Background
Methods
Study area
Sample collection
DNA template preparation
Molecular markers
Analysis of the amplification product
Results
Sequence analysis
Isolate names | Year | Genotype | Sub-type | No. repeat units |
---|---|---|---|---|
HNNY1 | 2011 | VK210 | HN7 | 20 |
HNNY2 | 2011 | VK210 | HN3 | 21 |
HNNY3 | 2011 | VK210 | HN1 | 20 |
HNNY4 | 2011 | VK210 | HN7 | 20 |
HNNY5 | 2011 | VK210 | HN3 | 21 |
HNNY6 | 2011 | VK210 | HN3 | 21 |
HNNY7 | 2011 | VK210 | HN2 | 20 |
HNNY8 | 2011 | VK210 | HN7 | 20 |
HNSQ1 | 2011 | VK210 | HN4 | 20 |
HNSQ2 | 2011 | VK210 | HN4 | 20 |
HNSQ3 | 2011 | VK210 | HN4 | 20 |
HNSQ4 | 2011 | VK210 | HN7 | 20 |
HNSQ5 | 2008 | VK210 | HN7 | 20 |
HNSQ6 | 2008 | VK210 | HN7 | 20 |
HNSQ7 | 2008 | VK210 | HN7 | 20 |
HNSQ8 | 2008 | VK210 | HN7 | 20 |
HNSQ9 | 2011 | VK210 | HN7 | 20 |
HNSQ10 | 2011 | VK210 | HN7 | 20 |
HNSQ11 | 2011 | VK210 | HN7 | 20 |
HNSQ12 | 2008 | VK210 | HN8 | 20 |
HNSQ13 | 2011 | VK210 | HN3 | 21 |
HNSQ14 | 2011 | VK210 | HN3 | 21 |
HNSQ15 | 2011 | VK210 | HN3 | 21 |
HNSQ16 | 2011 | VK210 | HN3 | 21 |
HNSQ17 | 2011 | VK210 | HN3 | 21 |
HNSQ18 | 2008 | VK210 | HN3 | 21 |
HNSQ19 | 2008 | VK210 | HN3 | 21 |
HNSQ20 | 2011 | VK210 | HN5 | 22 |
HNSQ21 | 2011 | VK210 | HN6 | 20 |
HNSQ22 | 2011 | VK210 | HN6 | 20 |
HNZK1 | 2011 | VK210 | HN3 | 21 |
HNZMD1 | 2011 | VK210 | HN7 | 20 |
Polymorphism of the central repeat region
Assigned name | Amino acid repeat units | Location of base conversion | Base conversion | Changes of amino acid |
---|---|---|---|---|
A | GGA GAC AGA GCA GAT GGA CAG CCA GCA | Basic repeat units of VK210 | ||
G D R A D G Q P A | ||||
B | GGA AAT GGT GCA GGT GGA CAG GCA GCA | 4-6 | GAC-AAT | D-N |
7-9 | AGA-GGT | R-G | ||
G N G A G G Q A A | 14 | A-G | D-G | |
22 | C-G | P-A | ||
D | GGT GAT AGA GCA GCT GGA CAA CCA GCA | 14 | A-C | D-A |
G D R A A G Q P A | ||||
E | GGC GAT GGA GCA GCT GGA CAG CCA GCA | 7 | A-G | R-G |
G D G A A G Q P A | 14 | A-C | D-A | |
F | GGA GAC AGA GCA GAT GGA CAG GCA GCA | 22 | C-G | P-A |
G D R A D G Q A A | ||||
J | GGA AAT GGT GCA GGT GGA CAG CCA GCA | 4-6 | GAC-AAT | D-N |
7-9 | AGA-GGT | R-G | ||
G N G A G G Q P A | 14 | A-G | D-G | |
K | GGA GAT AGA GCA GCT GGA CAG GCA GCA | 14 | A-C | D-A |
G D R A A G Q A A | 22 | C-G | P-A |