Detection and sequencing | |||||||
---|---|---|---|---|---|---|---|
Genus | Species | Population | No. of individuals | Host | Origin of population | Helicase | RdRP |
|
|
NL 10p RH | Bulk | Corn | Beltsville, Maryland | Yes* | Yes* |
|
|
R3605 | Bulk | Potato | NA, Michigan | − | − |
|
|
R3606 | Bulk | Potato | NA, Michigan | Yes | Yes |
|
|
Greenhouse | 200 | Mint | Various locations from OR and WA | Yes | Yes |
|
|
Cherry | 120 | Cherry | Hood River, OR | − | − |
|
|
CAR | 200 | Apple | Kenniwick, WA | Yes | Yes |
|
|
Pole Road | 200 | Raspberry | Lynden, WA | − | − |
|
|
R-BDM | Bulk | Raspberry | Lynden, WA | − | − |
|
|
82−13 | Bulk | Soybean | Calumet Co., WI | − | − |
|
|
511−14 | Bulk | Soybean | Chippewa Co., WI | − | − |
|
|
546−16 | Bulk | Soybean | Chippewa Co., WI | Yes | Yes |
|
|
736−13 | Bulk | Soybean | Grant Co., WI | Yes | Yes |
|
|
92−16 | Bulk | Soybean | Iowa Co., WI | − | − |
|
|
99−16 | Bulk | Soybean | Lafayette Co., WI | − | − |
|
|
128−16 | Bulk | Soybean | Marathon Co., WI | − | − |
|
|
551−14 | Bulk | Soybean | Marquette Co., WI | − | − |
|
|
Malek | Bulk | Potato | Portage CO., WI | Yes | Yes |
|
|
P* | Bulk | Potato | Portage CO., WI | Yes | Yes |
|
|
PRF | Bulk | Potato | Portage CO., WI | Yes | Yes |
|
|
PP6-1 | Bulk | Potato | Portage CO., WI | − | − |
|
|
469A-13 | Bulk | Soybean | Sheboygan Co., WI | Yes | Yes |
|
|
Lauer | Bulk | Potato | Waushara Co., WI | Yes | Yes |
|
|
422−14 | Bulk | Soybean | Wood Co., WI | − | − |
|
|
PA | Bulk | Corn | NA | Yes | Yes |
|
|
R3784 | Bulk | Potato | New Brunswick, CA** | No | Yes |
|
|
R3790 | Bulk | Potato | New Brunswick, CA** | Yes | Yes |
|
|
R3794 | Bulk | Potato | New Brunswick, CA** | Yes | Yes |
|
|
R3813 | Bulk | Potato | New Brunswick, CA** | − | − |
|
|
R3816 | Bulk | Potato | New Brunswick, CA** | − | − |
|
|
R3739 | Bulk | Potato | Prince Edward Island, CA** | − | − |
|
|
R3771 | Bulk | Potato | Prince Edward Island, CA** | − | − |
|
|
QCLA | Bulk | Potato | L'Acadie, Quebec, CA** | − | − |
A | ||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
RLNV1 | 3606 | Green house | Car | 546-16 | 736-13 | Malele | P* | PRF | 469A | Lauer | PA | R3794 | R3790 | |
RLNV1 | 98.65 | 98.77 | 99.26 | 98.53 | 98.89 | 96.93 | 98.89 | 99.63 | 98.89 | 98.65 | 99.75 | 98.65 | 99.63 | |
3606 | 11 | 99.39 | 99.14 | 99.14 | 99.51 | 96.56 | 99.51 | 99.02 | 99.51 | 99.75 | 98.89 | 99.75 | 99.02 | |
Greenhouse | 10 | 5 | 99.26 | 99.26 | 99.63 | 96.93 | 99.63 | 99.14 | 99.63 | 99.39 | 99.02 | 99.39 | 99.14 | |
Car | 6 | 7 | 6 | 99.26 | 99.63 | 97.17 | 99.63 | 99.63 | 99.63 | 99.14 | 99.51 | 99.14 | 99.63 | |
