIK, Samaraweera B, Hadjirin NF, Quick J, Poplawski R, Kermack LM, Reynolds N, Hall G, Chaudhry Y, Pinckert ML, Georgana I, Moll RJ, Thornton A, Myers R, Stockton J, Williams CA, Yew WC, Trotter AJ, Trebes A, MacIntyre-Cockett G, Birchley A, Adams A, Plimmer A, Gatica-Wilcox B, McKerr C, Hilvers E, Jones H, Asad H, Coombes J, Evans JM, Fina L, Gilbert L, Graham L, Cronin M, Kumziene-Summerhayes S, Taylor S, Jones S, Groves DC, Zhang P, Gallis M, Louka SF, Starinskij I, Jackson C, Gourtovaia M, Tonkin-Hill G, Lewis K, Tovar-Corona JM, James K, Baxter L, Alam MT, Orton RJ, Hughes J, Vattipally S, Ragonnet-Cronin M, Nascimento FF, Jorgensen D, Boyd O, Geidelberg L, Zarebski AE, Raghwani J, Kraemer MUG, Southgate J, Lindsey BB, Freeman TM, Keatley J-P, Singer JB, de Oliveira Martins L, Yeats CA, Abudahab K, Taylor BEW, Menegazzo M, Danesh J, Hogsden W, Eldirdiri S, Kenyon A, Mason J, Robinson TI, Holmes A, Price J, Hartley JA, Curran T, Mather AE, Shankar G, Jones R, Howe R, Morgan S, Wastenge E, Chapman MR, Mookerjee S, Stanley R, Smith W, Peto T, Eyre D, Crook D, Vernet G, Kitchen C, Gulliver H, Merrick I, Guest M, Munn R, Bradley DT, Wyatt T, Beaver C, Foulser L, Palmer S, Churcher CM, Brooks E, Smith KS, Galai K, McManus GM, Bolt F, Coll F, Meadows L, Attwood SW, Davies A, De Lacy E, Downing F, Edwards S, Scarlett GP, Jeremiah S, Smith N, Leek D, Sridhar S, Forrest S, Cormie C, Gill HK, Dias J, Higginson EE, Maes M, Young J, Wantoch M, Jamrozy D, Lo S, Patel M, Hill V, Bewshea CM, Ellard S, Auckland C, Harrison I, Bishop C, Chalker V, Richter A, Beggs A, Best A, Percival B, Mirza J, Megram O, Mayhew M, Crawford L, Ashcroft F, Moles-Garcia E, Cumley N, Hopes R, Asamaphan P, Niebel MO, Gunson RN, Bradley A, Maclean A, Mollett G, Blacow R, Bird P, Helmer T, Fallon K, Tang J, Hale AD, Macfarlane-Smith LR, Harper KL, Carden H, Machin NW, Jackson KA, Ahmad SSY, George RP, Turtle L, O'Toole E, Watts J, Breen C, Cowell A, Alcolea-Medina A, Charalampous T, Patel A, Levett LJ, Heaney J, Rowan A, Taylor GP, Shah D, Atkinson L, Lee JCD, Westhorpe AP, Jannoo R, Lowe HL, Karamani A, Ensell L, Chatterton W, Pusok M, Dadrah A, Symmonds A, Sluga G, Molnar Z, Baker P, Bonner S, Essex S, Barton E, Padgett D, Scott G, Greenaway J, Payne BAI, Burton-Fanning S, Waugh S, Raviprakash V, Sheriff N, Blakey V, Williams L-A, Moore J, Stonehouse S, Smith L, Davidson RK, Bedford L, Coupland L, Wright V, Chappell JG, Tsoleridis T, Ball J, Khakh M, Fleming VM, Lister MM, Howson-Wells HC, Berry L, Boswell T, Joseph A, Willingham I, Duckworth N, Walsh S, Wise E, Moore N, Mori M, Cortes N, Kidd S, Williams R, Gifford L, Bicknell K, Wyllie S, Lloyd A, Impey R, Malone CS, Cogger BJ, Levene N, Monaghan L, Keeley AJ, Partridge DG, Raza M, Evans C, Johnson