High-density rice array (HDRA) RDP1

These are entries in the panel from USDA/Cornell for use on the high-density rice array (HDRA) comprised of 700K single-nucleotide polymorphisms (SNPs). The HDRA represented the most densely populated genotyping array available for any organism at that time, based on the number of SNPs/kb interrogated across the genome. The value of these resources for genome-wide association studies (GWAS) was explored using grain length as the phenotype, and use numerous analytical techniques to identify significant associations that uncover both major and minor QTLs. Distinct advantages of cross-population mapping were demonstrated, gaining power by directly accounting for large effect alleles from within the mapping model. It was shown how this may lead to the identification of population-specific haplotypes, which are of particular value to the plant breeder.

McCouch et al 2016, Open access resources for genome-wide association mapping in rice, Nature Comm. 10.1038/ncomms10532

Crop
rice
Number of accessions
410
Creation date
2016
Published in Genesys
9 December 2019
Subset metadata

Subset creators


Data curator
Dr. Kenneth L. McNally IRRI

Data and resources


MCPD passport data

MCPD - 1962c499-dc2c-46f8-8202-24b5ec445f38.xlsx

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Accessions

List of accessions included in the subset

2. IRGC 117265Oryza sativa Linnaeus Aromatic • DOM SUFID • Genetic stockIran
PHL001 • DOI: 10.18730/1PG6J
3. IRGC 117266Oryza sativa Linnaeus Aus • DULAR • Genetic stockIndia
PHL001 • DOI: 10.18730/4WZGR
4. IRGC 117267Oryza sativa Linnaeus Aus • FR 13 A • Genetic stockIndia
PHL001 • DOI: 10.18730/4WZHS
5. IRGC 117268Oryza sativa Linnaeus Indica • IR 64-21 • Genetic stockIRRI
PHL001 • DOI: 10.18730/4WZJT
6. IRGC 117269Oryza sativa Linnaeus Temperate japonica • LI-JIANG-XIN-TUAN-HEI-GU • Genetic stockChina
PHL001 • DOI: 10.18730/4WZKV
7. IRGC 117270Oryza sativa Linnaeus Tropical japonica • M 202 • Genetic stockUnited States of America
PHL001 • DOI: 10.18730/4WZMW
8. IRGC 117271Oryza sativa Linnaeus Indica • MINGHUI 63 • Genetic stockChina
PHL001 • DOI: 10.18730/4WZNX
9. IRGC 117272Oryza sativa Linnaeus Tropical japonica • MOROBEREKAN • Genetic stockGuinea
PHL001 • DOI: 10.18730/4WZPY
10. IRGC 117273Oryza sativa Linnaeus Aus • N 22 • Genetic stockIndia
PHL001 • DOI: 10.18730/4WZQZ
11. IRGC 117274Oryza sativa Linnaeus Temperate japonica • NIPPONBARE • Genetic stockJapan
PHL001 • DOI: 10.18730/4WZR*
12. IRGC 117276Oryza sativa Linnaeus Indica • SADU CHO • Genetic stockRepublic of Korea
PHL001 • DOI: 10.18730/4WZT$
13. IRGC 117277Oryza sativa Linnaeus Indica • SANHUANGZHAN NO 2 • Genetic stockChina
PHL001 • DOI: 10.18730/4WZV=
14. IRGC 117279Oryza sativa Linnaeus Temperate japonica • TAINUNG 67 • Genetic stockTaiwan
PHL001 • DOI: 10.18730/4WZX0
15. IRGC 117280Oryza sativa Linnaeus Indica • ZHENSHAN 97 B • Genetic stockChina
PHL001 • DOI: 10.18730/4WZY1
16. IRGC 117282Oryza sativa Linnaeus Tropical japonica • CYPRESS • Genetic stockUnited States of America
PHL001 • DOI: 10.18730/5CMZD
17. IRGC 117599Oryza sativa Linnaeus Tropical japonica • 27 • Genetic stockDominican Republic
PHL001 • DOI: 10.18730/4X45S
18. IRGC 117600Oryza sativa Linnaeus Indica • AIJIAONANTE • Genetic stockChina
PHL001 • DOI: 10.18730/4X46T
19. IRGC 117601Oryza sativa Linnaeus Aus • ARC 10177 • Genetic stockIndia
PHL001 • DOI: 10.18730/4X47V
20. IRGC 117602Oryza sativa Linnaeus Aus • ARC 6578 • Genetic stockIndia