546-16 | 12 | 7 | 6 | 6 | 99.63 | 96.44 | 99.63 | 98.89 | 99.63 | 99.14 | 98.77 | 99.14 | 98.89 | |
736-13 | 9 | 4 | 3 | 3 | 3 | 96.81 | 100 | 99.26 | 100 | 99.51 | 99.14 | 99.51 | 99.26 | |
Malele | 25 | 28 | 25 | 23 | 29 | 26 | 96.81 | 97.3 | 96.81 | 96.56 | 97.17 | 96.56 | 97.3 | |
P* | 9 | 4 | 3 | 3 | 3 | 0 | 26 | 99.26 | 100 | 99.51 | 99.14 | 99.51 | 99.26 | |
PRF | 3 | 8 | 7 | 3 | 9 | 6 | 22 | 6 | 99.26 | 99.02 | 99.88 | 99.02 | 100 | |
469A | 9 | 4 | 3 | 3 | 3 | 0 | 26 | 0 | 6 | 99.51 | 99.14 | 99.51 | 99.26 | |
Lauer | 11 | 2 | 5 | 7 | 7 | 4 | 28 | 4 | 8 | 4 | 98.89 | 99.75 | 99.02 | |
PA | 2 | 9 | 8 | 4 | 10 | 7 | 23 | 7 | 1 | 7 | 9 | 98.89 | 99.88 | |
R3794 | 11 | 2 | 5 | 7 | 7 | 4 | 28 | 4 | 8 | 4 | 2 | 9 | 99.02 | |
R3790 | 3 | 8 | 7 | 3 | 9 | 6 | 22 | 6 | 0 | 6 | 8 | 1 | 8 | |
B | ||||||||||||||
RLNV1 | 3606 | Green house | Car | 546-16 | 736-13 | Malele | P* | PRF | 469A | Lauer | PA | R3794 | R3790 | |
RLNV1 | 99.63 | 100 | 100 | 99.26 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | |
3606 | 1 | 99.63 | 99.63 | 98.89 | 99.63 | 99.63 | 99.63 | 99.63 | 99.63 | 99.63 | 99.63 | 99.63 | 99.63 | |
Greenhouse | 0 | 1 | 100 | 99.26 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | |
Car | 0 | 1 | 0 | 99.26 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | |
546-16 | 2 | 3 | 2 | 2 | 99.26 | 99.26 | 99.26 | 99.26 | 99.26 | 99.26 | 99.26 | 99.26 | 99.26 | |
736-13 | 0 | 1 | 0 | 0 | 2 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | |
Malele | 0 | 1 | 0 | 0 | 2 | 0 | 100 | 100 | 100 | 100 | 100 | 100 | 100 | |
P* | 0 | 1 | 0 | 0 | 2 | 0 | 0 | 100 | 100 | 100 | 100 | 100 | 100 | |
PRF | 0 | 1 | 0 | 0 | 2 | 0 | 0 | 0 | 100 | 100 | 100 | 100 | 100 | |
469A | 0 | 1 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 100 | 100 | 100 | 100 | |
Lauer | 0 | 1 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 100 | 100 | 100 | |
PA | 0 | 1 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 100 | 100 | |
R3794 | 0 | 1 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 100 | |
R3790 | 0 | 1 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
A | |||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
RLNV1 | 3606 | Green house | Car | 546-16 | 736-13 | Malele | P* | PRF | 469A | Lauer | PA | R3784 | R3790 | R3794 | |
RLNV1 | 99.16 | 99.16 | 98.74 | 98.95 | 98.85 | 97.9 | 98.85 | 99.69 | 98.95 | 99.27 | 99.79 | 98.43 | 98.85 | 98.64 | |
3606 | 8 | 99.58 | 98.95 | 99.16 | 99.06 | 97.48 | 99.06 | 99.48 | 99.16 | 99.69 | 99.16 | 99.06 | 98.64 | 99.27 | |
Greenhouse | 8 | 4 | 99.37 | 99.58 | 99.48 | 97.48 | 99.48 | 99.48 | 99.58 | 99.48 | 99.16 | 98.85 | 98.64 | 99.06 | |
