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Molecular Plant Breeding Provisional publishing
Molecular Plant Breeding 2012, Vol.3, No.10, 103
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108
Only seven haplotypes were identified among the 115
genotypes (Figure 1) when the best three SSR markers
were used to compare haplotypes using FL478 as a
reference. The entries that had one of the FL478-type
marker alleles for locus RM8094 were found to be
either tolerant or moderately tolerant of salinity (Table
3). The varieties Pokkali-2, Pokkali-4, Pokkali-6,
Kalimekri, Cheriviruppu, IR886-30-3-1-4-2, Bhirpala,
CR1015, Kajalsail, IR71907-3R-2-1-2, IR71897-3R-
1-1-2, IR55182-3B-14-3-2-3, IR58430-6B-14-1-2,
IR63295-AC211-3, IR64197-3B-8-2, IR74099-3R-2-2,
IR71991-3R-2-1, IR65192-4B-14-1, IR60483-2B-17-
2-1-2, IR72048-B-R-11-1-3-1-2B-2, IR58443-6B-10-3
and IR71991-3R-2-6-1 had no common FL478 marker
alleles for RM8094, RM3412 and RM493 (Table 3)
but they were found to be highly tolerant of salinity
(score 3) at EC 12 dSm
-1
.
Figure 1 Different haplotypes for FL478
Table 3 Microsatellite allele distribution in a diverse collection of 115 rice lines/varieties differing in reaction to salinity
Designation
Salinity
score
RM1287 RM8094 RM3412 RM493 CP03970 RM140 CP6224 Haplotype
(Figure 1)
IR66946-3R-178-1-1 (FL478) 3
165
80
224
218
185
260
175
1
Pokkali-1
3
165
80
224
218
185
255
175
1
Pokkali-2
3
165
95
231
229
178
255
175
7
Pokkali-3
3
165
90
178
260
180
7
Pokkali-4
3
165
90
231
229
178
265
171
7
Pokkali-5
3
192
07
224
229
178
255
180
3
Pokkali-6
3
180
09
252
205
178
260
175
7
Pokkali-7
3
192
15
224
229
178
255
180
3
FL378
3
158
80
224
218
194
255
175
1
IR29
9
165
14
231
237
185
260
175
7
Nona Bokra
3
172
14
260
218
201
260
175
4
NSIC106
3
165
29
224
237
207
283
171
3
Cheriviruppu
3
194
22
224
247
194
255
180
3
Kalimekri
3
165
02
231
230
194
260
175
7
CSR11
5
165
14
231
237
194
260
175
7
PSBRc88
5
158
22
224
254
201
260
175
3
TKM6
7
158
22
224
254
194
278
175
3
Swarna-Sub1
5
158
22
224
247
194
260
175
3
IR68144-2B-2-2-3-1 (MS13)
5
158
22
242
247
194
260
175
7
IR8866-30-3-1-4-2
3
176
22
242
247
194
260
175
7
OM2031
5
158
29
242
237
194
260
175
7
AS996
7
158
22
224
247
201
260
175
3
PSBRc82
5
158
80
231
247
194
255
175
2
IR63307
4
158
22
224
237
194
255
180
3
IR74763-262-5-1-3-3
(B3508) NPT1
5
158
02
228
237
194
260
175
7
IR71701-28-1-4 (B3578)
NPT2
5
158
22
224
247
201
260
175
3
Mushkan 41
7
180
29
242
218
194
260
175
4