K, Betteridge E, Farr BW, Goodwin S, Quail MA, Scott C, Shirley L, Thurston SAJ, Rajan D, Bronner IF, Aigrain L, Redshaw NM, Lensing SV, McCarthy S, Makunin A, Balcazar CE, Gallagher MD, Williamson KA, Stanton TD, Michelsen ML, Warwick-Dugdale J, Manley R, Farbos A, Harrison JW, Sambles CM, Studholme DJ, Lackenby A, Mbisa T, Platt S, Miah S, Bibby D, Manso C, Hubb J, Dabrera G, Ramsay M, Bradshaw D, Schaefer U, Groves N, Gallagher E, Lee D, Williams D, Ellaby N, Hartman H, Manesis N, Patel V, Ledesma J, Twohig KA, Allara E, Pearson C, Cheng JKJ, Bridgewater HE, Frost LR, Taylor-Joyce G, Brown PE, Tong L, Broos A, Mair D, Nichols J, Carmichael SN, Smollett KL, Nomikou K, Aranday-Cortes E, Johnson N, Nickbakhsh S, Vamos EE, Hughes M, Rainbow L, Eccles R, Nelson C, Whitehead M, Gregory R, Gemmell M, Wierzbicki C, Webster HJ, Fisher CL, Signell AW, Betancor G, Wilson HD, Nebbia G, Flaviani F, Cerda AC, Merrill TV, Wilson RE, Cotic M, Bayzid N, Thompson T, Acheson E, Rushton S, O'Brien S, Baker DJ, Rudder S, Aydin A, Sang F, Debebe J, Francois S, Vasylyeva TI, Zamudio ME, Gutierrez B, Marchbank A, Maksimovic J, Spellman K, McCluggage K, Morgan M, Beer R, Afifi S, Workman T, Fuller W, Bresner C, Angyal A, Green LR, Parsons PJ, Tucker RM, Brown R, Whiteley M, Bonfield J, Puethe C, Whitwham A, Liddle J, Rowe W, Siveroni I, Le-Viet T, Gaskin A, Johnson R, Abnizova I, Ali M, Allen L, Anderson R, Ariani C, Austin-Guest S, Bala S, Barrett J, Bassett A, Battleday K, Beal J, Beale M, Bellany S, Bellerby T, Bellis K, Berger D, Berriman M, Bevan P, Binley S, Bishop J, Blackburn K, Boughton N, Bowker S, Brendler-Spaeth T, Bronner I, Brooklyn T, Buddenborg SK, Bush R, Caetano C, Cagan A, Carter N, Cartwright J, Monteiro TC, Chapman L, Chillingworth T-J, Clapham P, Clark R, Clarke A, Clarke C, Cole D, Cook E, Coppola M, Cornell L, Cornwell C, Corton C, Crackett A, Cranage A, Craven H, Craw S, Crawford M, Cutts T, Dabrowska M, Davies M, Dawson J, Day C, Densem A, Dibling T, Dockree C, Dodd D, Dogga S, Dorman M, Dougan G, Dougherty M, Dove A, Drummond L, Dudek M, Durrant L, Easthope E, Eckert S, Ellis P, Farr B, Fenton M, Ferrero M, Flack N, Fordham H, Forsythe G, Francis M, Fraser A, Freeman A, Galvin A, Garcia-Casado M, Gedny A, Girgis S, Glover J, Gould O, Gray A, Gray E, Griffiths C, Gu Y, Guerin F, Hamilton W, Hanks H, Harrison E, Harrott A, Harry E, Harvison J, Heath P, Hernandez-Koutoucheva A, Hobbs R, Holland D, Holmes S, Hornett G, Hough N, Huckle L, Hughes-Hallet L, Hunter A, Inglis S, Iqbal S, Jackson A, Jackson D, Verdejo CJ, Jones M, Kallepally K, Kay K, Keatley J, Keith A, King A, Kitchin L, Kleanthous M, Klimekova M, Korlevic P, Krasheninnkova K, Lane G, Langford C, Laverack A, Law K, Lensing S, Lewis-Wade A, Liddle J, Lin Q, Lindsay