Rapid in-country sequencing of whole virus genomes to inform
暂无分享,去创建一个
Joshua B. Singer | R. Biek | D. Marston | A. Fooks | M. Tildesley | R. Gifford | D. Manalo | S. Hill | S. Thumbi | A. Mwatondo | K. Hampson | M. E. Miranda | L. Meredith | A. Czupryna | K. Brunker | Gurdeep Jaswant | K. Lushasi | A. Lugelo | Frederick Ade | Gati Wambura | R. Steenson | C. Bautista | M. R. R. Gomez | M. Y. Chu | Maya Kamat | K. Rysava | Jason Espineda | E. A. V. Silo | Ariane Mae Aringo | Rona P. Bernales | Florencio F Adonay | D. Jennings | Wenlong Zhu | J. Singer | M. Maturi | Radoslaw Poplawski | Chanasa Ngeleja | Veronicah M Chuchu | Anna M Czupryna | S. Thumbi
[1] P. Lemey,et al. Using phylogeographic approaches to analyse the dispersal history, velocity and direction of viral lineages — Application to rabies virus spread in Iran , 2019, Molecular ecology.
[2] A. Ramette,et al. Rapid and Cost-Efficient Enterovirus Genotyping from Clinical Samples Using Flongle Flow Cells , 2019, Genes.
[3] J. Benavides,et al. An evaluation of Brazil’s surveillance and prophylaxis of canine rabies between 2008 and 2017 , 2019, PLoS neglected tropical diseases.
[4] David A. Eccles,et al. Tree Lab: Portable Genomics for Early Detection of Plant Viruses and Pests in Sub-Saharan Africa , 2019, bioRxiv.
[5] D. Marston,et al. Pan-lyssavirus Real Time RT-PCR for Rabies Diagnosis. , 2019, Journal of visualized experiments : JoVE.
[6] J. Mcgrane,et al. Lessons for rabies control and elimination programmes: a decade of One Health experience from Bali, Indonesia. , 2019, Revue scientifique et technique.
[7] E. Schelling,et al. Reaching for the low hanging fruits: One health benefits of joint crop–livestock services for small-scale farmers , 2019, One health.
[8] E. Wright,et al. Bats and Viruses: Emergence of Novel Lyssaviruses and Association of Bats with Viral Zoonoses in the EU , 2019, Tropical medicine and infectious disease.
[9] B. Bruce,et al. Zoonotic Source Attribution of Salmonella enterica Serotype Typhimurium Using Genomic Surveillance Data, United States , 2019, Emerging infectious diseases.
[10] Kyriakos Efthymiadis,et al. Assessment of metagenomic Nanopore and Illumina sequencing for recovering whole genome sequences of chikungunya and dengue viruses directly from clinical samples , 2018, Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin.
[11] F. Balloux,et al. From Theory to Practice: Translating Whole-Genome Sequencing (WGS) into the Clinic , 2018, Trends in microbiology.
[12] C. Rupprecht,et al. Non‐human primates as a reservoir for rabies virus in Brazil , 2018, Zoonoses and public health.
[13] I. Tiembré,et al. Bolstering human rabies surveillance in Africa is crucial to eliminating canine-mediated rabies , 2018, PLoS neglected tropical diseases.
[14] Karthik Gangavarapu,et al. An amplicon-based sequencing framework for accurately measuring intrahost virus diversity using PrimalSeq and iVar , 2018, Genome Biology.
[15] L. Boykin,et al. Real time portable genome sequencing for global food security , 2018, bioRxiv.
[16] M. Berriman,et al. Eradication genomics—lessons for parasite control , 2018, Science.
[17] T. Peto,et al. Detection of Viral Pathogens With Multiplex Nanopore MinION Sequencing: Be Careful With Cross-Talk , 2018, bioRxiv.
[18] U. Obolski,et al. Genomic and epidemiological monitoring of yellow fever virus transmission potential , 2018, Science.
[19] Joshua B. Singer,et al. GLUE: a flexible software system for virus sequence data , 2018, BMC Bioinformatics.
