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Table 1 Probes, primers, and target sequences used in CL and NCL probe-AuNP hybridization assay, RT-nested multiplexPCR, and real-time RT-PCR

From: Development and comparison of cross-linking and non-crosslinking probe-gold nanoparticle hybridization assays for direct detection of unamplified bovine viral diarrhea virus-RNA

Assay

Name

Sequence (5′ 3′)

Reference

CL or NCL probe-AuNP hybridization assay

Probe-A

TTCAGCCATCCAACG A(10) SH

This paper

Probe-B

SHA(10) TACCCTGTACTCAGG

This paper

Target

CGTTGGATGGCTGAAGCCCTGAGTACAGGGTA

This paper

Mismatch target

CGATGGATCGCTGAAGCCCTGAGTACGGGCTA

This paper

Deleted target

CGTGATGGCTGAAGCCCTGAGTACGGTA

This paper

RT-nested multiplexPCR

ExF

AAGATCCACCCTTATGA(A/G)GC

[41]

ExR

AAGAAGCCATCATC(A/C)CCACA

[41]

InF BVDV-1

TGGAGATCTTTCACACAATAGC

[41]

Inf BVDV-2

GGGAACCTAAGAACTAAATC

[41]

InR

GCTGTTTCACCCAGTT(A/G)TACAT

[41]

Real-time RT-PCR

Pesti-3F

CCTGAGTACAGGRTAGTCGTCA

[42]

Pesti-4R

GGCCTCTGCAGCACCCTATCA

[42]

TQ-Pesti-Probe

FAM-TGCYAYGTGGACGAGGGCATGC-BHQ-1

[42]