Full-genome deep sequencing and phylogenetic analysis of novel human betacoronavirus. Cotten, M., Lam, T. T., Watson, S. J., Palser, A. L., Petrova, V., Grant, P., Pybus, O. G., Rambaut, A., Guan, Y., Pillay, D., Kellam, P., & Nastouli, E. Emerging infectious diseases, 19(5):736–742B, May, 2013. doi abstract bibtex A novel betacoronavirus associated with lethal respiratory and renal complications was recently identified in patients from several countries in the Middle East. We report the deep genome sequencing of the virus directly from a patient's sputum sample. Our high-throughput sequencing yielded a substantial depth of genome sequence assembly and showed the minority viral variants in the specimen. Detailed phylogenetic analysis of the virus genome (England/Qatar/2012) revealed its close relationship to European bat coronaviruses circulating among the bat species of the Vespertilionidae family. Molecular clock analysis showed that the 2 human infections of this betacoronavirus in June 2012 (EMC/2012) and September 2012 (England/Qatar/2012) share a common virus ancestor most likely considerably before early 2012, suggesting the human diversity is the result of multiple zoonotic events.
@article{cotten_full-genome_2013,
title = {Full-genome deep sequencing and phylogenetic analysis of novel human betacoronavirus.},
volume = {19},
issn = {1080-6059 1080-6040},
doi = {10.3201/eid1905.130057},
abstract = {A novel betacoronavirus associated with lethal respiratory and renal complications was recently identified in patients from several countries in the Middle East. We report the deep genome sequencing of the virus directly from a patient's sputum sample. Our high-throughput sequencing yielded a substantial depth of genome sequence assembly and showed the minority viral variants in the specimen. Detailed phylogenetic analysis of the virus genome (England/Qatar/2012) revealed its close relationship to European bat coronaviruses circulating among the bat species of the Vespertilionidae family. Molecular clock analysis showed that the 2 human infections of this betacoronavirus in June 2012 (EMC/2012) and September 2012 (England/Qatar/2012) share a common virus ancestor most likely considerably before early 2012, suggesting the human diversity is the result of multiple zoonotic events.},
language = {eng},
number = {5},
journal = {Emerging infectious diseases},
author = {Cotten, Matthew and Lam, Tommy T. and Watson, Simon J. and Palser, Anne L. and Petrova, Velislava and Grant, Paul and Pybus, Oliver G. and Rambaut, Andrew and Guan, Yi and Pillay, Deenan and Kellam, Paul and Nastouli, Eleni},
month = may,
year = {2013},
pmid = {23693015},
pmcid = {PMC3647518},
keywords = {*Genome, Viral, Animals, Base Sequence, Chiroptera/virology, Coronavirus Infections/*diagnosis/virology, Coronavirus/classification/*genetics/isolation \& purification, DNA Primers, DNA, Complementary/genetics, Evolution, High-Throughput Nucleotide Sequencing, Humans, Jordan, Molecular Sequence Data, Phylogeny, Qatar, RNA, Viral/*genetics, Reverse Transcriptase Polymerase Chain Reaction, Saudi Arabia, computer-aided design, coronavirus infections, disease transmission, infectious, molecular, respiratory tract infections, viruses, zoonoses},
pages = {736--742B},
}
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