[20] Adam Kushner,et al. Electricity and generator availability in LMIC hospitals: improving access to safe surgery. , 2018, The Journal of surgical research.
[21] P. Lemey,et al. Landscape attributes governing local transmission of an endemic zoonosis: Rabies virus in domestic dogs , 2018, Molecular Ecology.
[22] N. Chitnis,et al. Vaccination of dogs in an African city interrupts rabies transmission and reduces human exposure , 2017, Science Translational Medicine.
[23] Mauricio O. Carneiro,et al. Scaling accurate genetic variant discovery to tens of thousands of samples , 2017, bioRxiv.
[24] Jennifer L. Gardy,et al. Towards a genomics-informed, real-time, global pathogen surveillance system , 2017, Nature Reviews Genetics.
[25] Marius Gilbert,et al. Using Viral Gene Sequences to Compare and Explain the Heterogeneous Spatial Dynamics of Virus Epidemics , 2017, Molecular biology and evolution.
[26] Tiziana Lembo,et al. Driving improvements in emerging disease surveillance through locally relevant capacity strengthening , 2017, Science.
[27] D. Marston,et al. First Complete Genomic Sequence of a Rabies Virus from the Republic of Tajikistan Obtained Directly from a Flinders Technology Associates Card , 2017, Genome Announcements.
[28] X. de Lamballerie,et al. Genetic analysis of a rabies virus host shift event reveals within-host viral dynamics in a new host , 2017, Virus evolution.
[29] L. Real,et al. Processes Underlying Rabies Virus Incursions across US–Canada Border as Revealed by Whole-Genome Phylogeography , 2017, Emerging infectious diseases.
[30] J. Crump,et al. One Health contributions towards more effective and equitable approaches to health in low- and middle-income countries , 2017, Philosophical Transactions of the Royal Society B: Biological Sciences.
[31] S. F. Aguiar,et al. Establishment and cryptic transmission of Zika virus in Brazil and the Americas , 2017, Nature.
[32] Trevor Bedford,et al. Virus genomes reveal factors that spread and sustained the Ebola epidemic , 2017, Nature.
[33] M. Shi,et al. Successful strategies implemented towards the elimination of canine rabies in the Western Hemisphere , 2017, Antiviral research.
[34] E. Zaikova,et al. Real-Time DNA Sequencing in the Antarctic Dry Valleys Using the Oxford Nanopore Sequencer. , 2017, Journal of biomolecular techniques : JBT.
[35] L. Real,et al. Application of high-throughput sequencing to whole rabies viral genome characterisation and its use for phylogenetic re-evaluation of a raccoon strain incursion into the province of Ontario. , 2017, Virus research.
[36] Trevor Bedford,et al. Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples , 2017, Nature Protocols.
[37] J. Dushoff,et al. Surveillance to Establish Elimination of Transmission and Freedom from Dog-mediated Rabies , 2016, bioRxiv.
[38] Marco Vignuzzi,et al. Large-Scale Phylogenomic Analysis Reveals the Complex Evolutionary History of Rabies Virus in Multiple Carnivore Hosts , 2016, PLoS pathogens.
[39] Stephen W. Martin,et al. 2016: the beginning of the end of rabies? , 2016, The Lancet. Global health.
[40] J. Zinsstag,et al. Validation of a Rapid Rabies Diagnostic Tool for Field Surveillance in Developing Countries , 2016, PLoS neglected tropical diseases.
[41] Oliver G. Pybus,et al. Mobile real-time surveillance of Zika virus in Brazil , 2016, Genome Medicine.
[42] Christl A. Donnelly,et al. Revealing the Micro-scale Signature of Endemic Zoonotic Disease Transmission in an African Urban Setting , 2016, PLoS pathogens.
[43] Sunny E. Townsend,et al. Mobile Phones As Surveillance Tools: Implementing and Evaluating a Large-Scale Intersectoral Surveillance System for Rabies in Tanzania , 2016, PLoS medicine.
[44] S. Cleaveland,et al. Integrating serological and genetic data to quantify cross-species transmission: brucellosis as a case study , 2016, Parasitology.