S, Linsdell S, Long R, Lovell J, Lovell J, Mack J, Maddison M, Makunin A, Mamun I, Mansfield J, Marriott N, Martin M, Mayho M, McClintock J, McHugh S, MapcMinn L, Meadows C, Mobley E, Moll R, Morra M, Morrow L, Murie K, Nash S, Nathwani C, Naydenova P, Neaverson A, Nerou E, Nicholson J, Nimz T, Noell GG, O'Meara S, Ohan V, Olney C, Ormond D, Oszlanczi A, Pang YF, Pardubska B, Park N, Parmar A, Patel G, Payne M, Peacock S, Petersen A, Plowman D, Preston T, Quail M, Rance R, Rawlings S, Redshaw N, Reynolds J, Reynolds M, Rice S, Richardson M, Roberts C, Robinson K, Robinson M, Robinson D, Rogers H, Rojo EM, Roopra D, Rose M, Rudd L, Sadri R, Salmon N, Saul D, Schwach F, Seekings P, Simms A, Sinnott M, Sivadasan S, Siwek B, Sizer D, Skeldon K, Skelton J, Slater-Tunstill J, Sloper L, Smerdon N, Smith C, Smith C, Smith J, Smith K, Smith M, Smith S, Smith T, Sneade L, Soria CD, Sousa C, Souster E, Sparkes A, Spencer-Chapman M, Squares J, Stanley R, Steed C, Stickland T, Still I, Stratton M, Strickland M, Swann A, Swiatkowska A, Sycamore N, Swift E, Symons E, Szluha S, Taluy E, Tao N, Taylor K, Taylor S, Thompson S, Thompson M, Thomson M, Thomson N, Thurston S, Toombs D, Topping B, Tovar-Corona J, Ungureanu D, Uphill J, Urbanova J, Van PJ, Vancollie V, Voak P, Walker D, Walker M, Waller M, Ward G, Weatherhogg C, Webb N, Wells A, Wells E, Westwood L, Whipp T, Whiteley T, Whitton G, Widaa S, Williams M, Wilson M, Wright S, Duncan LM, Carabelli AM, Kenyon JC, Lever AM, De Marco A, Saliba C, Culap K, Cameroni E, Matheson NJ, Piccoli L, Corti D, James LC, Robertson DL, Bailey D, Gupta RK & The COVID-19 Genomics UK (COG-UK) Consortium (2021) Cell Reports 35, 109292.

Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity.: Thomson EC, Rosen LE, Shepherd JG, Spreafico R, da Silva Filipe A, Wojcechowskyj JA, Davis C, Piccoli L, Pascall DJ, Dillen J, Lytras S, Czudnochowski N, Shah R, Meury M, Jesudason N, De Marco A, Li K, Bassi J, O'Toole Á, Pinto D, Colquhoun RM, Culap K, Jackson B, Zatta F, Rambaut A, Jaconi S, Sreenu VB, Nix J, Zhang I, Jarrett RF, Glass WG, Beltramello M, Nomikou K, Pizzuto M, Tong L, Cameroni E, Croll TI, Johnson N, Di Iulio J, Wickenhagen A, Ceschi A, Harbison AM, Mair D, Ferrari P, Smollett K, Sallusto F, Carmichael S, Garzoni C, Nichols J, Galli M, Hughes J, Riva A, Ho A, Schiuma M, Semple MG, Openshaw PJM, Fadda E, Baillie JK, Chodera JD, Rihn SJ, Lycett SJ, Virgin HW, Telenti A, Corti D, Robertson DL, Snell G, The ISARIC4C Investigators & the COVID-19 Genomics UK (COG-UK) Consortium (2021) Cell 184, 1171-1.19E+23.

Addendum: A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology.: Rambaut A, Holmes EC, O'Toole Á, Hill V, McCrone JT, Ruis C, du Plessis L & Pybus OG (2021) Nature microbiology 6, 415.

Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity.: Volz E, Hill V, McCrone JT, Price A, Jorgensen D, O'Toole Á, Southgate J, Johnson R, Jackson B, Nascimento FF, Rey SM, Nicholls SM, Colquhoun RM, da Silva Filipe A, Shepherd J, Pascall DJ, Shah R, Jesudason N, Li K, Jarrett R, Pacchiarini N, Bull M, Geidelberg L, Siveroni I, Koshy C, Wise E, Cortes N, Lynch J, Kidd S, Mori M, Fairley DJ, Curran T, McKenna JP, Adams H, Fraser C, Golubchik T, Bonsall D, Moore C, Caddy SL, Khokhar FA, Wantoch M, Reynolds N, Warne B, Maksimovic J, Spellman K, McCluggage K, John M, Beer R, Afifi S, Morgan S, Marchbank A, Kitchen C, Gulliver H, Merrick I, Guest M, Munn R, Workman T, Connor TR, Fuller W, Bresner C, Snell LB, Charalampous T, Nebbia G, Batra R, Edgeworth J, Robson SC, Beckett A, Loveson KF, Aanensen DM, Underwood AP, Yeats CA, Abudahab K, Taylor BEW, Menegazzo M, Clark G, Smith W, Khakh M, Fleming VM, Lister MM, Howson-Wells HC, Berry L, Boswell T, Joseph A, Willingham I, Bird P, Helmer T, Fallon K, Holmes C, Tang J, Raviprakash V, Campbell S, Sheriff N, Loose MW, Holmes N, Moore C, Carlile M, Wright V, Sang F, Debebe J, Coll F, Signell AW, Betancor G, Wilson HD, Feltwell T, Houldcroft CJ, Eldirdiri S, Kenyon A, Davis T, Pybus O, du Plessis L, Zarebski A, Raghwani J, Kraemer M, Francois S, Attwood S, Vasylyeva T, Torok ME, Hamilton WL, Goodfellow IG, Hall G, Jahun AS, Chaudhry Y, Hosmillo M, Pinckert ML, Georgana I, Yakovleva A, Meredith LW, Moses S, Lowe H, Ryan F, Fisher CL, Awan AR, Boyes J, Breuer J, Harris KA, Brown JR, Shah D, Atkinson L, Lee JCD, Alcolea-Medina A, Moore N, Cortes N, Williams R, Chapman MR, Levett LJ, Heaney J, Smith DL, Bashton M, Young GR, Allan J, Loh J, Randell PA, Cox A, Madona P, Holmes A, Bolt F, Price J, Mookerjee S, Rowan A, Taylor GP, Ragonnet-Cronin M, Johnson R, Boyd O, Volz EM, Brunker K, Smollett KL, Loman NJ, Quick J, McMurray C, Stockton J, Nicholls S, Rowe W, Poplawski R, Martinez-Nunez RT, Mason J, Robinson TI, O'Toole E, Watts J, Breen C, Cowell A, Ludden C, Sluga G, Machin NW, Ahmad SSY, George RP, Halstead F, Sivaprakasam V, Thomson EC, Shepherd JG, Asamaphan P, Niebel MO, Li KK, Shah RN, Jesudason NG, Parr YA, Tong L, Broos A, Mair D, Nichols J, Carmichael SN, Nomikou K, Aranday-Cortes E, Johnson N, Starinskij I, Robertson DL, Orton RJ, Hughes J, Vattipally S, Singer JB, Hale AD, Macfarlane-Smith LR, Harper KL, Taha Y, Payne BAI, Burton-Fanning S, Waugh S, Collins J, Eltringham G, Templeton KE, McHugh MP, Dewar R, Wastenge E, Dervisevic S, Stanley R, Prakash R, Stuart C, Elumogo N, Sethi DK, Meader EJ, Coupland LJ, Potter W, Graham C, Barton E, Padgett D, Scott G, Swindells E, Greenaway J, Nelson A, Yew WC, Resende Silva PC, Andersson M, Shaw R, Peto T, Justice A, Eyre D, Crooke D, Hoosdally S, Sloan TJ, Duckworth N, Walsh S, Chauhan AJ, Glaysher S, Bicknell K, Wyllie S, Butcher E, Elliott S, Lloyd A, Impey R, Levene N, Monaghan L, Bradley DT, Allara E, Pearson C, Muir P, Vipond IB, Hopes R, Pymont HM, Hutchings S, Curran MD, Parmar S, Lackenby A, Mbisa T, Platt S, Miah S, Bibby D, Manso C, Hubb J, Chand M, Dabrera G, Ramsay M, Bradshaw D, Thornton A, Myers R, Schaefer U, Groves N, Gallagher