From: Application of resequencing to rice genomics, functional genomics and evolutionary analysis
Materials | Depth of sequencing | SNPs | Research purposes | References |
---|---|---|---|---|
132 RILs of a super hybrid rice | >4× | 171,847 | Improving parental genome sequences | (Gao et al. [2013]) |
Liang-You-Pei-Jiu | >36× for parents |  | Dissecting yield-associated loci |  |
1083 cultivated rice* | >1 ~ 50× | 7,970,359 | Domestication analysis of cultivated rice | Huang et al. ([2012a]) |
446 wild rice | Â | Â | Identifying agronomic QTL | Â |
40 cultivated rice | > 15× | 6,500,000 | Identifying agronomic QTL | Xu et al. ([2012]) |
10 wild rice | Â | Â | Domestication analysis | Â |
950 cultivated rice | >1× | 4,109,366 | GWAS study of flowering time and grain yield traits | Huang et al. ([2012b]) |
517 rice landraces | >1× | 3,625,200 | GWAS study of 14 agronomic traits | Huang et al. ([2010]) |
150 RILs of Nipponbare/93-11 | >20× | 1,226,791 | Large-scale gene discovery | Huang et al. ([2009]) |
 |  |  | Identifying 49 QTLs for 14 agronomic traits | Wang et al. ([2011]) |
128 CSSLs of Nipponbare/93-11 | >0.13× | 7,680,000 | QTL mapping for culm length | Xu et al. ([2010]) |
 |  |  | High-throughput genotyping |  |
5 cultivated rice | >58× | 1,154,063 | Genetic diverse analysis | (Jeong et al. [2013]) |
A restorer line 7302R | >13× | 307,627 | Genetic variation identification | (Li et al. [2012]) |
4 other cultivated rice | Â | Â | Â | Â |
241 RILs of a hybrid rice Shanyou 63 | > 0.06× | 270,820 | QTL detection for grains | Yu et al. ([2011]) |
40 RILs of Nortai/Hitomebore (bulked) | >6× | 161,563 | Rapid QTL mapping | Takagi et al. ([2013]) |
50Â F2 lines of Dunghan Shali/Hitomebore | Â | Â | Â | Â |
781 F2 lines of R1128/Nipponbare | >16× | 74,329 | Genetic analysis for super hybrid rice | Duan et al. ([2013]) |
Koshihikari | 15.7× | 67,051 | Evaluate the dynamics of the genome composition | Yamamoto et al. ([2010]) |