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Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2 with grinch

2021-09-17Journal article Open access
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dc.contributor.authorO'Toole, Áine
dc.contributor.authorHill, Verity
dc.contributor.authorPybus, Oliver G.
dc.contributor.authorWatts, Alexander
dc.contributor.authorBogoch, Issac I.
dc.contributor.authorKhan, Kamran
dc.contributor.authorMessina, Jane P.
dc.contributor.authorTegally, Houriiyah
dc.contributor.authorLessells, Richard R.
dc.contributor.authorGiandhari, Jennifer
dc.contributor.authorPillay, Sureshnee
dc.contributor.authorTumedi, Kefentse Arnold
dc.contributor.authorNyepetsi, Gape
dc.contributor.authorKebabonye, Malebogo
dc.contributor.authorMatsheka, Maitshwarelo
dc.contributor.authorMine, Madisa
dc.contributor.authorTokajian, Sima
dc.contributor.authorHassan, Hamad
dc.contributor.authorSalloum, Tamara
dc.contributor.authorMerhi, Georgi
dc.contributor.authorKoweyes, Jad
dc.contributor.authorGeoghegan, Jemma L.
dc.contributor.authorde Ligt, Joep
dc.contributor.authorRen, Xiaoyun
dc.contributor.authorStorey, Matthew
dc.contributor.authorFreed, Nikki E.
dc.contributor.authorPattabiraman, Chitra
dc.contributor.authorPrasad, Pramada
dc.contributor.authorDesai, Anita S.
dc.contributor.authorVasanthapuram, Ravi
dc.contributor.authorSchulz, Thomas F.
dc.contributor.authorSteinbrück, Lars
dc.contributor.authorStadler, Tanja
dc.contributor.authorParisi, Antonio
dc.contributor.authorBianco, Angelica
dc.contributor.authorGarcía de Viedma, Darío
dc.contributor.authorBuenestado-Serrano, Sergio
dc.contributor.authorBorges, Vítor
dc.contributor.authorIsidro, Joana
dc.contributor.authorDuarte, Sílvia
dc.contributor.authorGomes, João Paulo
dc.contributor.authorZuckerman, Neta S.
dc.contributor.authorMandelboim, Michal
dc.contributor.authorMor, Orna
dc.contributor.authorSeemann, Torsten
dc.contributor.authorArnott, Alicia
dc.contributor.authorDraper, Jenny
dc.contributor.authorGall, Mailie
dc.contributor.authorRawlinson, William
dc.contributor.authorDeveson, Ira
dc.contributor.authorSchlebusch, Sanmarié
dc.contributor.authorMcMahon, Jamie
dc.contributor.authorLeong, Lex
dc.contributor.authorLim, Chuan Kok
dc.contributor.authorChironna, Maria
dc.contributor.authorLoconsole, Daniela
dc.contributor.authorBal, Antonin
dc.contributor.authorJosset, Laurence
dc.contributor.authorHolmes, Edward
dc.contributor.authorSt. George, Kirsten
dc.contributor.authorLasek-Nesselquist, Erica
dc.contributor.authorSikkema, Reina S.
dc.contributor.authorOude Munnink, Bas
dc.contributor.authorKoopmans, Marion
dc.contributor.authorBrytting, Mia
dc.contributor.authorSudha rani, V.
dc.contributor.authorPavani, S.
dc.contributor.authorSmura, Teemu
dc.contributor.authorHeim, Albert
dc.contributor.authorKurkela, Satu
dc.contributor.authorUmair, Massab
dc.contributor.authorSalman, Muhammad
dc.contributor.authorBartolini, Barbara
dc.contributor.authorRueca, Martina
dc.contributor.authorDrosten, Christian
dc.contributor.authorWolff, Thorsten
dc.contributor.authorSilander, Olin
dc.contributor.authorEggink, Dirk
dc.contributor.authorReusken, Chantal
dc.contributor.authorVennema, Harry
dc.contributor.authorPark, Aekyung
dc.contributor.authorCarrington, Christine
dc.contributor.authorSahadeo, Nikita
dc.contributor.authorCarr, Michael
dc.contributor.authorGonzalez, Gabo
dc.contributor.authorde Oliveira, Tulio
dc.contributor.authorFaria, Nuno
dc.contributor.authorRambaut, Andrew
dc.contributor.authorKraemer, Moritz U.G.