E, Lee D, Williams D, Ellaby N, Harrison I, Hartman H, Manesis N, Patel V, Bishop C, Chalker V, Osman H, Bosworth A, Robinson E, Holden MTG, Shaaban S, Birchley A, Adams A, Davies A, Gaskin A, Plimmer A, Gatica-Wilcox B, McKerr C, Moore C, Williams C, Heyburn D, De Lacy E, Hilvers E, Downing F, Shankar G, Jones H, Asad H, Coombes J, Watkins J, Evans JM, Fina L, Gifford L, Gilbert L, Graham L, Perry M, Morgan M, Cronin M, Craine N, Jones R, Howe R, Corden S, Rey S, Kumziene-Summerhayes S, Taylor S, Cottrell S, Jones S, Edwards S, O'Grady J, Page AJ, Wain J, Webber MA, Mather AE, Baker DJ, Rudder S, Yasir M, Thomson NM, Aydin A, Tedim AP, Kay GL, Trotter AJ, Gilroy RAJ, Alikhan N-F, de Oliveira Martins L, Le-Viet T, Meadows L, Kolyva A, Diaz M, Bell A, Gutierrez AV, Charles IG, Adriaenssens EM, Kingsley RA, Casey A, Simpson DA, Molnar Z, Thompson T, Acheson E, Masoli JAH, Knight BA, Hattersley A, Ellard S, Auckland C, Mahungu TW, Irish-Tavares D, Haque T, Bourgeois Y, Scarlett GP, Partridge DG, Raza M, Evans C, Johnson K, Liggett S, Baker P, Essex S, Lyons RA, Caller LG, Castellano S, Williams RJ, Kristiansen M, Roy S, Williams CA, Dyal PL, Tutill HJ, Panchbhaya YN, Forrest LM, Niola P, Findlay J, Brooks TT, Gavriil A, Mestek-Boukhibar L, Weeks S, Pandey S, Berry L, Jones K, Richter A, Beggs A, Smith CP, Bucca G, Hesketh AR, Harrison EM, Peacock SJ, Palmer S, Churcher CM, Bellis KL, Girgis ST, Naydenova P, Blane B, Sridhar S, Ruis C, Forrest S, Cormie C, Gill HK, Dias J, Higginson EE, Maes M, Young J, Kermack LM, Hadjirin NF, Aggarwal D, Griffith L, Swingler T, Davidson RK, Rambaut A, Williams T, Balcazar CE, Gallagher MD, O'Toole Á, Rooke S, Colquhoun R, Ashworth J, McCrone JT, Scher E, Yu X, Williamson KA, Stanton TD, Michell SL, Bewshea CM, Temperton B, Michelsen ML, Warwick-Dugdale J, Manley R, Farbos A, Harrison JW, Sambles CM, Studholme DJ, Jeffries AR, Darby AC, Hiscox JA, Paterson S, Iturriza-Gomara M, Jackson KA, Lucaci AO, Vamos EE, Hughes M, Rainbow L, Eccles R, Nelson C, Whitehead M, Turtle L, Haldenby ST, Gregory R, Gemmell M, Kwiatkowski D, de Silva TI, Smith N, Angyal A, Lindsey BB, Groves DC, Green LR, Wang D, Freeman TM, Parker MD, Keeley AJ, Parsons PJ, Tucker RM, Brown R, Wyles M, Constantinidou C, Unnikrishnan M, Ott S, Cheng JKJ, Bridgewater HE, Frost LR, Taylor-Joyce G, Stark R, Baxter L, Alam MT, Brown PE, McClure PC, Chappell JG, Tsoleridis T, Ball J, Gramatopoulos D, Buck D, Todd JA, Green A, Trebes A, MacIntyre-Cockett G, de Cesare M, Langford C, Alderton A, Amato R, Goncalves S, Jackson DK, Johnston I, Sillitoe J, Palmer S, Lawniczak M, Berriman M, Danesh J, Livett R, Shirley L, Farr B, Quail M, Thurston S, Park N, Betteridge E, Weldon D, Goodwin S, Nelson R, Beaver C, Letchford L, Jackson DA, Foulser L, McMinn L, Prestwood L, Kay S, Kane L, Dorman MJ, Martincorena I, Puethe C, Keatley J-P, Tonkin-Hill G, Smith C, Jamrozy D, Beale MA, Patel M, Ariani C, Spencer-Chapman M, Drury E, Lo S, Rajatileka S, Scott C, James K, Buddenborg SK, Berger DJ, Patel G, Garcia-Casado MV, Dibling T, McGuigan S, Rogers HA, Hunter AD, Souster E, Neaverson AS, Goodfellow I, Pybus OG & COG-UK Consortium (2021) Cell 184, 64-7.50E+12.

Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2.: O'Toole Á, Kraemer MUG, Hill V, Pybus OG, Watts A, Bogoch II, Khan K, Messina JP, Tegally H, Lessells RR, Giandhari J, Pillay S, Tumedi KA, Nyepetsi G, Kebabonye M, Matsheka M, Mine M, Tokajian S, Hassan H, Salloum T, Merhi G, Koweyes J, Geoghegan JL, de Ligt J, Ren X, Storey M, Freed NE, Pattabiraman C, Prasad P, Desai AS, Vasanthapuram R, Schulz TF, Steinbrück L, Stadler T, Parisi A, Bianco A, García de Viedma D, Buenestado-Serrano S, Borges V, Isidro J, Duarte S, Gomes JP, Zuckerman NS, Mandelboim M, Mor O, Seemann T, Arnott A, Draper J, Gall M, Rawlinson W, Deveson I, Schlebusch S, McMahon J, Leong L, Lim CK, Chironna M, Loconsole D, Bal A, Josset L, Holmes E, St George K, Lasek-Nesselquist E, Sikkema RS, Oude Munnink B, Koopmans M, Brytting M, Sudha rani V, Pavani S, Smura T, Heim A, Kurkela S, Umair M, Salman M, Bartolini B, Rueca M, Drosten C, Wolff T, Silander O, Eggink D, Reusken C, Vennema H, Park A, Carrington C, Sahadeo N, Carr M, Gonzalez G, de Oliveira T, Faria N & Rambaut A (2021) Wellcome Open Research 6, 121.

Accommodating individual travel history and unsampled diversity in Bayesian phylogeographic inference of SARS-CoV-2.: Lemey P, Hong SL, Hill V, Baele G, Poletto C, Colizza V, O'Toole Á, McCrone JT, Andersen KG, Worobey M, Nelson MI, Rambaut A & Suchard MA (2020) Nature Communications 11, 5110.

A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology.: Rambaut A, Holmes EC, O'Toole Á, Hill V, McCrone JT, Ruis C, du Plessis L & Pybus OG (2020) Nature Microbiology 5, 1403-1407.

COVID-19 in health-care workers in three hospitals in the south of the Netherlands: a cross-sectional study.: Sikkema RS, Pas SD, Nieuwenhuijse DF, O'Toole Á, Verweij JJ, van der Linden A, Chestakova I, Schapendonk C, Pronk M, Lexmond P, Bestebroer T, Overmars RJ, van Nieuwkoop S, van den Bijllaardt W, Bentvelsen RG, van Rijen MML, Buiting AGM, van Oudheusden AJG, Diederen BM, Bergmans AMC, van der Eijk A, Molenkamp R, Rambaut A, Timen A, Kluytmans JAJW, Oude Munnink BB, Kluytmans van den Bergh MFQ & Koopmans MPG (2020) The Lancet Infectious Diseases 20, 1273-1280.

