Genetic Diversity of Arabica Coffee (Coffea arabica L.) in Nicaragua as Estimated by Simple Sequence Repeat Markers
Table 2
List of primer-pairs used to amplify the SSR loci used in this study and their annealing temperature: the repeat motifs of the loci and observed fragment sizes of the alleles.
Locus name
Repeat motif
Primer sequence
Annealing temperature
Observed allele size (bp)
°C
°C
471
a
CT
F: TTACCTCCCGGCCAGAC
60
54
292, 318, 320
R: CAGGAGACCAAGACCTTAGCA
838
a
AC
F: CCCGTTGCCATCCTTACTTA
57
61
97
R: ATACCCGATACATTTGGATACTCG
CaM03
b
AC
F: CGCGCTTGCTCCCTCTGTCTCT
68
62
188, 194
R: TGGGGGAGGGGCGGTGTT
CaM16
b
TC
F: AAGGCAGCTGAAGCGGGACAAA
68
62
188, 194
R: TGGGGAGAGCTGCAGTTGGAGG
CaM35
b
TGGAAG
F: CGAGCTAGAATGGATGACTTGGTTGG
65
59
207, 213
R: ATACCCGATACATTTGGATACTCG
CM5
c
CCT
F: GTAACCACCACCTCCTCTGC
60
54
185, 188
R:TGGAGGTAACGGAAGCTCTG
DCM06
d
(T) (TTC)
F: GTAGTCGGTGGGCTTGTGTT
60
54
213
R: AACGCGGACTAATTGAGGAA
Sat207
e
ng
F: GAAGCCGTTTCAAGCC
57
51
82, 89, 93, 97
R: CAATCTCTTTCCGATGCTCT
Sat235
e
ng
F:TCGTTCTGTCATTAAATCGTCAA
60
54
167
R: GCAAATCATGAAAATAGTTGGTG
SSR03
d
TC
F: GGACAAAACACCGCCCAAAATA
62
56
142, 148
R: AGCGAGACAGAGGAAGGGAATATT
SSR06
d
AAAGG
F: CAGGCACAGAAGGAATGAAGAGC
62
56
126
R: TGGTGGTATGGAAAACAGGAAGG
SSR09
d
GT
F: TTGGCTTTTGTCCCTCCTTCCTCTG
62
56
124, 126, 130
R: AGCCCATTTCCCTCTCATCATTTCAAG
ng: not given in the original reference. References: a: Cubry et al. 2008 [19]; b: Hendre et al. 2008 [33]; c: Baruah et al. 2003 [15]; d: Aggarwal et al. 2007 [18]; e: Gichuru et al. 2008 [23].
