Table 2.
Information on the selected 60 linked molecular markers used for seedling stage chilling stress tolerance in indica rice.
| Sl. no. | Marker name | QTLs | Chr. no. | Distance | Phenotypic variance % | Expected band size (bp) | Repeat motif | References |
|---|---|---|---|---|---|---|---|---|
| 1 | RM 1347 | qSCT10 | 10 | 17 cM | 6.1 | 119 | (AG)23 | Kim et al., 2014 |
| 2 | RM 328 | qCTS9 | 9 | 82.4 cM | 172 | (CAT)5 | Long-zhi et al., 2004 | |
| 3 | RM 152 | qCTS-8 | 8 | 9.4 cM | 7.4 | 151 | (GGC)10 | Lou et al., 2007 |
| 4 | RM 341 | qCTS-2 | 2 | 82.7 cM | 27.42 | 172 | (CTT)20 | Lou et al., 2007 |
| 5 | RM 50 | qCTS6-1 | 6 | 3.8 Mb | 15.3 | 201 | (CTAT)4(CT)15 | Andaya and Mackill, 2003 |
| 6 | RM2634 | qSCT2 | 2 | 15.6 cM | 6.5 | 154 | (AT)31 | Kim et al., 2014 |
| 7 | RM4112 | qSCT11 | 11 | 23.1 cM | 16.5 | 153 | (TA)14 | Kim et al., 2014 |
| 8 | RM5310 | qSCT1a | 1 | 11.3 cM | 10.6 | 154 | (TC)12 | Kim et al., 2014 |
| 9 | RM7179 | qCTS-3.1 | 3 | 35.3 Mb | 15.7 | 165 | (ATAG)6 | Wang et al., 2011 |
| 10 | RM3701 | qCTS11.1 | 11 | 63 Mb | 9 | 174 | (GA)15 | Wang et al., 2011 |
| 11 | RM104 | qCTS12.1 | 1 | 186.6 cM | – | 222 | (GA)9 | Long-zhi et al., 2004 |
| 12 | RM9 | qCTS-1b | 1 | 92.4 cM | 11.31 | 136 | (GA)15GT(GA)3 | Lou et al., 2007 |
| 13 | RM1211 | qSCT2 | 2 | 15.6 cM | 6.5 | 213 | (AG)14 | Kim et al., 2014 |
| 14 | RM 3375A | qCTS-4a | 4 | 5.9 Mb | 8.3 | 186 | (CT)16 | Suh et al., 2012 |
| 15 | RM 5746 | qCSH10 | 12 | – | – | 176 | (ACG)8 | Pradhan et al., 2015 |
| 16 | RM 286 | qCSH10 | 11 | 0–0 cM | – | 110 | (GA)16 | Pradhan et al., 2015 |
| 17 | RM 84 | qCTS-1a | 1 | 26.2 cM | 6.46 | 113 | (TCT)10 | Lou et al., 2007 |
| 18 | RM 561 | qCTS-2 | 2 | 74.1 cM | 27.42 | 190 | (GA)11 | Lou et al., 2007 |
| 19 | RM 253 | qCTS6-1 | 6 | 3.8 Mb | 15.3 | 141 | (GA)25 | Andaya and Mackill, 2003 |
| 20 | RM284 | qCSH10 | 10 | 2.3 Mb | 10.4 | 141 | (GA)8 | Andaya and Mackill, 2003 |
| 21 | RM 239 | qCSH10 | 10 | 2.3 Mb | 10.4 | 144 | (AG)5TG(AG)2 | Andaya and Mackill, 2003 |
| 22 | RM256 | qCTS12.1 | 1 | 101.5 cM | – | 127 | (CT)21 | Long-zhi et al., 2004 |
| 23 | RM1812 | qCSH10 | 11 | – | – | 136 | (AT)16 | Pradhan et al., 2015 |
| 24 | RM558 | qCTS-4a | 4 | 5.9 Mb | 8.3 | 246 | (ATTG)5 | Suh et al., 2012 |
| 25 | RM173 | qCTS5 | 5 | 99.8cM | – | 186 | (GA)9 | Long-zhi et al., 2004 |
| 26 | RM 14978 | qCTB2 | 4 | 24.57 cM | 24.57 | 225 | (TC)10 | Bonnecarrere et al., 2015 |
| 27 | RM14960 | qCTB2 | 4 | 24.09 cM | 24.09 | 192 | (CGA)7 | Bonnecarrere et al., 2015 |
| 28 | RM6651 | qCTB2 | 4 | 11.81 cM | 11.81 | 134 | (GTG)8 | Bonnecarrere et al., 2015 |
