Table 3.
List of global PDCoVs with whole genome sequences available in GenBank through March 2016.
| Strain name | Country | Collection date | GenBank # | Reference | Note: nucleotide deletion or insertionsa | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HKU15-44/2009 | China/Hong Kong | Year 2009 | JQ065042 | Woo et al. (2012) | |||||||||
| HKU15-155/2010 | China/Hong Kong | Year 2010 | JQ065043 | Woo et al., 2012) | 3-nt AAT del in S gene resulting in one aa N del; 3-nt TTA del in 3′UTR | ||||||||
| CHN/CHN-AN-2004 | China/Mainland | 24-May-2004 | KP757890 | Dong et al., 2015) | 3-nt TAA del in 3′UTR | ||||||||
| CHN/CH-Sichuan-S27/2012 | China/Mainland | Year 2012 | KT266822 | Wang et al., 2015) | 6-nt TTTGAA del in ORF1a between nt 1738 and 1745; 9-nt CCGGTTGGT del in ORF1a between nt 2810 and 2820; 3-nt AAT del in S gene resulting in one aa N del | ||||||||
| CHN/CHN—HN-2014 | China/Mainland | 24-Nov-2014 | KT336560 | Unpublished | 3-nt AAT del in S gene resulting in one aa N del | ||||||||
| CHN/CHN-JS-2014 | China/Mainland | 20-Dec-2014 | KP757892 | Dong et al. (2015) | 3-nt AAT del in S gene resulting in one aa N del | ||||||||
| CHN/CHN—HB-2014 | China/Mainland | 26-Dec-2014 | KP757891 | Dong et al. (2015) | 3-nt AAT del in S gene resulting in one aa N del | ||||||||
| CHN/CH-SXD1/2015 | China/Mainland | 20-Mar-2015 | KT021234 | Chen et al. (2015a) | 3-nt AAT del in S gene resulting in one aa N del | ||||||||
| CHN/CHJXNI2/2015 | China/Mainland | Mar-2015 | KR131621 | Song et al. (2015) | 3-nt AAT del in S gene resulting in one aa N del | ||||||||
| KOR/KNU14-04/2014 | South Korea | Apr-2014 | KM820765 | Lee and Lee (2014) | |||||||||
| THA/S5011/2015 | Thailand | 10-Jun-2015 | KU051641 | Janetanakit et al. (2016) | 3-nt CCT del in 5′UTR; 1-nt A del in 5′UTR; 6-nt TTTGAA del in ORF1a between nt 1738 and 1745; 9-nt CCGGTTGGT del in ORF1a between nt 2810 and 2820; 1-nt C ins in 3′UTR | ||||||||
| THA/S5015L/2015 | Thailand | 30-Jun-2015 | KU051649 | Janetanakit et al. (2016) | 3-nt CCT del in 5′UTR; 1-nt A del in 5′UTR; 6-nt TTTGAA del in ORF1a between nt 1738 and 1745; 9-nt CCGGTTGGT del in ORF1a between nt 2810 and 2820; 1-nt C ins in 3′UTR | ||||||||
| USA/Minnesota/2013 | USA | 14-Oct-2013 | KR265853 | Homwong et al. (2016) | |||||||||
| USA/Illinois121/2014 | USA | 4-Jan-2014 | KJ481931 | Marthaler et al. (2014a) | |||||||||
| USA/Illinois133/2014 | USA | 8-Jan-2014 | KJ601777 | Marthaler et al. (2014b) | |||||||||
| USA/Illinois134/2014 | USA | 8-Jan-2014 | KJ601778 | Marthaler et al. (2014b) | |||||||||
| USA/Illinois136/2014 | USA | 11-Jan-2014 | KJ601779 | Marthaler et al. (2014b) | |||||||||
| USA/Ohio137/2014 | USA | 26-Jan-2014 | KJ601780 | Marthaler et al. (2014b) | |||||||||
| USA/Ohio/OH1987/2014 | USA | 31-Jan-2014 | KJ462462 | Wang et al. (2014a) | |||||||||
