Rice Science ›› 2019, Vol. 26 ›› Issue (4): 239-247.DOI: 10.1016/j.rsci.2019.01.004
收稿日期:2018-11-14
接受日期:2019-01-14
出版日期:2019-07-28
发布日期:2019-04-04
. [J]. Rice Science, 2019, 26(4): 239-247.
| No. | Genotypes | Eco Types | Tolerance to stresses | Other information |
| 1 | Swarna sub1 | Shallow low land | Tolerant to submergence and susceptible to drought | Popular variety |
| 2 | IR64 sub1 | Irrigated | Tolerant to Submergence and susceptible to drought | - |
| 3 | FR13A | Shallow low land | Tolerant to Submergence and susceptible to drought | International submergence tolerance donor |
| 4 | CR143-2-2 | Upland | Drought Tolerance | Drought tolerant check |
| 5 | N 22 | Upland | Drought Tolerance | Drought and heat stress check |
| 6 | Brahamanakhi | Upland/Medium land | Drought Tolerance | Landrace |
| 7 | Satyabhama | Upland | Drought Tolerance | Released variety |
| 8 | IR 20 | Irrigated | Drought susceptible | International Check |
| 9 | Nerica1 | Upland/ Aerobic | Drought Tolerance | Suitable for Africa |
| 10 | Azucena | Upland | Drought Tolerance | Tropical japonica |
| 11 | Curinga | Upland | Drought Tolerance | Tropical japonica |
| 12 | MER20 | Upland | Drought Tolerance | CSSLs/BC4F4 of O. meridionalis/ Curinga |
| 13 | RUF44 | Upland | Drought Tolerance | CSSLs /BC4F4 of O. rufipogon/ Curinga |
| 14 | RUF16 | Upland | Drought Tolerance | CSSLs /BC4F4 of O. rufipogon/ Curinga |
| 15 | RUF48 | Upland | Drought Tolerance | CSSLs /BC4F4 of O. rufipogon/ Curinga |
| 16 | RUF13 | Upland | Drought Tolerance | CSSLs /BC4F4 of O. rufipogon/ Curinga |
Supplemental Table 1 The list of drought tolerant and susceptible rice genotypes used for the assessment of genetic diversity.
| No. | Genotypes | Eco Types | Tolerance to stresses | Other information |
| 1 | Swarna sub1 | Shallow low land | Tolerant to submergence and susceptible to drought | Popular variety |
| 2 | IR64 sub1 | Irrigated | Tolerant to Submergence and susceptible to drought | - |
| 3 | FR13A | Shallow low land | Tolerant to Submergence and susceptible to drought | International submergence tolerance donor |
| 4 | CR143-2-2 | Upland | Drought Tolerance | Drought tolerant check |
| 5 | N 22 | Upland | Drought Tolerance | Drought and heat stress check |
| 6 | Brahamanakhi | Upland/Medium land | Drought Tolerance | Landrace |
| 7 | Satyabhama | Upland | Drought Tolerance | Released variety |
| 8 | IR 20 | Irrigated | Drought susceptible | International Check |
| 9 | Nerica1 | Upland/ Aerobic | Drought Tolerance | Suitable for Africa |
| 10 | Azucena | Upland | Drought Tolerance | Tropical japonica |
| 11 | Curinga | Upland | Drought Tolerance | Tropical japonica |
| 12 | MER20 | Upland | Drought Tolerance | CSSLs/BC4F4 of O. meridionalis/ Curinga |
| 13 | RUF44 | Upland | Drought Tolerance | CSSLs /BC4F4 of O. rufipogon/ Curinga |
| 14 | RUF16 | Upland | Drought Tolerance | CSSLs /BC4F4 of O. rufipogon/ Curinga |
| 15 | RUF48 | Upland | Drought Tolerance | CSSLs /BC4F4 of O. rufipogon/ Curinga |
| 16 | RUF13 | Upland | Drought Tolerance | CSSLs /BC4F4 of O. rufipogon/ Curinga |
| Marker | Na | Np | Nu | Fla | Fha | PIC | Marker | Na | Np | Nu | Fla | Fha | PIC |
| RM315 | 2 | 2 | 0 | 1 | 1 | 0.49 | RM596 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM472 | 2 | 2 | 1 | 0 | 1 | 0.12 | RM512 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM302 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM179 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM431 | 2 | 2 | 0 | 1 | 1 | 0.34 | RM277 | 1 | 0 | 0 | 0 | 2 | 0.75 |
| RM212 | 2 | 2 | 0 | 0 | 2 | 0.75 | RM313 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM543 | 2 | 2 | 0 | 0 | 2 | 0.68 | RM83 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM259 | 2 | 2 | 0 | 1 | 1 | 0.53 | RM101 | 2 | 2 | 0 | 1 | 1 | 0.53 |
| RM488 | 2 | 2 | 1 | 0 | 1 | 0.12 | RM309 | 2 | 2 | 0 | 0 | 2 | 0.75 |
