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Table 2 Strain allocation table

From: A phylogenetic analysis of Bovine Viral Diarrhoea Virus (BVDV) isolates from six different regions of the UK and links to animal movement data

Sample Closest 5′UTR reference strain % Identity to 5′UTR reference strain Closest Nproreference strain % Identity to Nproreference strain
1-1 1e 95 1a 83
1-2 1e 95 1a 83
1-3 1e 95 - -
2-1 1a 98 1a 92
2-5 1a 98 1a 92
2-6 1a 98 1a 92
2-7 1a 98 1a 92
2-8 1a 96 1a 90
2-9 1a 98 1a 92
2-10 1a 96 1a 90
2-11 1a 97 1a 92
2-12 1a 96 1a 90
5-1 1a 95 1a 91
15-1* 1a/1j 95 to both 1a 90
18-1 1b 97 1b 95
18-2 1b 97 1b 95
18-3 1b 97 1b 95
18-4 1b 97 1b 95
18-5 1b 97 1b 95
18-6 1b 97 1b 95
19-1 - - 1a 93
20-1* 1a/1j 96 to both 1a 92
20-2* 1a/1j 96 to both 1a 91
20-3* 1a/1j 96 to both 1a 91
26-1 + 1a 96 1a 91
26-2 + 1a 96 1a 91
26-3 + 1a 96 1a 91
27-1* 1a/1j 95 to both 1a 92
33-1 # 1a 94 1a 91
33-3 # 1a 95 1a 92
34-1 # 1a 95 1a 92
37-1* # 1a/1j 95 to both 1a 88
37-2* # 1a/1j 95 to both 1a 88
37-3* # 1a/1j 95 to both 1a 88
37-4* # 1a/1j 95 to both 1a 88
37-5* # 1a/1j 95 to both 1a 88
38-1 1a 97 1a 92
40-1 1a 99 1a 92
40-2 1a 96 1a 92
40-3 1a 99 1a 92
40-4 1a 96 1a 92
40-5 1a 96 1a 93
40-6 1a 99 1a 92
40-7 1a 96 1a 93
40-8 1a 96 1a 92
41-1 1a 95 1a 92
41-2 1a 95 1a 92
41-3 1a 95 1a 92
41-4 1a 95 1a 92
42-1^ 1j 95 1a 81
42-2^ 1j 95 - -
43-1 - - 1a 92
43-2 + 1a 96 1a 92
43-3 + 1a 96 1a 92
43-4 + 1a 96 1a 92
43-5 + 1a 96 1a 92
43-6 + 1a 96 1a 92
43-7 + 1a 96 1a 92
43-8 + 1a 96 1a 92
44-1 +# 1a 95 1a 93
44-2* # 1a/1j 94 to both 1a 93
45-1 # 1a 95 1a 92
46-1 1a 96 1a 90
47-1 1a 97 1a 92
48-1 1a 96 1a 91
48-2 1a 96 1a 91
48-3 1a 96 1a 91
48-4 1a 96 1a 91
48-5 1a 96 - -
48-6 1a 96 1a 91
48-7 1a 96 1a 91
48-8 1a 96 1a 91
48-9 1a 96 1a 91
48-10 1a 96 1a 91
49-3 1a 96 1a 93
50-1 1a 98 1a 92
50-2 1a 98 1a 91
56-1* # 1a/1j 94 to both 1a 92
56-2* # 1a/1j 94 to both 1a 92
56-3 +# 1a 94 1a 92
56-4* # 1a/1j 94 to both 1a 92
56-5* # 1a/1j 94 to both 1a 92
57-1 1a 97 1a 92
57-2 1a 97 1a 92
58-1 1i 98 1i 98
58-2 1i 98 1i 98
59-1 + 1a 96 1a 92
59-2 1a 98 1a 92
60-1* 1a/1j 94 to both 1a 90
61-1 + 1a 96 1a 92
62-1 - - 1a 92
62-2* # 1a/1j 94 to both - -
62-3* # 1a/1j 94 to both 1a 91
63-1* 1c/1a/1j 95 to all 1a 93
64-1 + 1a 96 1a 84
65-1 + 1a 95 1a 92
66-1 1a 97 1a 93
67-1 1d 97 1d 90
67-2 1d 97 1d 90
68-1 1e 98 - -
69-1 1i 97 - -
70-1 1a 95 1a 92
70-2 1a 95 1a 92
71-1 1b 98 1b 94
  1. The table indicates the percentage identity of the closest reference strain to the field isolate investigated. Reference strains used are described in Table 3. Where discrepancies or high nucleotide identity occurs with multiple reference strains, this is noted as follows: * indicates isolates with equal 5′UTR nucleotide sequence identity to both BVDV 1a and 1j reference strains, + indicates isolates with 1% less 5′UTR nucleotide identity to BVDV 1j reference strains than to 1a reference strains, ^ indicates isolates with 1% higher 5′UTR identity to BVDV 1j reference strains than to either 1a or 1c reference strains, # indicates isolates with 1% less 5′UTR nucleotide identity to BVDV 1c reference strains than to 1a reference strains, – indicates that no sequence was obtained. (GenBank Accession numbers for the 5′UTR and Npro regions sequenced for this paper are KF023272-KF023470).