QTL Accession ID | DQF1 | ||||
---|---|---|---|---|---|
Species | Oryza sativa (Rice) [ GR_tax:013681 ] | ||||
Trait Symbol | PENRTNB | ||||
Trait Name | penetrated root number | ||||
Published Symbol | |||||
Trait Synonym(s) |
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Trait Category | Abiotic stress | ||||
Chromosome | 2 | ||||
Comments | 135 doubled haploid lines derived from a cross IR64 and Azucena were used for QTL mapping. Plants were planted in the greenhouse at Texas Tech University. The wax-petrolatum layer system originally development by Yu et al. (1995) was used to characterize ??e root penetration ability. Total root number (TRN), penetrated root number (PRN), the ratio of penetrated:total roots (or root penetration index) and penetrated root thickness were evaluated 60 days after sowing. The PROC GLM procedure was used to determine association between molecular markers and root traits bt analyzing the mean of four replictions and marker data. With the MAPMAKER/QTL, interval mapping was employed to determine QTLs. A LOD score > 2.0 was considered as threshold to declare significant. |
Map Type | Map Set | Name | Map | Position | Ext. Links | |||
---|---|---|---|---|---|---|---|---|
Sequence | Gramene Annotated Nipponbare Sequence 2009 | BNL6.32 | Chr. 2 | 24,565,710-24,566,182 bp | View Comparative Map | |||
|
Map Type | Map Set | Name | Map | Position | Ext. Links | |||
---|---|---|---|---|---|---|---|---|
QTL | IRRI IR64/Azu DH QTL 2003 | BNL6.32 | 2 | 63.5-64.5 cM | View Comparative Map | |||
|
Name | Chromosome | Start | Stop |
---|---|---|---|
DQF1 | 2 | 63.5 | 64.5 |
Direction | Name | Type | Species | Assoc. Type |
---|---|---|---|---|
To | RZ318 | RFLP | Oryza sativa | qtl_marker |
To | RG157 | RFLP | Oryza sativa | qtl_marker |
To | RZ58 | RFLP | Oryza sativa | qtl_marker |
Term Type | Term | Evidence |
---|---|---|
Trait Ontology | (TO:0000083) | Zheng-H-G et al., 2000 (IAGP) |
Plant Structure | (PO:0009005) | Zheng-H-G et al., 2000 (SM) |
Plant Growth and Development Stage | (PO:0007134) | Zheng-H-G et al., 2000 (SM) |
(PO:0007130) | Gramene curators, 2007 (IC) | |
Growth Stage | (GRO:0007139) | Zheng-H-G et al., 2000 (SM) |
(GRO:0007140) | Gramene curators, 2007 (IC) | |
Environment | (EO:0007403) | Gramene curators, 2007 (IC) |
Species Ontology | (GR_tax:013681) | Zheng-H-G et al., 2000 (SM) |
Chr | Start | Stop | Exp | Num. SNP Positions | |
---|---|---|---|---|---|
chr2 | 24,565,710 | 24,566,182 | ~160K SNPs x 20 accessions (McNally 2... | 0 | |
chr2 | 24,565,710 | 24,566,182 | '1536 chip' - 1311 SNPs x 395 rice ac... | 0 | |
chr2 | 24,565,710 | 24,566,182 | Huang X, et al, Nat Genetics 2010 Nov... | 2 | Search for SNPs |
chr2 | 24,565,710 | 24,566,182 | RiceDiversity 44K SNP assay, 34 trait... | 2 | Search for SNPs |
chr2 | 24,565,710 | 24,566,182 | RiceDiversity 44K SNP assay, 34 trait... | 0 |