| RM521 | 2 | 2 | 0 | 0 | 2 | 0.75 | RM28130 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM526 | 2 | 2 | 0 | 0 | 2 | 0.75 | RM28050 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM555 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28089 | 2 | 2 | 1 | 0 | 1 | 1.00 |
| RM530 | 2 | 2 | 0 | 1 | 1 | 0.96 | RM244 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM279 | 3 | 3 | 0 | 2 | 1 | 0.98 | RM28067 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM416 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28088 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM22 | 2 | 2 | 0 | 1 | 1 | 0.96 | RM28099 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM16030 | 2 | 2 | 0 | 1 | 1 | 0.90 | RM28078 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM60 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM3349 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM15780 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28079 | 2 | 2 | 0 | 1 | 1 | 0.96 |
| RM537 | 2 | 2 | 1 | 0 | 1 | 0.12 | RM28082 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM252 | 3 | 3 | 0 | 0 | 3 | 0.86 | RM28048 | 2 | 2 | 0 | 0 | 2 | 0.75 |
| RM136 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28069 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM527 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28088 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM528 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM1261 | 2 | 2 | 0 | 1 | 1 | 0.96 |
| RM5371 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28075 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM541 | 2 | 2 | 1 | 0 | 1 | 1.00 | RM28051 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM276 | 3 | 3 | 1 | 0 | 2 | 1.00 | RM28050 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM210 | 3 | 3 | 0 | 1 | 2 | 0.34 | RM12091 | 2 | 2 | 0 | 1 | 1 | 0.23 |
| RM339 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28090 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM337 | 2 | 2 | 0 | 0 | 2 | 0.61 | RM28059 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM25 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28095 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM464 | 2 | 2 | 0 | 0 | 2 | 0.00 | Total | 95 | 60 | 6 | 13 | 77 | 41.76 |
| RM566 | 2 | 2 | 0 | 0 | 2 | 0.81 | Mean | 1.5 | 1.0 | 0.1 | 0.2 | 1.2 | 0.66 |
| RM24390 | 1 | 0 | 0 | 0 | 1 | 0.00 |
Table 1 Number of alleles (Na), number of polymorphic alleles (Np), unique allele (Nu), low-frequency allele (Fla), high-frequency allele (Fha) and polymorphism information content (PIC) for 63 simple sequence repeats (SSRs) in 16 rice genotypes.
| Marker | Na | Np | Nu | Fla | Fha | PIC | Marker | Na | Np | Nu | Fla | Fha | PIC |
| RM315 | 2 | 2 | 0 | 1 | 1 | 0.49 | RM596 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM472 | 2 | 2 | 1 | 0 | 1 | 0.12 | RM512 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM302 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM179 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM431 | 2 | 2 | 0 | 1 | 1 | 0.34 | RM277 | 1 | 0 | 0 | 0 | 2 | 0.75 |
| RM212 | 2 | 2 | 0 | 0 | 2 | 0.75 | RM313 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM543 | 2 | 2 | 0 | 0 | 2 | 0.68 | RM83 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM259 | 2 | 2 | 0 | 1 | 1 | 0.53 | RM101 | 2 | 2 | 0 | 1 | 1 | 0.53 |
| RM488 | 2 | 2 | 1 | 0 | 1 | 0.12 | RM309 | 2 | 2 | 0 | 0 | 2 | 0.75 |
| RM521 | 2 | 2 | 0 | 0 | 2 | 0.75 | RM28130 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM526 | 2 | 2 | 0 | 0 | 2 | 0.75 | RM28050 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM555 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28089 | 2 | 2 | 1 | 0 | 1 | 1.00 |