| USA/Nebraska209/2014 | USA | 5-Feb-2014 | KR265860 | Homwong et al. (2016) | |||||||||
| USA/Nebraska210/2014 | USA | 5-Feb-2014 | KR265861 | Homwong et al. (2016) | |||||||||
| USA/Minnesota159/2014 | USA | 11-Feb-2014 | KR265859 | Homwong et al. (2016) | |||||||||
| USA/Illinois/IL2768/2014 | USA | 12-Feb-2014 | KJ584355 | Wang et al. (2014b) | |||||||||
| USA/Indiana/IN2847/2014 | USA | 13-Feb-2014 | KJ569769 | Wang et al. (2014c) | |||||||||
| USA/PA3148/2014 | USA | 18-Feb-2014 | KJ584358 | Wang et al. (2014b) | |||||||||
| USA/Iowa/IA8734/2014 | USA | 20-Feb-2014 | KJ567050 | Li et al. (2014) | |||||||||
| USA/SD3424/2014 | USA | 20-Feb-2014 | KJ584356 | Wang et al. (2014b) | |||||||||
| USA/Nebraska/NE3579/2014 | USA | 21-Feb-2014 | KJ584359 | Wang et al. (2014b) | |||||||||
| USA/Illinois272/2014 | USA | 23-Feb-2014 | KR265856 | Homwong et al. (2016) | |||||||||
| USA/Illinois273/2014 | USA | 23-Feb-2014 | KR265857 | Homwong et al. (2016) | |||||||||
| USA/OhioCVM1/2014 | USA | 1-Mar-2014 | KJ769231 | Ma et al. (2015) | |||||||||
| USA/Minnesota442/2014 | USA | 6-Mar-2014 | KR265847 | Homwong et al., 2016) | |||||||||
| USA/Kentucky/KY4813/2014 | USA | 7-Mar-2014 | KJ584357 | Wang et al. (2014b) | |||||||||
| USA/Minnesota214/2014 | USA | 14-Mar-2014 | KR265848 | Homwong et al. (2016) | |||||||||
| USA/Minnesota292/2014 | USA | 14-Mar-2014 | KR265864 | Homwong et al. (2016) | |||||||||
| USA/Michigan8977/2014 | USA | 17-Mar-2014 | KM012168 | Unpublished | |||||||||
| USA/Michigan/MI6148/2014 | USA | 18-Mar-2014 | KJ620016 | Wang et al. (2014b) | |||||||||
| USA/Ohio444/2014 | USA | 26-Mar-2014 | KR265862 | Homwong et al. (2016) | |||||||||
| USA/Ohio445/2014 | USA | 27-Mar-2014 | KR265863 | Homwong et al. (2016) | |||||||||
| USA/Michigan447/2014 | USA | 2-Apr-2014 | KR265849 | Homwong et al. (2016) | |||||||||
| USA/Michigan448/2014 | USA | 2-Apr-2014 | KR265850 | Homwong et al. (2016) | |||||||||
| USA/Illinois449/2014 | USA | 21-Apr-2014 | KR265852 | Homwong et al. (2016) | |||||||||
| USA/NorthCarolina452/2014 | USA | 6-May-2014 | KR265858 | Homwong et al. (2016) | |||||||||
| USA/Ohio/OH11846/2014 | USA | 7-May-2014 | KT381613 | Wang et al. (2016) | |||||||||
| USA/Indiana453/2014 | USA | 13-May-2014 | KR265851 | Homwong et al. (2016) | |||||||||
| USA/Minnesota454/2014 | USA | 21-May-2014 | KR265854 | Homwong et al. (2016) | |||||||||
| USA/Minnesota455/2014 | USA | 21-May-2014 | KR265855 | Homwong et al. (2016) | |||||||||
| USA/Illinois/2014/026PDV | USA | May-2014 | KP981395 | Chen et al. (2015b) | |||||||||
| USA/Iowa459/2014 | USA | 5-Jun-2014 | KR265865 | Homwong et al. (2016) | |||||||||
| USA/Arkansas61/2015 | USA | 24-Mar-2015 | KR150443 | Homwong et al. (2016) | |||||||||
a
Nucleotide deletions or insertions are based on comparison to the PDCoV HKU15-44/2009 strain. Nucleotide positions are based on PDCoV HKU15-44/2009.