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Table 4 List of primers used in the study

From: Hytrosavirus genetic diversity and eco-regional spread in Glossina species

A. Primers for GpSGHV screening

Target gene

Forward and Reverse primer sequences (5′ to 3′)

Amplicon size (bp)

Reference

GpCAG133

GpCAG133F ATTTTTGCGTCAACGTGA

180–220

 

GpCAG133R ATGAGGATGTTGTCCAGTTT

GpSGHV (ODV-e66)

GpSGHV-2F- CTTGTCAGCGCCACGTACAT

401

[5]

GpSGHV-2R- GCATTCACAGCATCCCAATTTT

GpSGHV (DNA-pol)

83F_GTACATATTCGAATGTATTTGCCGTTGCTC

320

82R_CGGGAGGAGTTGTAATACCCTGTATCAAAG

B. Primers for Glossina species identification

Nuclear marker (ITS1)

GlossinaITS1_for- GTGATCCACCGCTTAGAGTGA

Variable (Species specific)

[56]

GlossinaITS1_rev- GCAAAAGTTGACCGAACTTGA

Wolbachia infection status (16S rRNA)

WspecF -YATACCTATTCGAAGGGATAG

438 + (296)

[57]

WspecR- AGCTTCGAGTGAAACCAATTC

C. Primers for GpSGHV genetic diversity

GpSGHV-Uga

GpSGHV-Eth

Forward and Reverse primer sequences

Amplicon size (Eth/Ug) bp

SNPS (bp)

Deletions (bp)

Insertions (bp)

ORF

Position

ORF

Position

     

SGHV009

8631> 10,868

SGHVEth008

8634> 10,868

8F_TTTCCTCCAATTCTTCTCTGGCAGC

1433/1436

22

38

35

8R_CCACGTCAATGTTGCCTTTCAAATC

SGHV010

14,205 < 10,894

SGHVEth009

14,184< 10,894

11F_GCCGTTTCTTTTCTAATTTCTTCATCTTCGGG

1631/1655

35

24

0

11R_GCTCAATAGTTTAAAGCACTGTAACCGCGTTGATT

SGHV038

44,374 < 40,853

SGHVEth039

44,292< 40,702

32F_ACGCTGAACTAAATTATCGTCATCTACACG

1623/1626

28

3

0

32R_GCACCAATTGAACATGGATTCCGTTAT

VNTR-1

22,536 > 22,814

VNTR-1

22,617> 22,830

18F_TGGCCCAGCCCTAAATATCTTAATAGCG

511/682

22

170

0

17R_CAAAGCTGGGCCATATATTGGGTAGAAATT

VNTR-2

73,504 > 73,727

VNTR-2

73,389> 73,702

R2-Nested3F_GATACGTCTCACTCATACAATC

812/707

42

0

105

R2-Nested3R_CATATTACCGACAGAGGGCGTTCAC

  1. The expected PCR product and the variations (SNPs, deletions or insertion) between the Ugandan and Ethiopian strains are indicated