Table 4. Genotyping of 22 Rice Varieties Using 32 Markers.
| (A) Using Previously Reported Markers (12, 13, 17) | |||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| primer |
|||||||||||||||||||||
| variety | A6 | A7 | B1 | B43 | E30 | F6 | G4 | G22 | G28 | J6 | M2CG | M11 | P5 | S13 | T16 | WK9 | B7 | G49A | G81 | P3 | digitized value |
| Koshihikari | + | + | + | + | − | − | − | + | + | + | − | + | + | − | − | − | − | − | − | + | 11,110,001,110,110,000,001 |
| Gopum | + | + | + | + | + | − | − | − | + | − | + | − | − | − | − | − | − | − | + | + | 11,111,000,101,000,000,011 |
| Samgwang | + | + | + | + | + | − | − | − | + | + | + | − | − | + | − | − | + | + | − | + | 11,111,000,111,001,001,101 |
| Ilpum | + | + | + | + | + | − | − | − | + | − | − | − | − | − | − | + | − | + | − | + | 11,111,000,100,000,010,101 |
| Chucheong | + | + | + | + | + | + | − | − | + | − | + | − | − | − | − | − | − | + | − | + | 11,111,100,101,000,000,101 |
| Dongjin | + | + | + | + | − | + | − | − | − | + | − | − | − | + | − | − | − | − | + | + | 11,110,100,010,001,000,011 |
| Sinkeumo | + | + | + | + | − | − | − | − | + | + | − | − | − | − | − | + | − | + | − | + | 11,110,000,110,000,010,101 |
| Hwaseong | + | + | + | + | − | + | − | − | − | + | − | − | − | − | − | − | − | + | − | − | 11,110,100,010,000,000,100 |
| Hwacheong | + | + | + | + | + | − | − | − | + | − | + | − | − | − | − | − | − | + | − | + | 11,111,000,101,000,000,101 |
| Dobong | + | + | + | + | − | − | − | − | + | − | + | + | − | − | − | − | − | − | − | + | 11,110,000,101,100,000,001 |
| Samnam | + | + | + | + | + | − | − | − | − | − | + | − | − | − | − | − | − | + | − | + | 11,111,000,001,000,000,101 |
| Palkong | + | − | + | + | − | − | − | − | + | + | − | + | − | − | − | − | − | + | − | + | 10,110,000,110,100,000,101 |
| Hitomebore | + | + | + | + | − | − | − | + | + | + | + | + | + | + | + | + | − | − | − | + | 11,110,001,111,111,110,001 |
| Baekjinju1 | + | + | + | − | + | + | − | − | + | + | + | + | − | − | − | + | − | + | + | − | 11,101,100,111,100,010,110 |
| Seonong4 | + | + | + | − | + | + | − | + | − | + | + | − | − | + | + | + | − | + | + | + | 11,101,101,011,001,110,111 |
| Onnuri | + | + | + | − | + | + | − | − | − | + | + | + | − | + | − | + | − | − | − | − | 11,101,100,011,101,010,000 |
| Manmi | + | + | + | + | + | − | − | + | + | + | − | + | − | + | − | − | − | + | − | + | 11,111,001,110,101,000,101 |
| Giho | + | + | + | − | + | − | − | + | − | + | + | − | − | + | − | − | − | + | + | + | 11,101,001,011,001,000,111 |
| Geuman | + | + | + | + | + | − | − | + | + | + | + | + | − | − | − | − | − | − | + | + | 11,111,001,111,100,000,011 |
| Nakdong | + | + | + | + | − | − | − | + | + | + | + | − | − | + | − | − | − | − | − | − | 11,110,001,111,001,000,000 |
| Hexi41 | + | + | + | + | + | + | + | + | + | + | + | − | − | − | + | − | − | − | − | + | 11,111,111,111,000,100,001 |
| Samdeok | + | + | + | − | + | − | − | + | + | + | + | − | − | + | − | + | − | − | − | + | 11,101,001,111,001,010,001 |
| (B) Using SSIIa (3) and Nine Newly Developed Markers | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| binary data of each primer |
||||||||||
| variety | SSIIaa | TreBb | S3cIIc | S3cId | AMse | GPAf | GBSSIg | AcPhh | SH51i | CBGj |
| Koshihikari | 1 | 0 | 1 | 1 | 0 | 0 | 0 | 1 | 0 | 1 |
| Gopum | 1 | 1 | 0 | 0 | 1 | 0 | 1 | 0 | 1 | 1 |
| Samgwang | 1 | 0 | 1 | 1 | 1 | 0 | 1 | 0 | 1 | 1 |
| Ilpum | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 1 |
| Chucheong | 0 | 1 | 0 | 0 | 1 | 0 | 1 | 1 | 1 | 1 |
| Dongjin | 1 | 1 | 0 | 0 | 1 | 1 | 1 | 1 | 1 | 1 |
| Sinkeumo | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 1 |
| Hwaseong | 1 | 1 | 0 | 0 | 1 | 1 | 1 | 1 | 1 | 1 |
| Hwacheong | 0 | 1 | 0 | 0 | 1 | 0 | 1 | 1 | 1 | 1 |
| Dobong | 1 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 1 |
| Samnam | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 1 |
| Palkong | 1 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 0 |
| Hitomebore | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 1 |
| Baekjinju1 | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 1 |
| Seonong4 | 1 | 0 | 1 | 1 | 1 | 0 | 1 | 0 | 1 | 1 |
| Onnuri | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 0 | 1 | 1 |
| Manmi | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 1 |
| Giho | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 1 |
| Geuman | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 1 | 1 |
| Nakdong | 1 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| Hexi41 | 0 | 1 | 0 | 0 | 1 | 0 | 1 | 1 | 1 | 1 |
| Samdeok | 1 | 1 | 0 | 0 | 1 | 0 | 1 | 0 | 1 | 1 |
a
TT:GGTTTC (0) and GC:GGGCTC (1) at nt 4329−4330 (exon).
b
Insertion of CTTT (1) and no insertion (0) at nt 79−82 of consensus region (intron).
c
Point mutation from T (1) to G allele (0) at nt 1454 of consensus region (intron).
d
No deletion (1) and deletion (CTC) (0) at nt 1255−1257 of consensus region (intron).
e
(CT)31 (1) and (CT)27 (0).
f
(CT)26 (0) and (CT)11 (1).
g
(CT)18 (1) and (CT)17 (0).
h
Point mutation from T (1) to G allele (0) at nt 397 of consensus region (intron).
i
Point mutation from A (0) to T allele (1) at nt 51 (intron).
j
(CTT)19 (1) and (CTT)8 (0).