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 | Â | Â | Â | Â | Â |
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 |