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Table 1 Oligonucleotides used for amplification of the eight genes of the H9N2

From: Isolation and mutation trend analysis of influenza A virus subtype H9N2 in Egypt

Locus

Name

Primer sequence

Length

Amplicon size (bp)

Primer position

Reference

H9

H9-F

CACAATGTMAGYAARTATGC

20

554

943-962

[16]

 

H9-R

TCCATGCAYTGRTYRTCACA

20

 

1496-1515

H5

H5-Fb

GAGCAGAATAAAYCATTTTGAGA

15

699

392-414

FLIa

 

H5-Rb

TGAGTGGATTCTTTGTCTGCAGC

20

 

1167-1189

H7

H7-F

ATYAAYMSYAGRRCWGTRGG

20

241

937-956

[16]

 

H7-R

GATCWATTGCHGAYTGRGTG

20

 

1177-1196

N3

N3-F

AGATCRGGCTTTGAARTCATCAAAGT

26

247

1126-1151

[17]

 

N3-R

CATTGTCTARTCCACAGAAAGTAACTATAC

30

 

1372-1343

N2

N2-F

GCATGGTCCAGYTCAAGYTG

20

362

548-567

[17]

 

N2-R

CCYTTCCAGTTGTCTCTGCA

20

 

909-890

N1

N1-F

ATGAATCCAAATCAGAAG

18

1350

21-38

[13]

 

N1-R

TGTCAATGGTGAATGGCAAC

20

 

1346-1365

PB2

B2-F

TATTCATCRTCAATGATGTGGGA

23

540

1591-1613

[18]

 

B2- R

GATGCTYAATGCTGGTCCATATC

23

 

2130-2108

PB1

B1-F

AGCGAGGAGTATCTGTGAGA

21

601

774-793

This study

 

B1-R

TTCCCTCATGATTCGGTGCA

20

 

1356-1375

PA

PA-F

CCCATGTTCCTGTATGTGAG

20

456

1678-1697

This study

 

PA-R

GAGGAAGGAGTTGAACCAAG

20

 

2114-2133

NP

NP-Fs

TGCTTGCCTGCTTGTGTGTA

20

665

823-842

[19]

 

NP-Rs

TACTCCTCTGCATTGTCTCCGA

22

 

1466-1487

M

M-F

CCCTCAAAGCCGAAATCGCGCA

22

875

56-77

This study

 

M-R

TGCTGTTCCTGCCGATACTCTTCCC

25

 

906-930

NS

NS-F

CACTGTGTCAAGCTTTCAGG

20

798

23-42

[19]

 

NS-R

TCTCTTGCTCCACTTCAAGC

20

 

786-805

  1. aPrimer sequences for HA5 were ordered according to information provided by the Laboratory of Molecular and Biological Characterization of AIV, Friedrich Loeffler Institute (FLI), Germany.