[45] B. Quiambao,et al. Molecular and mathematical modeling analyses of inter-island transmission of rabies into a previously rabies-free island in the Philippines. , 2016, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.
[46] David A. Matthews,et al. Real-time, portable genome sequencing for Ebola surveillance , 2016, Nature.
[47] G. Wilkie,et al. Elucidating the phylodynamics of endemic rabies virus in eastern Africa using whole-genome sequencing , 2015, Virus evolution.
[48] Joshua Quick,et al. Rapid draft sequencing and real-time nanopore sequencing in a hospital outbreak of Salmonella , 2015, Genome Biology.
[49] J. Crump,et al. One health: Endemic zoonoses in the tropics: a public health problem hiding in plain sight , 2018 .
[50] N. Loman,et al. A complete bacterial genome assembled de novo using only nanopore sequencing data , 2015, Nature Methods.
[51] C. Happi,et al. Empowering African genomics for infectious disease control , 2014, Genome Biology.
[52] D. Streicker,et al. The role of viral evolution in rabies host shifts and emergence , 2014, Current opinion in virology.
[53] S. Cleaveland,et al. Implementing Pasteur's vision for rabies elimination , 2014, Science.
[54] Samuel Soubeyrand,et al. A Bayesian approach for inferring the dynamics of partially observed endemic infectious diseases from space-time-genetic data , 2014, Proceedings of the Royal Society B: Biological Sciences.
[55] Alexandros Stamatakis,et al. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies , 2014, Bioinform..
[56] L. Nel,et al. Dog rabies in southern Africa: regional surveillance and phylogeographical analyses are an important component of control and elimination strategies , 2013, Virus Genes.
[57] P. Klepac,et al. Towards the endgame and beyond: complexities and challenges for the elimination of infectious diseases , 2013, Philosophical Transactions of the Royal Society B: Biological Sciences.
[58] X. de Lamballerie,et al. Next generation sequencing of viral RNA genomes , 2013, BMC Genomics.
[59] Akira Noguchi,et al. Genetic Diversity and Geographic Distribution of Genetically Distinct Rabies Viruses in the Philippines , 2013, PLoS neglected tropical diseases.
[60] K. Katoh,et al. MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability , 2013, Molecular biology and evolution.
[61] David L. Bergman,et al. Molecular Inferences Suggest Multiple Host Shifts of Rabies Viruses from Bats to Mesocarnivores in Arizona during 2001–2009 , 2012, PLoS pathogens.
[62] Donald A Henderson,et al. The eradication of smallpox--an overview of the past, present, and future. , 2011, Vaccine.
[63] M. Suchard,et al. Phylodynamics and Human-Mediated Dispersal of a Zoonotic Virus , 2010, PLoS pathogens.
[64] Tiziana Lembo,et al. Exploring reservoir dynamics: a case study of rabies in the Serengeti ecosystem. , 2008, The Journal of applied ecology.
[65] C. Packer,et al. Molecular epidemiology identifies only a single rabies virus variant circulating in complex carnivore communities of the Serengeti , 2007, Proceedings of the Royal Society B: Biological Sciences.
[66] V. Souza,et al. Molecular epizootiology of rabies associated with terrestrial carnivores in Mexico. , 2005, Virus research.
[67] Nipada Ruankaew,et al. Transmission dynamics of rabies virus in Thailand: Implications for disease control , 2005, BMC infectious diseases.
[68] C. Rupprecht,et al. Mongoose rabies in southern Africa: a re-evaluation based on molecular epidemiology. , 2005, Virus research.
[69] Nevio Zagaria,et al. Disease eradication, elimination and control: the need for accurate and consistent usage. , 2004, Trends in parasitology.
[70] S. Cleaveland,et al. A hundred years of rabies in Kenya and the strategy for eliminating dog-mediated rabies by 2030 [version 2; peer review: 4 approved] , 2020 .
[71] SallyAnn Harbison,et al. A review of the potential of the MinION™ single‐molecule sequencing system for forensic applications , 2018, WIREs Forensic Science.
[72] Claude-Alain H. Roten,et al. Fast and accurate short read alignment with Burrows–Wheeler transform , 2009, Bioinform..