Author Correction: Rapid SARS-CoV-2 whole-genome sequencing and analysis for informed public health decision-making in the Netherlands (Nature Medicine, (2020), 26, 9, (1405-1410), 10.1038/s41591-020-0997-y).: Oude Munnink BB, Nieuwenhuijse DF, Stein M, O'Toole Á, Haverkate M, Mollers M, Kamga SK, Schapendonk C, Pronk M, Lexmond P, van der Linden A, Bestebroer T, Chestakova I, Overmars RJ, van Nieuwkoop S, Molenkamp R, van der Eijk AA, GeurtsvanKessel C, Vennema H, Meijer A, Rambaut A, van Dissel J, Sikkema RS, Timen A, Koopmans M, Oudehuis GJAPM, Schinkel J, Kluytmans J, Kluytmans-van den Bergh M, van den Bijllaardt W, Berntvelsen RG, van Rijen MML, Schneeberger P, Pas S, Diederen BM, Bergmans AMC, van der Eijk PAV, Verweij JJ, Buiting AGN, Streefkerk R, Aldenkamp AP, de Man P, Koelemal JGM, Ong D, Paltansing S, Veassen N, Sleven J, Bakker L, Brockhoff H, Rietveld A, Slijkerman Megelink F, Cohen Stuart J, de Vries A, van der Reijden W, Ros A, Lodder E, Verspui-van der Eijk E, Huijskens I, Kraan EM, van der Linden MPM, Debast SB, Naiemi NA, Kroes ACM, Damen M, Dinant S, Lekkerkerk S, Pontesilli O, Smit P, van Tienen C, Godschalk PCR, van Pelt J, Ott A, van der Weijden C, Wertheim H, Rahamat-Langendoen J, Reimerink J, Bodewes R, Duizer E, van der Veer B, Reusken C, Lutgens S, Schneeberger P, Hermans M, Wever P, Leenders A, ter Waarbeek H, Hoebe C & The Dutch-Covid-19 response team (2020) Nature Medicine 26, 1802.

Rapid and sensitive direct detection and identification of poliovirus from stool and environmental surveillance samples by use of nanopore sequencing.: Shaw AG, Majumdar M, Troman C, O'Toole Á, Benny B, Abraham D, Praharaj I, Kang G, Sharif S, Alam MM, Shaukat S, Angez M, Khurshid A, Mahmood N, Arshad Y, Rehman L, Mujtaba G, Akthar R, Salman M, Klapsa D, Hajarha Y, Asghar H, Bandyopadhyay A, Rambaut A, Martin J & Grassly N (2020) Journal of Clinical Microbiology 58, e00920.

Rapid SARS-CoV-2 whole-genome sequencing and analysis for informed public health decision-making in the Netherlands.: Oude Munnink BB, Nieuwenhuijse DF, Stein M, O'Toole Á, Haverkate M, Mollers M, Kamga SK, Schapendonk C, Pronk M, Lexmond P, van der Linden A, Bestebroer T, Chestakova I, Overmars RJ, van Nieuwkoop S, Molenkamp R, van der Eijk AA, GeurtsvanKessel C, Vennema H, Meijer A, Rambaut A, van Dissel J, Sikkema RS, Timen A, Koopmans M, Oudehuis GJAPM, Schinkel J, Kluytmans J, Kluytmans-van den Bergh M, van den Bijllaardt W, Berntvelsen RG, van Rijen MML, Schneeberger P, Pas S, Diederen BM, Bergmans AMC, van der Eijk PAV, Verweij J, Buiting AGN, Streefkerk R, Aldenkamp AP, de Man P, Koelemal JGM, Ong D, Paltansing S, Veassen N, Sleven J, Bakker L, Brockhoff H, Rietveld A, Slijkerman Megelink F, Cohen Stuart J, de Vries A, van der Reijden W, Ros A, Lodder E, Verspui-van der Eijk E, Huijskens I, Kraan EM, van der Linden MPM, Debast SB, Naiemi NA, Kroes ACM, Damen M, Dinant S, Lekkerkerk S, Pontesilli O, Smit P, van Tienen C, Godschalk PCR, van Pelt J, Ott A, van der Weijden C, Wertheim H, Rahamat-Langendoen J, Reimerink J, Bodewes R, Duizer E, van der Veer B, Reusken C, Lutgens S, Schneeberger P, Hermans M, Wever P, Leenders A, ter Waarbeek H, Hoebe C & The Dutch-Covid-19 response team (2020) Nature Medicine 26, 1405-1410.

Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020.: Alm E, Broberg EK, Connor T, Hodcroft EB, Komissarov AB, Maurer-Stroh S, Melidou A, Neher RA, O'Toole Á, Pereyaslov D & The WHO European Region sequencing laboratories and GISAID EpiCoV group (2020) Eurosurveillance 25, 2001410.