| RM530 | 2 | 2 | 0 | 1 | 1 | 0.96 | RM244 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM279 | 3 | 3 | 0 | 2 | 1 | 0.98 | RM28067 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM416 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28088 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM22 | 2 | 2 | 0 | 1 | 1 | 0.96 | RM28099 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM16030 | 2 | 2 | 0 | 1 | 1 | 0.90 | RM28078 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM60 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM3349 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM15780 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28079 | 2 | 2 | 0 | 1 | 1 | 0.96 |
| RM537 | 2 | 2 | 1 | 0 | 1 | 0.12 | RM28082 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM252 | 3 | 3 | 0 | 0 | 3 | 0.86 | RM28048 | 2 | 2 | 0 | 0 | 2 | 0.75 |
| RM136 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28069 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM527 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28088 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM528 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM1261 | 2 | 2 | 0 | 1 | 1 | 0.96 |
| RM5371 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28075 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM541 | 2 | 2 | 1 | 0 | 1 | 1.00 | RM28051 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM276 | 3 | 3 | 1 | 0 | 2 | 1.00 | RM28050 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM210 | 3 | 3 | 0 | 1 | 2 | 0.34 | RM12091 | 2 | 2 | 0 | 1 | 1 | 0.23 |
| RM339 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28090 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM337 | 2 | 2 | 0 | 0 | 2 | 0.61 | RM28059 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM25 | 1 | 0 | 0 | 0 | 1 | 0.00 | RM28095 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| RM464 | 2 | 2 | 0 | 0 | 2 | 0.00 | Total | 95 | 60 | 6 | 13 | 77 | 41.76 |
| RM566 | 2 | 2 | 0 | 0 | 2 | 0.81 | Mean | 1.5 | 1.0 | 0.1 | 0.2 | 1.2 | 0.66 |
| RM24390 | 1 | 0 | 0 | 0 | 1 | 0.00 |
| Microsatellite marker | Amp. range (bp) | Markers positions (cM) | Chr. | QTLs | Reference |
| RM315 | 120-133 | 165.0 | 1 | qDTY1.1 | Dixit et al, 2012 |
| RM472 | 296-300 | 168.2-172.0 | 1 | qDTY1.1 | Venuprasad et al, 2012 |
| RM431 | 296-250 | 178.3 | 1 | qDTY1.1 | Gimhani et al, 2016; Vikram et al, 2011; Kumar et al, 2014 |
| RM212 | 136-150 | 163.1 | 1 | qDTY1.1 | Vikram et al, 2011 |
| RM488 | 177-200 | 101 | 1 | qDTY1.1 | Kumar et al, 2014 |
| RM555 | 223 | 20.3 | 2 | qDTY2.2 | Kumar et al, 2014 |
| RM279 | 140-174 | 134 | 2 | qDTY2.2 | Sandhu et al, 2018 |
| RM60 | 165 | - | 3 | qDTF3.2 | Vikram et al, 2011; Awasthi, 2014 |
| RM22 | 180-194 | 7.2 | 3 | qDTF3.2 | Vikram et al, 2011; Awasthi, 2014 |
| RM541 | 150-158 | 75.5 | 6 | qDTY 6.2 | Dixit et al, 2012 |
| RM28048 | 80-93 | - | 12 | qDTY12.1 | Awasthi, 2014;Bernier et al, 2009 |
| RM1261 | 160-167 | 61.6 | 12 | qDTY12.1 | Dixit et al, 2012 |
Supplemental Table 2 List of microsatellite markers associated with drought-tolerant QTLs used for assessment of genetic diversity study.
| Microsatellite marker | Amp. range (bp) | Markers positions (cM) | Chr. | QTLs | Reference |
| RM315 | 120-133 | 165.0 | 1 | qDTY1.1 | Dixit et al, 2012 |
| RM472 | 296-300 | 168.2-172.0 | 1 | qDTY1.1 | Venuprasad et al, 2012 |
| RM431 | 296-250 | 178.3 | 1 | qDTY1.1 | Gimhani et al, 2016; Vikram et al, 2011; Kumar et al, 2014 |
| RM212 | 136-150 | 163.1 | 1 | qDTY1.1 | Vikram et al, 2011 |
| RM488 | 177-200 | 101 | 1 | qDTY1.1 | Kumar et al, 2014 |
| RM555 | 223 | 20.3 | 2 | qDTY2.2 | Kumar et al, 2014 |
| RM279 | 140-174 | 134 | 2 | qDTY2.2 | Sandhu et al, 2018 |
| RM60 | 165 | - | 3 | qDTF3.2 | Vikram et al, 2011; Awasthi, 2014 |
| RM22 | 180-194 | 7.2 | 3 | qDTF3.2 | Vikram et al, 2011; Awasthi, 2014 |
| RM541 | 150-158 | 75.5 | 6 | qDTY 6.2 | Dixit et al, 2012 |
| RM28048 | 80-93 | - | 12 | qDTY12.1 | Awasthi, 2014;Bernier et al, 2009 |
| RM1261 | 160-167 | 61.6 | 12 | qDTY12.1 | Dixit et al, 2012 |
Fig. 1. Two-dimensional plot (A) and three-dimensional plot (B) from the principal component analysis (PCA) for 16 rice genotypes based on 63 simple sequence repeat markers.