dc.date.accessioned2022-07-05T15:12:38Z
dc.date.available2022-07-05T15:12:38Z
dc.date.issued2021-09-17
dc.description.abstractLate in 2020, two genetically-distinct clusters of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) with mutations of biological concern were reported, one in the United Kingdom and one in South Africa. Using a combination of data from routine surveillance, genomic sequencing and international travel we track the international dispersal of lineages B.1.1.7 and B.1.351 (variant 501Y-V2). We account for potential biases in genomic surveillance efforts by including passenger volumes from location of where the lineage was first reported, London and South Africa respectively. Using the software tool grinch (global report investigating novel coronavirus haplotypes), we track the international spread of lineages of concern with automated daily reports, Further, we have built a custom tracking website (cov-lineages.org/global_report.html) which hosts this daily report and will continue to include novel SARS-CoV-2 lineages of concern as they are detected.pt_PT
dc.description.sponsorshipI.I.B. is supported by the Canadian Institutes of Health Research, COVID-19 Rapid Research Funding Opportunity (02179-000). K.K. is the founder of BlueDot, a social enterprise that develops digital technologies for public health. K.K., A.W., A.T.B. and C.H. are employed at BlueDot. I.I.B. has consulted for BlueDot. T.d.O. and the NGS-SA is funded by the South African Medical Research Council (SAMRC), MRC SHIP and the Department of Science and Innovation (DSI) of South Africa. N.R.F. acknowledges support from a Wellcome Trust and Royal Society Sir Henry Dale Fellowship (204311/Z/16/Z) and a Medical Research Council-São Paulo Research Foundation CADDE partnership award (MR/S0195/1 and FAPESP 18/14389-0). VH was supported by the Biotechnology and Biological Sciences Research Council (BBSRC) [grant number BB/M010996/1]. M.U.G.K. acknowledges support from the Branco Weiss Fellowship and EU grant 874850 MOOD. O.G.P. , J.P.M. and M.U.G.K. acknowledge support from the Oxford Martin School. AR acknowledges the support of the Wellcome Trust (Collaborators Award 206298/Z/17/Z – ARTIC network) and the European Research Council (grant agreement no. 725422 – ReservoirDOCS). A.OT is supported by the Wellcome Trust Hosts, Pathogens & Global Health Programme [grant number: grant.203783/Z/16/Z] and Fast Grants [award number: 2236]. COG-UK is supported by funding from the Medical Research Council (MRC) part of UK Research & Innovation (UKRI), the National Institute of Health Research (NIHR) and Genome Research Limited, operating as the Wellcome Sanger Institute.TFS acknowledges support from the Deutsche Forschungsgemeinschaft (SFB900, EXC2155 RESIST). SeqCOVID-SPAIN is supported by a grant from the Instituto de Salud Carlos III COV0020/00140.pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.citationWellcome Open Res. 2021 Sep 17;6:121. doi: 10.12688/wellcomeopenres.16661.2. eCollection 2021pt_PT
dc.identifier.doi10.12688/wellcomeopenres.16661.2pt_PT
dc.identifier.issn2398-502X
dc.identifier.urihttp://hdl.handle.net/10400.18/8059
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherF1000Researchpt_PT
dc.relationThe evolutionary dynamics of pathogen emergence and establishment: from Reservoir Detection to Outbreak Control
dc.relationUniversity of Edinburgh - Hosts, Pathogens & Global Health
dc.relation.publisherversionhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC8176267/pt_PT
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.subjectB.1.1.7; B.1.351pt_PT
dc.subjectN501Ypt_PT
dc.subjectSARS-CoV-2pt_PT
dc.subjectAir Travelpt_PT
dc.subjectCoronaviruspt_PT
dc.subjectGenome Sequencingpt_PT
dc.subjectGenomic Epidemiologypt_PT
dc.subjectGenomic Surveillancept_PT
dc.subjectGenomicspt_PT
dc.subjectPandemicpt_PT
dc.subjectSequencingpt_PT
dc.subjectSurveillancept_PT
dc.subjectViruspt_PT
dc.subjectCOVID-19pt_PT
dc.subjectInfecções Respiratóriaspt_PT
dc.titleTracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2 with grinchpt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleThe evolutionary dynamics of pathogen emergence and establishment: from Reservoir Detection to Outbreak Control
oaire.awardTitleUniversity of Edinburgh - Hosts, Pathogens & Global Health
oaire.awardURIinfo:eu-repo/grantAgreement/EC/H2020/725422/EU
oaire.awardURIinfo:eu-repo/grantAgreement/WT/Pathogen Biology and Disease Transmission/203783
oaire.citation.startPage121pt_PT
oaire.citation.titleWellcome Open Researchpt_PT
oaire.citation.volume6pt_PT
oaire.fundingStreamH2020
oaire.fundingStreamPathogen Biology and Disease Transmission
project.funder.identifierhttp://doi.org/10.13039/501100008530
project.funder.identifierhttp://doi.org/10.13039/100010269
project.funder.nameEuropean Commission
project.funder.nameWellcome Trust
rcaap.embargofctAcesso de acordo com política editorial da revista.pt_PT
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
relation.isProjectOfPublication04164626-c213-47a7-8a89-5c24f81eabbe
relation.isProjectOfPublication155a2bab-5e51-4f79-bb14-3a13e025b4d6
relation.isProjectOfPublication.latestForDiscovery04164626-c213-47a7-8a89-5c24f81eabbe

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