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Table 1 Alternative assays used to compare efficiency and transversality of detection

From: Design and evaluation of a unique RT-qPCR assay for diagnostic quality control assessment that is applicable to pathogen detection in three species of salmonid fish

Assay N°

Assay name

Name

Sequence (5′ - 3′)

Reference

1

 

ELF1α For

CCCCTCCAGGACGTTTACAAA

[14]

1

ELF1α

ELF1α Rev

CACACGGCCCACAGGTACA

[14]

1

 

FAM-ELF1α

FAM- ATCGGCGGTATTGGAAC

[14]

2

 

ELF1α GIM-1-For

CCCCTCCAGGAYGTYTACAAA

This work

2

ELF1α GIM-1

ELF1α GIM-1 Rev

CACACGGCCCACRGGTACW

This work

2

 

FAM- ELF1α GIM

FAM-ATCGGYGGTAT + T + G + G + A + AC-BHQ

This work

3

 

ELF1α GIM-2 For

GCCCCTCCAGGAYGTYTACAA

This work

3

ELF1α GIM-2

ELF α GIM-2 Rev

CCACACGGCCCACRGGTAC

This work

3

 

FAM-ELF1α GIM

FAM-ATCGGYGGTAT + T + G + G + A + AC-BHQ

This work

  1. Assay N°1 (ELF1α) is the current assay. Assays N°2 (ELF1α GIM-1) and N°3 (ELF1α GIM-2), use alternative primers and probes designed to test the objectives of this study. The FAM-ELF1α probe has MGB, and the FAM-ELF1α-GIM probe has LNA residues, denoted by a + symbol before the corresponding nucleotide.