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Table 2 Additional PCRs for SIV testing of a subset of samples (n = 4).

From: No evidence for transmission of SIVwrc from western red colobus monkeys (piliocolobus badius badius) to wild west african chimpanzees (pan troglodytes verus) despite high exposure through hunting

Primers tested Primer sequences Estimated amplicon size Region targeted Reference
DR1-DR2/DR4-DR5 DR1 (5'-TRCAYACAGGRGCWGAYGA-3') 800 Pol [44]
  DR2 (5'-AIADRTCATCCATRTAYTG -3')    
  DR4 (5'-GGIATWCCICAYCCDGCAGG-3') 200   
  DR5 (5'-GGIGAYCCYTTCCAYCCYTGHGG -3')    
polOR-polis4/polis2uni2 polOR(5'-ACBACYGCNCCTTCHCCTTTC -3') 800 Pol [10]
  polis4(5'-CCAGCNCACAAAGGNATAGGAGG-3')    
  polis2(5'-TGGCARATRGAYTGYACNCAYNTRGAA-3') 650   
  uni2(5'-CCCCTATTCCTCCCCTTCTTTTAAAA -3')    
wrcpol wrcpolF1 (5'-TAGGGACAGAAAGTATAGTAATHTGG-3') 1100 Pol [25]
  wrcpolR1 (5'-GCCATWGCYAA TGCTGTTTC-3')    
  wrcpolF2 (5'AGAGACAGTAAGGAAGGGAAAGCAGG-3') 650   
  wrcpolR2 (5'-GTTCWATTCCTAACCACCAGCADA-3')    
wrcenv wrcenvF1 (5'-TGGC AGTGGGACAAAAATATAAAC-3') 750 Env [25]
  wrcenvR1 (5'-CTGGCAGTCCCTCTTCCA AGTT GT-3')    
  wrcenvF2 (5'TGATAGGGMTGGCTCCTGGTGATG3') 550   
  wrcenvR2 (5'-AATCCCCATTTYAACCAGTTCCA-3')    
wrcgag wrcgagF1 (5'-ATDGAGGATAGAGGNTTTGGAGC-3') 600 Gag [46]
  wrcgagR1 (5'-GCCCTCCTACTCCTTGACATGC-3')    
  wrcgagF2 (5'-CCAACAGGGTCAGATATAGCAG-3') 250   
  wrcgagR2 (5'-ACTTCTGGGGCTCCTTGTTCTGCTC-3')    
olcpol olcpolF1(5-TAGATACAGGRGCAGATGAYACAGTAAT-3') 700 Pol S. Locatelli, unpublished data
  olcpolR1 (5'TCCAYCCYTGAGGHARYACATTATA-3')    
  olcpolF2 (5'-CTAGAATWATWGGRGGRATAGGRGG-3') 300   
  olcpolR2 (5'-ATYTTWCCTTCTKCTTCYARTCTRTCACA-3')    
bwcpol bwcpolF1 (5'-TAGATACAGGAGCAGATGATACAGT-3') 1000 pol S. Locatelli, unpublished data
  bwcpolR1 (5'-ATTDCCYCCTATCCCTTTATGWGC-3')    
  bwcpolF2 (5'-AGAYTRGAAGCAGARGGAAAAAT-3') 600   
  bwcpolR2 (5'-TCCYACCAATTTYTGTAYATCATTTACTGT-3')    
polis4-SIVenvR/lhoenv polis4(5'-CCAGCNCACAAAGGNATAGGAGG-3') 3600 Env [47]
  SIVENVR (5'-YTBYTGCTGCTGCAMTATCCC-3')    
  lhoenvF2 (5'- AATCAGATAGTNYAGCAAGCATGG-3') 600   
  lhoenvR2 (5'-CCATTAAAKCCAAAGAAGCTACT-3')    
polis4/PolOr polF2/polR2 polOR(5'-ACBACYGCNCCTTCHCCTTTC -3') 800 Pol [48]
  polis4(5'-CCAGCNCACAAAGGNATAGGAGG-3')    
  POLF2 (GGAAGTGGATACTTAGAAGCAGAAGT-3') 330   [5]
  POLR2 (5'-CCCAATCCCCCCTTTTCTTTTAAAATT-3')    
gp40F1-gp41R1 gp46F2/gp48R2 gp40F1(5'-TCTTAGGAGCAGCAGGAAGCACTATGGG-3') 850 Env [49]
  gp41R1(5'- AACGACAAAGGTGAGTATCCCTGCCTAA-3')    
  gp46F2(5'-ACAATTATTGTCTGGTATAGTGCAACAGCA-3') 445   
  gp48R2(5'-TCCTACTATCATTATGAATATTTTTATATA-3')    
SPBS-wrcgagR1/SPBS-wrcgagR2 SPBS (5'-GGCGCCCGAACAGGGACTTG-3') 1500 LTR-gag M. Peeters, unpublished data
smmgag smmgagF1 (5'-TGGGAGATGGGCGCGAGAAACTCCGTC-3') 1000 gag [50]
  smmgagR1 (5'-ATCAGCAGTGTCTGTGTCATCCAATT-3')    
  smmgagF2 (5'-AGGGAAAAAAGCAGATGAATTAGAA--3') 800   
  smmgagR2 (5'-GCTCTTGTAGAAYCTATCTACATA-3')    
smmenv (gp41) smmenvF1 (5'-GCTACGGCAGGTTCTGCAATGGG-3') 650 env [50]
  smmenvR1 (5'-CTGGTCCTTGCGGATATGGATCTG-3')    
  smmenvF2 (5'-GCTGTCCGCTCAGTCCCGGACTTT-3') 490   
  smmenvR2 (5'-GGAGGAGAACACTGGCCTATA-3')    
  1. Y = C/T, W = A/T, R = A/G, H = A/C/T, B = C/G/T, S = G/C, K = G/T, D = A/G/T, N = A/C/T/G Y = C/T, M = A/C, K = G