| 29 | RM22491 | qCTS8.1 | 11 | 23.6 Mb | 22.4 | 147 | (CTC)7 | Wang et al., 2011 |
| 30 | RM590 | qSCT10 | 10 | 17 cM | 6.1 | 137 | (TCT)10 | Kim et al., 2014 |
| 31 | In11-d1 | qSCT11 | 11 | Direct | – | 158 | Kim et al., 2014 | |
| 32 | RM 245 | qCTS9 | 9 | 112.3cM | – | 150 | (CT)14 | Long-zhi et al., 2004 |
| 33 | RM 3602 | qSCT1a | 1 | 11.3 cM | 10.6 | 120 | (GA)13 | Kim et al., 2014 |
| 34 | RM 493 | qCTS-1b | 1 | 79.7 cM | 11.31 | 211 | (CTT)9 | Lou et al., 2007 |
| 35 | RM13335 | qCTB2 | 4 | 24.52 cM | 24.52 | 168 | (AG)21 | Bonnecarrere et al., 2015 |
| 36 | RM282 | qCTS-3.1 | 3 | 41.7 Mb | 15.7 | 136 | (GA)15 | Wang et al., 2011 |
| 37 | RM 5704 | qCTS11.1 | 11 | 55.4 Mb | 9 | 210 | (AAT)20 | Wang et al., 2011 |
| 38 | In1-c3 | qSCT1 | 1 | Direct | – | 241 | – | Kim et al., 2014 |
| 39 | RM1113 | qSCT4 | 4 | 14.8 cM | 12 | 150 | (AG)12 | Kim et al., 2014 |
| 40 | RM 3648 | qCTS-4b | 4 | 8.8 Mb | 7.8 | 186 | (GA)14 | Suh et al., 2012 |
| 41 | RM 85 | qCTS3 | 3 | 9 Mb | 13.8 | 107 | (TGG)5(TCT)12 | Andaya and Mackill, 2003 |
| 42 | RM 472 | qCTS-1c | 1 | 171.6 cM | 8.81 | 296 | (GA)21 | Lou et al., 2007 |
| 43 | RM 297 | qCTS1 | 1 | 5.9 Mb | 9.3 | 148 | (GA)13 | Andaya and Mackill, 2003 |
| 44 | RM 1341 | qSCT11 | 11 | 23.1cM | 16.5 | 183 | (AG)22 | Kim et al., 2014 |
| 45 | RM 506 | qCTS-8 | 8 | 0-0 cM | 7.4 | 123 | (CT)13 | Lou et al., 2007 |
| 46 | RM 2799 | qCTS-4b | 4 | 8.8 Mb | 7.8 | 156 | (AT)35 | Suh et al., 2012 |
| 47 | RM 7003 | qCSH10 | 12 | – | – | 101 | (AAAC)6 | Pradhan et al., 2015 |
| 48 | RM305 | qCTS5 | 5 | 86.9cM | – | 203 | (GT)4 + degener | Long-zhi et al., 2004 |
| 49 | RM319 | qCTS1 | 1 | 5.9 Mb | 9.3 | 134 | (GT)10 | Andaya and Mackill, 2003 |
| 50 | RM522 | qCTS-1a | 1 | 33.9 cM | 6.46 | 143 | (AAT)6 | Lou et al., 2007 |
| 51 | RM315 | qCTS-1c | 1 | 165.3cM | 8.81 | 133 | (AT)4(GT)10 | Lou et al., 2007 |
| 52 | RM200 | qCTS3 | 3 | 9 Mb | 13.8 | 122 | (GA)16 | Andaya and Mackill, 2003 |
| 53 | RM6091 | qCTS11.2 | 11 | 66.5 Mb | 6.8 | 126 | (CCT)11 | Wang et al., 2011 |
| 54 | RM6947 | qCTS11.2 | 12 | 5.9 Mb | 5.5 | 155 | (TTC)8 | Wang et al., 2011 |
| 55 | RM6356 | qCTS8.1 | 11 | 17.1 Mb | 22.4 | 156 | (GAA)10 | Wang et al., 2011 |
| 56 | RM26632 | qCTS11.2 | 11 | 70.7 Mb | 6.8 | 434 | (TCTT)9 | Wang et al., 2011 |
| 57 | RM3739 | qCTS12.1 | 12 | 5.9 Mb | 5.5 | 110 | (GA)16 | Wang et al., 2011 |
| 58 | RM6547 | qCTB2 | 4 | 18.98 cM | 18.98 | 165 | (GCT)9 | Bonnecarrere et al., 2015 |
| 59 | RM11239 | qCTB2 | 4 | 22.48 cM | 22.48 | 440 | (TG)15 | Bonnecarrere et al., 2015 |
| 60 | RM18776 | qCTB2 | 4 | 22.31 cM | 22.31 | 182 | (GA)13 | Bonnecarrere et al., 2015 |