| Genotype | Swarna-sub1 | IR64-sub1 | FR13A | CR143-2-2 | Bra | Sat | N22 | Nerical | IR20 | Azucena | Curinga | MER20 | RUF44 | RUF16 | RUF48 |
| IR64-sub1 | 0.85 | ||||||||||||||
| FR13A | 0.79 | 0.80 | |||||||||||||
| CR143-2-2 | 0.73 | 0.83 | 0.75 | ||||||||||||
| Bra | 0.77 | 0.78 | 0.75 | 0.78 | |||||||||||
| Sat | 0.79 | 0.90 | 0.78 | 0.93 | 0.82 | ||||||||||
| N22 | 0.72 | 0.77 | 0.81 | 0.85 | 0.75 | 0.86 | |||||||||
| Nerical | 0.78 | 0.84 | 0.77 | 0.86 | 0.81 | 0.93 | 0.87 | ||||||||
| IR20 | 0.73 | 0.74 | 0.68 | 0.76 | 0.73 | 0.82 | 0.77 | 0.83 | |||||||
| Azucena | 0.68 | 0.71 | 0.65 | 0.68 | 0.66 | 0.74 | 0.72 | 0.81 | 0.83 | ||||||
| Curinga | 0.65 | 0.68 | 0.66 | 0.65 | 0.63 | 0.71 | 0.73 | 0.76 | 0.76 | 0.86 | |||||
| MER20 | 0.61 | 0.64 | 0.63 | 0.62 | 0.62 | 0.67 | 0.69 | 0.73 | 0.75 | 0.84 | 0.96 | ||||
| RUF44 | 0.56 | 0.59 | 0.62 | 0.57 | 0.57 | 0.62 | 0.64 | 0.67 | 0.71 | 0.80 | 0.89 | 0.93 | |||
| RUF16 | 0.54 | 0.56 | 0.59 | 0.58 | 0.54 | 0.59 | 0.65 | 0.64 | 0.68 | 0.77 | 0.82 | 0.86 | 0.87 | ||
| RUF48 | 0.54 | 0.56 | 0.59 | 0.58 | 0.54 | 0.59 | 0.65 | 0.64 | 0.68 | 0.77 | 0.82 | 0.86 | 0.87 | 1.00 | |
| RUF13 | 0.56 | 0.57 | 0.58 | 0.57 | 0.55 | 0.58 | 0.62 | 0.61 | 0.65 | 0.73 | 0.78 | 0.82 | 0.83 | 0.96 | 0.96 |
| Bra, Brahamanakhi; Sat, Satyabhama. | |||||||||||||||
Table 2 Genetic similarity coefficient among 16 rice genotypes.
| Genotype | Swarna-sub1 | IR64-sub1 | FR13A | CR143-2-2 | Bra | Sat | N22 | Nerical | IR20 | Azucena | Curinga | MER20 | RUF44 | RUF16 | RUF48 |
| IR64-sub1 | 0.85 | ||||||||||||||
| FR13A | 0.79 | 0.80 | |||||||||||||
| CR143-2-2 | 0.73 | 0.83 | 0.75 | ||||||||||||
| Bra | 0.77 | 0.78 | 0.75 | 0.78 | |||||||||||
| Sat | 0.79 | 0.90 | 0.78 | 0.93 | 0.82 | ||||||||||
| N22 | 0.72 | 0.77 | 0.81 | 0.85 | 0.75 | 0.86 | |||||||||
| Nerical | 0.78 | 0.84 | 0.77 | 0.86 | 0.81 | 0.93 | 0.87 | ||||||||
| IR20 | 0.73 | 0.74 | 0.68 | 0.76 | 0.73 | 0.82 | 0.77 | 0.83 | |||||||
| Azucena | 0.68 | 0.71 | 0.65 | 0.68 | 0.66 | 0.74 | 0.72 | 0.81 | 0.83 | ||||||
| Curinga | 0.65 | 0.68 | 0.66 | 0.65 | 0.63 | 0.71 | 0.73 | 0.76 | 0.76 | 0.86 | |||||
| MER20 | 0.61 | 0.64 | 0.63 | 0.62 | 0.62 | 0.67 | 0.69 | 0.73 | 0.75 | 0.84 | 0.96 | ||||
| RUF44 | 0.56 | 0.59 | 0.62 | 0.57 | 0.57 | 0.62 | 0.64 | 0.67 | 0.71 | 0.80 | 0.89 | 0.93 | |||
| RUF16 | 0.54 | 0.56 | 0.59 | 0.58 | 0.54 | 0.59 | 0.65 | 0.64 | 0.68 | 0.77 | 0.82 | 0.86 | 0.87 | ||
| RUF48 | 0.54 | 0.56 | 0.59 | 0.58 | 0.54 | 0.59 | 0.65 | 0.64 | 0.68 | 0.77 | 0.82 | 0.86 | 0.87 | 1.00 | |
| RUF13 | 0.56 | 0.57 | 0.58 | 0.57 | 0.55 | 0.58 | 0.62 | 0.61 | 0.65 | 0.73 | 0.78 | 0.82 | 0.83 | 0.96 | 0.96 |
| Bra, Brahamanakhi; Sat, Satyabhama. | |||||||||||||||
Fig. 2. Unweighted pair-group method with arithmetic means (UPGMA) dendrogram for 16 rice genotypes based on genetic similarity by 63 simple sequence repeat markers.
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