Car | 12 | 10 | 6 | 99.79 | 99.69 | 97.06 | 99.69 | 99.06 | 99.79 | 98.85 | 98.74 | 98.22 | 98.22 | 98.43 | |
546-16 | 10 | 8 | 4 | 2 | 99.9 | 97.27 | 99.9 | 99.27 | 100 | 99.06 | 98.95 | 98.43 | 98.43 | 98.64 | |
736-13 | 11 | 9 | 5 | 3 | 1 | 97.17 | 99.79 | 99.16 | 99.9 | 98.95 | 98.85 | 98.32 | 98.32 | 98.53 | |
Malele | 20 | 24 | 24 | 28 | 26 | 27 | 97.17 | 98.01 | 97.27 | 97.38 | 97.69 | 96.75 | 97.17 | 96.96 | |
P* | 11 | 9 | 5 | 3 | 1 | 2 | 27 | 99.16 | 99.9 | 98.95 | 98.85 | 98.32 | 98.32 | 98.53 | |
PRF | 3 | 5 | 5 | 9 | 7 | 8 | 19 | 8 | 99.27 | 99.37 | 99.69 | 98.74 | 99.16 | 98.95 | |
469A | 10 | 8 | 4 | 2 | 0 | 1 | 26 | 1 | 7 | 99.06 | 98.95 | 98.43 | 98.43 | 98.64 | |
Lauer | 7 | 3 | 5 | 11 | 9 | 10 | 25 | 10 | 6 | 9 | 99.27 | 98.95 | 98.53 | 99.16 | |
PA | 2 | 8 | 8 | 12 | 10 | 11 | 22 | 11 | 3 | 10 | 7 | 98.43 | 98.85 | 98.64 | |
R3784 | 15 | 9 | 11 | 17 | 15 | 16 | 31 | 16 | 12 | 15 | 10 | 15 | 99.37 | 99.79 | |
R3790 | 11 | 13 | 13 | 17 | 15 | 16 | 27 | 16 | 8 | 15 | 14 | 11 | 6 | 99.37 | |
R3794 | 13 | 7 | 9 | 15 | 13 | 14 | 29 | 14 | 10 | 13 | 8 | 13 | 2 | 6 | |
B | |||||||||||||||
RLNV1 | 3606 | Green house | Car | 546-16 | 736-13 | Malele | P* | PRF | 469A | Lauer | PA | R3784 | R3790 | R3794 | |
RLNV1 | 99.37 | 99.68 | 99.68 | 99.68 | 99.68 | 99.37 | 99.37 | 99.68 | 99.68 | 100 | 100 | 98.42 | 98.11 | 98.42 | |
3606 | 2 | 99.68 | 99.68 | 99.68 | 99.68 | 99.37 | 99.37 | 99.68 | 99.68 | 99.37 | 99.37 | 98.42 | 98.11 | 98.42 | |
Greenhouse | 1 | 1 | 100 | 100 | 100 | 99.68 | 99.68 | 100 | 100 | 99.68 | 99.68 | 98.74 | 98.42 | 98.74 | |
Car | 1 | 1 | 0 | 100 | 100 | 99.68 | 99.68 | 100 | 100 | 99.68 | 99.68 | 98.74 | 98.42 | 98.74 | |
546-16 | 1 | 1 | 0 | 0 | 100 | 99.68 | 99.68 | 100 | 100 | 99.68 | 99.68 | 98.74 | 98.42 | 98.74 | |
736-13 | 1 | 1 | 0 | 0 | 0 | 99.68 | 99.68 | 100 | 100 | 99.68 | 99.68 | 98.74 | 98.42 | 98.74 | |
Malele | 2 | 2 | 1 | 1 | 1 | 1 | 99.37 | 99.68 | 99.68 | 99.37 | 99.37 | 98.42 | 98.11 | 98.42 | |
P* | 2 | 2 | 1 | 1 | 1 | 1 | 2 | 99.68 | 99.68 | 99.37 | 99.37 | 98.42 | 98.11 | 98.42 | |
PRF | 1 | 1 | 0 | 0 | 0 | 0 | 1 | 1 | 100 | 99.68 | 99.68 | 98.74 | 98.42 | 98.74 | |
469A | 1 | 1 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 99.68 | 99.68 | 98.74 | 98.42 | 98.74 | |
Lauer | 0 | 2 | 1 | 1 | 1 | 1 | 2 | 2 | 1 | 1 | 100 | 98.42 | 98.11 | 98.42 | |
PA | 0 | 2 | 1 | 1 | 1 | 1 | 2 | 2 | 1 | 1 | 0 | 98.42 | 98.11 | 98.42 | |
R3784 | 5 | 5 | 4 | 4 | 4 | 4 | 5 | 5 | 4 | 4 | 5 | 5 | 99.68 | 100 | |
R3790 | 6 | 6 | 5 | 5 | 5 | 5 | 6 | 6 | 5 | 5 | 6 | 6 | 1 | 99.68 | |
R3794 | 5 | 5 | 4 | 4 | 4 | 4 | 5 | 5 | 4 | 4 | 5 | 5 | 0 | 1 |