TABLE 3.
Amino acid identities in RGU fragments of novel and recently described BtCoV with selected CoV species
| CoV clade | Amino acid identity across 272 amino acids within the 816-bp fragment of reference strainm: |
|||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HKU8 | HKU7 | BtCoV 1k | BtCoV/ 512 | PEDV | HKU6 | NL63 | 229E | BtCoV Trinidad | HKU2 | SARSl | HKU9 | |
| EU-HKU8-likea | 99.6 | 95.6 | 94.5-94.1 | 82.0 | 84.2 | 85.7 | 83.8 | 82.7 | 85.3 | 81.2 | 62.1-63.2 | 64.3-65.1 |
| EU-HKU7-likeb | 95.6 | 99.6 | 92.3 | 81.6 | 82.7 | 84.9 | 81.2-81.6 | 82.7 | 84.9 | 81.6 | 61.4-62.5 | 63.2-64.0 |
| EU-MinCoV1-likec | 92.3 | 90.1 | 96.0-96.7 | 81.2 | 83.8 | 84.6 | 81.2 | 80.5 | 82.7 | 79.4 | 61.8-62.9 | 63.6-64.7 |
| BNM98-30-liked | 89.7 | 87.1 | 88.2-89.0 | 84.6 | 84.6 | 87.5 | 85.3-85.7 | 81.2 | 85.7 | 79.4 | 62.9-63.6 | 64.3-65.1 |
| BB98-15-likee | 88.2-88.6 | 86.0-86.4 | 87.5-88.2 | 85.3-85.7 | 89.0-89.3 | 86.8-87.1 | 85.3-85.7 | 80.9-81.2 | 82.4-86.0 | 82.0-82.4 | 63.6-74.7 | 65.8-66.5 |
| EU-HKU6-likef | 84.6 | 83.1 | 84.2-84.6 | 90.8 | 92.3 | 96.0 | 83.1 | 80.9 | 84.9 | 79.4 | 65.8-66.9 | 66.9-67.6 |
| EU-HKU2-likeg | 81.2 | 81.2 | 81.5 | 77.9 | 79.8 | 80.1 | 77.2 | 82.0 | 84.6 | 98.2 | 64.0-65.1 | 64.3-65.4 |
| GH-229E-likeh | 72.7-84.2 | 82.7-84.2 | 82.0-83.1 | 76.8-77.9 | 78.7-79.8 | 81.6-82.4 | 79.8-83.1 | 95.2-97.1 | 78.7-80.9 | 82.4-83.1 | 61.1-64.3 | 61.4-62.5 |
| EU-SARS-likei | 62.1-62.5 | 61.4-61.8 | 61.4-61.8 | 66.9-67.3 | 64.7-65.1 | 66.2-66.5 | 62.5-62.9 | 62.5-62.9 | 63.6-64.0 | 64.0-64.3 | 98.5-99.6 | 77.9-79.0 |
| Ghana348-likej | 66.2 | 65.1 | 66.2-66.5 | 65.8 | 65.1 | 65.8 | 62.9-63.6 | 64.7 | 65.4 | 66.2 | 82.7-84.2 | 82.7-83.8 |
BtCoV/BR98-53/Min sch/Bulgaria/2008; BtCoV/BR98-14/Min sch/Bulgaria/2008; BtCoV/BR98-37/Min sch/Bulgaria/2008; BtCoV/BR98-40/Min sch/Bulgaria/2008; BtCoV/BR98-52/Min sch/Bulgaria/2008; BtCoV/BR98-18/Min sch/Bulgaria/2008.
BtCoV/BR98-30/Min sch/Bulgaria/2008; BtCoV/BR98-31/Min sch/Bulgaria/2008.
BtCoVBtCoV/BR98-55/Min sch/Bulgaria/2008.
BtCoV/BNM98-30/Nyc lei/Bulgaria/2008.
BtCoV/BB98-15/Rhi bla/Bulgaria/2008; BtCoV/BM48-39/Rhi bla/Bulgaria/2008; BtCoV/BR98-12/Rhi bla/Bulgaria/2008; BtCoV/BM98-05/Rhi bla/Bulgaria/2008; BtCoV/BM48-28/Rhi fer/Bulgaria/2008.
BtCoV/NM98-62/Myo dau/Germany/2008.
BtCoV/BB98-41/Rhi bla/Bulgaria/2008; BtCoV/BR98-19/Rhi eur/Bulgaria/2008.
BtCoV/GhanaKwam8/Hip sp/Ghana/2008; BtCoV/GhanaKwam19/Hip sp/Ghana/2008; BtCoV/GhanaBuo344/Hip sp/Ghana/2008.
BtCoV/BB98-16/Rhi bla/Bulgaria/2008; BtCoV/BB98-18/Rhi bla/Bulgaria/2008; BtCoV/BM98-65/Rhi bla/Bulgaria/2008; BtCoV/BM48-34/Rhi fer/Bulgaria/2008; BtCoV/BM48-48/Rhi blaBulgaria/2008; BtCoV/BM48-32/Rhi meh/Bulgaria/2008; BtCoV/BM48-31/Rhi bla/Bulgaria/2008; BtCoV/BNM98-29/Rhi fer/Bulgaria/2008; BtCoV/BM48-35/Rhi fer/Bulgaria/2008; BtCoV/BR98-19/Rhi eur/Bulgaria/2008; BtCoV/BM98-07/Rhi meh/Bulgaria/2008; BtCoV/BM98-13/Rhi eur/Bulgaria/2008; BtCoV/BM98-05/Rhi eur/Bulgaria/2008; BtCoV/BM98-01/Rhi eur/Bulgaria/2008; BtCoV/BB98-43/Rhi eur/Bulgaria/2008; BtCoV/BM48-12/Rhi eur/Bulgaria/2008.
BtCoV/GhanaKwam348/Hip sp/Ghana/2008; BtCoV/GhanaKwam20/Hip sp/Ghana/2008.
BtCoV/1A/Min mag/China/2005; BtCoV/1B/Min pus/China/2006.
CoV clade SARS-like comprised: BtCoV/HKU3/1/Rhi sin/China/2005; BtCoV/Rf1/Rhi fer/China/2004; BtCoV/Rm1/Rhi mac/China/2004; BtCoV/273/Rhi fer/China2005; HCoV/SARS/Tor2/Hom sap/Canada/2003; HCoV/SARS/Urbani/Hom sap/China/2003; HCoV/CUHK-W1/Hom sap/China/2003; HCoV/Frankfurt1/Hom sap/Germany/2003; HCoV/SARS/GZ0204/Hom sap/China/2004; CivCoV/SZ03/Pag lar/China/2003; CivCoV/SARS/SZ16/Pag lar/China/2003; BtCoV/Rp3/Rhi pea/China2004.
Amino acid identity was calculated with MEGA 4 using the pairwise deletion option. The alignment comprised 816 bp located in the viral RNA-dependent RNA polymerase (RdRp) gene. Amino acid distance overlaps between novel BtCoV (columns) and CoV species (rows) are printed in boldface.