Substitution Mapping of <i>dth1.1</i>, a Flowering-Time Quantitative Trait Locus (QTL) Associated With Transgressive Variation in Rice, Reveals Multiple Sub-QTL

Thomson, Michael J.; Edwards, Jeremy D.; Septiningsih, Endang M.; Harrington, Sandra E.; McCouch, Susan R.

doi:10.1534/genetics.105.050500

Cited by 75 publications

(35 citation statements)

References 68 publications

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“…This indicated that, in addition to pleiotropy, the effect of the QTL for seed yield could be a synthetic effect of several underlying tightly linked QTL of different yieldassociated traits. A previously mapped QTL may be dissected into several sub-QTL after subsequent fine mapping (Ashikari et al 2005;Thomson et al 2006;Christians and Senger 2007). Multiple indicator QTL were chosen for 14 pleiotropic QTL for seed yield, half of which involved QTL for seed yield in different environments.…”

Section: Discussionmentioning

confidence: 99%

Unraveling the Complex Trait of Crop Yield With Quantitative Trait Loci Mapping in Brassica napus

et al. 2009

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Yield is the most important and complex trait for the genetic improvement of crops. Although much research into the genetic basis of yield and yield-associated traits has been reported, in each such experiment the genetic architecture and determinants of yield have remained ambiguous. One of the most intractable problems is the interaction between genes and the environment. We identified 85 quantitative trait loci (QTL) for seed yield along with 785 QTL for eight yield-associated traits, from 10 natural environments and two related populations of rapeseed. A trait-by-trait meta-analysis revealed 401 consensus QTL, of which 82.5% were clustered and integrated into 111 pleiotropic unique QTL by metaanalysis, 47 of which were relevant for seed yield. The complexity of the genetic architecture of yield was demonstrated, illustrating the pleiotropy, synthesis, variability, and plasticity of yield QTL. The idea of estimating indicator QTL for yield QTL and identifying potential candidate genes for yield provides an advance in methodology for complex traits.

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Section: Discussionmentioning

confidence: 99%

Unraveling the Complex Trait of Crop Yield With Quantitative Trait Loci Mapping in Brassica napus

et al. 2009

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“…However, a 15-cM genetic distance may cover 9 Mb and harbor 1800 genes in the rapeseed genome, and it is probable that at least two of these 1800 genes will respond to different environments. In contrast, one conventionally mapped QTL in rice and Arabidopsis may be subsequently ''modified'' into two sub-QTL with derived near-isogenic lines (NILs) (Monna et al 2002;Kroymann and Mitchell-Olds 2005;Thomson et al 2006). In this experiment, we used the default genetic distance 5 cM to define a QTL in a specific environment.…”

Section: Discussionmentioning

confidence: 99%

Flowering Time Quantitative Trait Loci Analysis of Oilseed Brassica in Multiple Environments and Genomewide Alignment with Arabidopsis

et al. 2007

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Most agronomical traits exhibit quantitative variation, which is controlled by multiple genes and are environmentally dependent. To study the genetic variation of flowering time in Brassica napus, a DH population and its derived reconstructed F 2 population were planted in 11 field environments. The flowering time varied greatly with environments; 60% of the phenotypic variation was attributed to genetic effects. Five to 18 QTL at a statistically significant level (SL-QTL) were detected in each environment and, on average, two new SL-QTL were discovered with each added environment. Another type of QTL, microreal QTL (MR-QTL), was detected repeatedly from at least 2 of the 11 environments; resulting in a total of 36 SL-QTL and 6 MR-QTL. Sixty-three interacting pairs of loci were found; 50% of them were involved in QTL. Hundreds of floral transition genes in Arabidopsis were aligned with the linkage map of B. napus by in silico mapping; 28% of them aligned with QTL regions and 9% were consistent with interacting loci. One locus, BnFLC10, in N10 and a QTL cluster in N16 were specific to spring-and winter-cropped environments respectively. The number of QTL, interacting loci, and aligned functional genes revealed a complex genetic network controlling flowering time in B. napus.

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“…By combining this method with tests of advanced backcross progenies, several QTL were precisely localized in narrow genomic regions (Chen and Tanksley 2004;Thomson et al 2006). Furthermore, QTL isogenic recombinant analysis has been developed to speed up fine mapping of a QTL with a single population (Peleman et al 2005).…”

Section: Dissection Of the Genetic Modes Of Qtl Underlying Complex Qumentioning

confidence: 99%

Quantitative Trait Loci (QTL) Analysis For Rice Grain Width and Fine Mapping of an Identified QTL Allele gw-5 in a Recombination Hotspot Region on Chromosome 5

et al. 2008

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Rice grain width and shape play a crucial role in determining grain quality and yield. The genetic basis of rice grain width was dissected into six additive quantitative trait loci (QTL) and 11 pairs of epistatic QTL using an F 7 recombinant inbred line (RIL) population derived from a single cross between Asominori ( japonica) and IR24 (indica). QTL by environment interactions were evaluated in four environments. Chromosome segment substitution lines (CSSLs) harboring the six additive effect QTL were used to evaluate gene action across eight environments. A major, stable QTL, qGW-5, consistently decreased rice grain width in both the Asominori/IR24 RIL and CSSL populations with the genetic background Asominori. By investigating the distorted segregation of phenotypic values of rice grain width and genotypes of molecular markers in BC 4 F 2 and BC 4 F 3 populations, qGW-5 was dissected into a single recessive gene, gw-5, which controlled both grain width and length-width ratio. gw-5 was narrowed down to a 49.7-kb genomic region with high recombination frequencies on chromosome 5 using 6781 BC 4 F 2 individuals and 10 newly developed simple sequence repeat markers. Our results provide a basis for mapbased cloning of the gw-5 gene and for marker-aided gene/QTL pyramiding in rice quality breeding.

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Substitution Mapping of dth1.1, a Flowering-Time Quantitative Trait Locus (QTL) Associated With Transgressive Variation in Rice, Reveals Multiple Sub-QTL

Cited by 75 publications

References 68 publications

Unraveling the Complex Trait of Crop Yield With Quantitative Trait Loci Mapping in Brassica napus

Unraveling the Complex Trait of Crop Yield With Quantitative Trait Loci Mapping in Brassica napus

Flowering Time Quantitative Trait Loci Analysis of Oilseed Brassica in Multiple Environments and Genomewide Alignment with Arabidopsis

Quantitative Trait Loci (QTL) Analysis For Rice Grain Width and Fine Mapping of an Identified QTL Allele gw-5 in a Recombination Hotspot Region on Chromosome 5

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