Association mapping of yield and its components in rice cultivars

Agrama, H. A.; Eizenga, G. C.; Wang, Yan

doi:10.1007/s11032-006-9066-6

Cited by 280 publications

(248 citation statements)

References 72 publications

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“…two markers, Satt114 and Satt239, were found to be associated with iron deficiency chlorosis loci using advance breeding lines (Wang et al, 2008). In rice (Oryza sativa L.), microsatellite markers associated with yield and its components were identified in a variety trial, and many of them were located in regions where QTL had previously been identified (Agrama et al, 2007). Association mapping studies have also been used to investigate the genetic diversity within crop species.…”

Section: Summary and Future Prospectsmentioning

confidence: 99%

Development and Application of Molecular Markers to Breed Common Bean (Phaseolus vulgaris L.) for Resistance to Common Bacterial Blight (CBB) — Current Status and Future Directions

Yu¹,

Shi²,

Zhang³

2012

Applied Photosynthesis

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Section: Summary and Future Prospectsmentioning

confidence: 99%

Development and Application of Molecular Markers to Breed Common Bean (Phaseolus vulgaris L.) for Resistance to Common Bacterial Blight (CBB) — Current Status and Future Directions

Yu¹,

Shi²,

Zhang³

2012

Applied Photosynthesis

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“…Association mapping has been first successfully used for genetic studies on some complex human diseases, and it has also been used successfully in various plant species to identify markers associated with a variety of phenotypes in recent years. Significant associations have been identified between SNPs (single nucleotide polymorphisms), RFLP (restriction fragment length polymorphism), AFLP (amplified fragment length polymorphism), SSR (single sequence repeat) markers and varied agronomical or morphological traits in maize Beló et al 2008;Harjes et al 2008), rice (Agrama et al, 2007;Wen et al 2009), barley (Kraakman et al 2006) and soybean (Jun et al 2007). In hexaploid wheat, Breseghello and Sorrels (2006) firstly conducted association test between kernel traits and SSR markers in 95 elite wheat germplasms.…”

Section: Introductionmentioning

confidence: 99%

Association mapping of six agronomic traits on chromosome 4A of wheat (<em>Triticum aestivum</em> L.)

Liu¹,

Wang²,

Yao³

et al. 2010

mpb

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Association mapping is a powerful approach to identify associations between traits of interest and genetic markers. In this study, 103 wheat germplasm accessions from China were genotyped using 76 SSR markers and 40 EST-SSR markers. The phenotyping of plant height, spike length, spikelets per spike, spikelets density, grains per spike and thousand-kernel weight were carried out in three locations for three years. Six subpopulations were identified among these accessions by population structure analysis based on 49 SSR and 40 EST-SSR markers. Linkage disequilibrium (LD) on chromosome 4A extended up to ~3 cM with r 2 =0.054. Based on the mixed linear model considering population structure and relative kinship, a total of 10 SSR markers (p<0.01) on chromosome 4A were significantly associated with six agronomic traits, and six of them were associated with multiple traits. Some of the associated markers were in agreement with previous quantitative trait loci (QTL) analysis. This study demonstrated that association mapping can be successfully applied in wheat breeding context for detection of marker-traits associations. Furthermore, association mapping can enhance previous QTL information and provide additional QTL information for marker-assisted selection.

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“…(2007) also reported that the extent of linkage disequilibrium differs in significant way between domesticated Asian rice and O. rufipogon, both in genome wide LD and in targeted genomic regions, higher LD was found in O. sativa variety groups. In the presence of high LD, lower marker density is required for a target region with greater potential for detecting markers strongly associated with the target gene polymorphism, even if distant physically (Agrama et al, 2007), whole-genome-scan association study is feasible in this case.…”

Section: Discussionmentioning

confidence: 99%

Linkage Disequilibrium in a Diversity and Stress Adaptation Rice Panel for Association Mapping

Xiao¹,

Yu²,

Yabes³

et al. 2013

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Linkage disequilibrium (LD), arises due to several factors，is the genetic basis for association studies。The possibility of separating LD due to linkage from LD due to other causes determines whether or not an association mapping can be conducted successfully。In an attempt to associate markers with drought tolerance at vegetative stage, we examined the pattern of LD in a diversity and stress adaptation rice panel containing 184 rice germplasm accessions with 141 polymorphic SSR markers that were nearly evenly distributed at 3mb bin on the 12 rice chromosomes. Significant LD was detected across the genome of the 184 rice genotypes and the extent of LD varied with different chromosomes, selfing in O. sativa species and existing of population structure in the rice panel might be the major factors of creating high LD. No genetic linkage was detected except for two pairs of SSR markers RM288 and RM464 (11.98758 Mb), RM215 and RM464 (14.61396 Mb), which were located on chromosome 9 at a relatively far distance but showed significantly higher correlation. The high degree of LD and fast decay of LD detected in this experiment indicating the 141 SSR markers used in the experiment could be feasible to carry out the whole-genome scan association studies with a relatively high resolution.

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Association mapping of yield and its components in rice cultivars

Cited by 280 publications

References 72 publications

Development and Application of Molecular Markers to Breed Common Bean (Phaseolus vulgaris L.) for Resistance to Common Bacterial Blight (CBB) — Current Status and Future Directions

Development and Application of Molecular Markers to Breed Common Bean (Phaseolus vulgaris L.) for Resistance to Common Bacterial Blight (CBB) — Current Status and Future Directions

Association mapping of six agronomic traits on chromosome 4A of wheat (<em>Triticum aestivum</em> L.)

Linkage Disequilibrium in a Diversity and Stress Adaptation Rice Panel for Association Mapping

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