Table 2.

Discrimination of rice cultivars by DNA markers

Marker type	Fragment separation method	DNA Markers	Rice Cultivars	Reference
RFLP	Agarose	43 RFLP probes	Indica and Japonica varieties	Zhang et al. (1992)
RAPD	Agarose	OPA 13, OPA 16, OPA 17, OPA 19, OPB 8, OPB11, OPB 13, OPB 18, OPN 1 and OPN 17	Basmati varieties	Choudhury et al. (2001)
Microsatellites	Slab-gel	RM1,RM19,RM208,RM55,RM201,RM219,RM225,RM229,RM202,M2 and M16	Basmati varieties	Bligh (2000)
Microsatellites	Slab-gel	RM163, RM171, RM72, RM238, RM102, RM16, RM302, RM330 and RM16	Basmati varieties	Nagaraju et al. (2002)
Microsatellites	Agarose	RM1, RM21, RM38, RM170, RM210, RM226 and RM229	Basmati varieties	Siwach et al. (2004)
Microsatellites	Slab-gel	RM1, RM5, RM103, RM135,RM171, RM174, RM222 and RM252	Basmati varieties	Jain et al. (2004)
Microsatellites	Polyacrilamide gel	RM1,RM5,RM44,RM110,RM229, RM234,RM171,RM242 and RM255	Basmati varieties	Pal et al. (2004)
Microsatellites	Capillary electrophoresis	RM1,RM171,RM202,RM44,RM55,RM348,RM72 and RM241	Basmati varieties	Archak et al. (2007)
Microsatellites	Agarose, Slab-gel and Capillary electrophoresis	RM1,RM171,RM202,RM44,RM55,RM348,RM72 and RM241	Basmati varieties	Vemireddy et al. (2007)
Microsatellites	Agarose	RM11/147	BR-11	Rahman et al. (2007)
		RM151/289	Badshabhog
		RM153/178	BR-19
Microsatellites	Agarose	RM70, RM334, RM475, RM219, RM206, RM336, RM547, RM164, RM335, and RM276	Parental lines and hybrids and some popular varieties	Sundaram et al. (2008)
Microsatellites	Agarose	RM 206, RM 216, RM 258 and RM263	Hybrid purity	Nandakumar et al. (2004)
Indels	Agarose	R4M17,R4M43,R4M50,R5M13,R5M30,R6M14,R10M30,R11M23 and R12M27	Basmati varieties	Steele et al. 2008
SCAR	Agarose	B1,B7,B43,B43a,E30,F6,G22,M2CG,M11,S13 and Wka9	Koshihikari in processed rice products	Ohtsubo and Nakamura (2007)
SNP	Dot-blot	8 SNPs	43 rice cultivars	Shirasawa et al. (2006)
STS	Agarose	A7, B43, M11 and G22	Cultivars of rice wine	Ohtsubo et al. (2008)
STS	Agarose	PRR	Rice specific primer	Nakamura and Ohtsubo (2010)