PHL001 • DOI: 10.18730/4X48W
21. IRGC 117603Oryza sativa Linnaeus Aus • ARC 7229 • Genetic stockIndia
PHL001 • DOI: 10.18730/4X49X
22. IRGC 117604Oryza sativa Linnaeus Temperate japonica • ASD 1 • Genetic stockIndia
PHL001 • DOI: 10.18730/4X4AY
23. IRGC 117605Oryza sativa Linnaeus Aus • BASMATI 1 • Genetic stockPakistan
PHL001 • DOI: 10.18730/4X4BZ
24. IRGC 117606Oryza sativa Linnaeus Tropical japonica • C57-5043 • Genetic stockUnited States of America
PHL001 • DOI: 10.18730/4X4C*
25. IRGC 117607Oryza sativa Linnaeus Tropical japonica • CAROLINA GOLD • Genetic stockUnited States of America
PHL001 • DOI: 10.18730/4X4D~
26. IRGC 117608Oryza sativa Linnaeus Tropical japonica • CAROLINA GOLD SEL • Genetic stockUnited States of America
PHL001 • DOI: 10.18730/4X4E$
27. IRGC 117609Oryza sativa Linnaeus Temperate japonica • CS-M3 • Genetic stockUnited States of America
PHL001 • DOI: 10.18730/4X4F=
28. IRGC 117610Oryza sativa Linnaeus Aus • DZ78 • Genetic stockBangladesh
PHL001 • DOI: 10.18730/4X4GU
30. IRGC 117612Oryza sativa Linnaeus Temperate japonica • GEUMOBYEO • Genetic stockRepublic of Korea
PHL001 • DOI: 10.18730/4X4J1
31. IRGC 117613Oryza sativa Linnaeus Intermediate • HABIGANJ BORO 6 • Genetic stockBangladesh
PHL001 • DOI: 10.18730/4X4K2
32. IRGC 117614Oryza sativa Linnaeus Indica • HON CHIM • Genetic stockHong Kong S.A.R
PHL001 • DOI: 10.18730/4X4M3
33. IRGC 117615Oryza sativa Linnaeus Tropical japonica • IAC 25 • Genetic stockBrazil
PHL001 • DOI: 10.18730/4X4N4
34. IRGC 117616Oryza sativa Linnaeus Temperate japonica • ITALICA CAROLINA • Genetic stockPoland
PHL001 • DOI: 10.18730/4X4P5
35. IRGC 117617Oryza sativa Linnaeus Aus • KASALATH • Genetic stockIndia
PHL001 • DOI: 10.18730/4X4Q6
36. IRGC 117618Oryza sativa Linnaeus Temperate-tropical japonica intermediate • KERITING TINGGI • Genetic stockIndonesia
PHL001 • DOI: 10.18730/4X4R7
37. IRGC 117619Oryza sativa Linnaeus Indica • LEUNG PRATEW • Genetic stockThailand
PHL001 • DOI: 10.18730/4X4S8
38. IRGC 117620Oryza sativa Linnaeus Aus • MEHR • Genetic stockIran
PHL001 • DOI: 10.18730/4X4T9
39. IRGC 117621Oryza sativa Linnaeus Tropical japonica • MOROBEREKAN • Genetic stockGuinea
PHL001 • DOI: 10.18730/4X4VA
40. IRGC 117622Oryza sativa Linnaeus Indica • RTS 14 • Genetic stockVietnam
PHL001 • DOI: 10.18730/4X4WB
41. IRGC 117623Oryza sativa Linnaeus Indica • BR24 • Genetic stockBangladesh
PHL001 • DOI: 10.18730/4X4XC
42. IRGC 117624Oryza sativa Linnaeus Temperate japonica • KIUKI NO. 46 • Genetic stockJapan
PHL001 • DOI: 10.18730/4X4YD
43. IRGC 117625Oryza sativa Linnaeus Indica • SML 242 • Genetic stockSuriname
PHL001 • DOI: 10.18730/4X4ZE
44. IRGC 117626Oryza sativa Linnaeus Tropical japonica • WC 4419 • Genetic stockHonduras
PHL001 • DOI: 10.18730/4X50F
45. IRGC 117627Oryza sativa Linnaeus Tropical japonica • 1021 • Genetic stockGuatemala
PHL001 • DOI: 10.18730/4X51G
46. IRGC 117628Oryza sativa Linnaeus Aromatic • 205 • Genetic stockIran
PHL001 • DOI: 10.18730/4X52H
47. IRGC 117629Oryza sativa Linnaeus Tropical japonica • 318 • Genetic stockRepublic of Türkiye
PHL001 • DOI: 10.18730/4X53J
48. IRGC 117630Oryza sativa Linnaeus Indica • 519 • Genetic stockUruguay
PHL001 • DOI: 10.18730/4X54K
49. IRGC 117631Oryza sativa Linnaeus Temperate japonica • 56-122-23 • Genetic stockThailand
PHL001 • DOI: 10.18730/4X55M
50. IRGC 117632Oryza sativa Linnaeus Tropical japonica • 583 • Genetic stockEcuador
PHL001 • DOI: 10.18730/4X56N