Volume 19, Number 5—May 2013
Research
Full-Genome Deep Sequencing and Phylogenetic Analysis of Novel Human Betacoronavirus
Matthew Cotten, Tommy T. Lam, Simon J. Watson, Anne L. Palser, Velislava Petrova, Paul Grant, Oliver G. Pybus, Andrew Rambaut, Yi Guan, Deenan Pillay, Paul Kellam
, and Eleni Nastouli
, and Eleni NastouliTable 1
Nucleotide and amino acid differences between novel human betacoronaviruses EMC/2012 and England/Qatar/2012 major ORFs
| ORF* | Nucleotide |
Amino acid |
|||
|---|---|---|---|---|---|
| Difference† | Change, %‡ | Difference† | Change, %‡§ | ||
| ORF 3 | 4 | 1.28 | 2 | 1.92 | |
| N | 11 | 0.86 | 4 | 0.94 | |
| ORF 8b | 2 | 0.59 | 1 | 0.88 | |
| ORF 4a | 3 | 0.88 | 1 | 0.88 | |
| NSP13 | 4 | 0.24 | 4 | 0.71 | |
| NSP2 | 7 | 0.35 | 4 | 0.61 | |
| NSP15 | 3 | 0.29 | 2 | 0.58 | |
| ORF 5 | 3 | 0.44 | 1 | 0.44 | |
| NSP3 | 21 | 0.37 | 8 | 0.42 | |
| NSP4 | 3 | 0.20 | 2 | 0.39 | |
| ORF 4b | 4 | 0.46 | 1 | 0.34 | |
| ORF 1a | 45 | 0.34 | 14 | 0.32 | |
| S | 10 | 0.24 | 2 | 0.15 | |
| ORF 1b | 15 | 0.19 | 3 | 0.11 | |
| E | 0 | 0.00 | 0 | 0.00 | |
| M | 0 | 0.00 | 0 | 0.00 | |
| NSP1 | 2 | 0.35 | 0 | 0.00 | |
| NSP5 | 2 | 0.22 | 0 | 0.00 | |
| NSP6 | 4 | 0.46 | 0 | 0.00 | |
| NSP7 | 1 | 0.40 | 0 | 0.00 | |
| NSP8 | 1 | 0.17 | 0 | 0.00 | |
| NSP9 | 3 | 0.91 | 0 | 0.00 | |
| NSP10 | 1 | 0.24 | 0 | 0.00 | |
| NSP11 | 0 | 0.00 | 0 | 0.00 | |
| NSP12 | 4 | 0.14 | 0 | 0.00 | |
| NSP14 | 3 | 0.19 | 0 | 0.00 | |
| NSP16 | 1 | 0.11 | 0 | 0.00 | |
*ORF nomenclature is from van Boheemen et al. (3). ORF, open reading frame; NSP, nonstructural protein.
†No. nucleotide or amino acid differences between aligned ORF or their predicted protein products.
‡No. differences (nucleotide or amino acid) divided by the length of the ORF or the predicted protein.
§ORFs were sorted by decreasing amino acid percentage change.
