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Table 1 Oligonucleotide primers used for the amplification of the two overlapping FMDV genome fragments

From: Evolution of foot-and-mouth disease virus intra-sample sequence diversity during serial transmission in bovine hosts

 

Primera

Primer sequence (5′to 3′)

Location on genome

Amplicon size (bp)

PCR set 1

OBFS-516+F

CCTTCGCTCGGAAGTAAAACGA

499-520b

4065

OBFS 4563 R

CCCGCTGCTTTTCAAGGAT

4545-4563b

PCR set 2

OBFS 4094 F

TCTCGACGAGGCCAAACC

4094-4111b

4033

OBFS 8126 R

CTCCTAAGGTGTCGCGCG

8109-8126b

RT 1

OBFS 8193 R

TTTTTTTTTTTTTTGATTAAGG

8172-8193c

-

RT2

OBFS 4926 R

AAGTCCTTGCCGTCAGGGT

4908-4926c

-

  1. a Last letter indicates a forward or reverse primer.
  2. b Numbering according to GenBank sequence EU448369.
  3. c Numbering according to GenBank sequence AY593815.
  4. The fragments have the 5′ UTR S fragments omitted, up to and including the poly(C) tract, and overlap by 470 bp.
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Veterinary Research

ISSN: 1297-9716