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expand all sections collapse all sections  Oryza sativa QTL "CQD1"
ID 51145
Name CQD1 (QTL ACCESSION {description)
Synonyms (1) CQD1-SUBTL
TO TERM {descriptionTO:0000524 (submergence tolerance)
Trait Namesubmergence tolerance
Trait SymbolSUBTL
Type QTL
Species Oryza sativa (Oryza sativa) [ GR_tax:013681 ]
Germplasm
Description The 65 F-derived DHLs (IR49830-7-1-2-2 x CT6241-17-1-5-1) and three checks
(FR13A, IR49830-7-1-2-2 and CT6241-17-1-5-1) were tested for submergence
tolerance under field condition in Ayuttaya, Thailand in 1994 and 1995. The 313
RIL population (IRRI acc. IR67709 = [FR13A x CT6241-17-1-5-1]) and the same set
of checks were also tested at the same location in 1998. Four-week-old seedlings
were completely submerged by keeping the water level at 30 cm above the tallest
plants. Plant recovery is described as the ability of the plant to overcome
submergence stress by re-growth. Recovery score (RS) was visually scored 3-15
days after de-submergence by comparison with check cultivars using the 1 to 9
scale. RS was scored at 0, 3, 5, and 8 days for the DHL population and at 0, 5,
10, and 15 days for the RIL population. The best recovery check, FR13A, was
scored as 1. IR 49830 was scored as 2-3. CT 6241 and IR 42, the most susceptible
checks, were scored as 9 (completely dead).
QTL analysis and the fine scale
mapping, revealed that the LOD value of the RS on chromosome 9 peaked in the
interval around 180D1R-R1164 region. Both simple interval mapping (SIM) and
simplified composite interval mapping (sCIM) pinpointed 180D1R as the most
significant marker in the region where 58-63% of phenotypic variance explained
(PVE) of the trait was affected. The average physical to map distance ratio for
the submergence tolerance QTL region estimated by PFGE was 172.5 kb/cM. This
ratio agrees with sequence data of PAC clones located in this region, PAC0645D04
and PAC0651G05 (accession nos. AC090054 and AC090055) that estimate the distance
from S10709 to R1164 as 121.5 kb
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