Table 1.

Linked markers used for foreground selection of BB, Blast, Gall midge, Submergence, Salinity resistance/tolerance genes, their chromosome location, and primer sequence.

Diseases/Stresss	Linked genes	Markers	Ch. no.	Primer sequence	References
Bacterial blight	xa13	Xa13prom	8	GGCCATGGCTCAGTGTTTAT GAGCTCCAGCTCTCCAAATG	Zhang et al., 1996; Singh et al., 2011; Dokku et al., 2013b
	Xa21	pTA 248	11	AGACGCGGAAGGGTGGTTCCCGGA AGACCGGTAATCGAAAGATGAAA	Ronald et al., 1992; Dokku et al., 2013b
	xa5	RG556	5	TAG CTG CTG CCG TGC TGT GC AAT ATT TCA GTG TGC ATC TC	Yoshimura et al., 1995; Dokku et al., 2013b
Blast	Pi2	RG64	6	CTGCAGTGCAATGTACGGCCAGG CTGCAGTGCAATGTACGGCCAGG	Hittalmani et al., 1995; Liu et al., 2002
	Pi9	P28	6	TGCTGACTGCTTGCTATTCGT GT ACTTCATCTTGAGCGACGCAA	Qu et al., 2006
Gallmidge	Gm1	RM444	9	GCTCCACCTGCTTAAGCATC TGAAGACCATGTTCTGCAGG	Biradar et al., 2004
	Gm4	RM547	8	TAGGTTGGCAGACCTTTTCG GTCAAGATCATCCTCGTAGCG	Nair et al., 1996
Submergence	Sub1	SUB1BC2	9	AAAACAATGGTTCCATACGAGAC GCCTATCAATGCGTGCTCTT	Xu et al., 2006
Salinity	Saltol	RM10745	1	TGACGAATTGACACACCGAGTACG ACTTCACCGTCGGCAACATGG	Bonilla et al., 2002; Nejad et al., 2008, 2010