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Association and Validation of Yield-Favored Alleles in Chinese Cultivars of Common Wheat (Triticumaestivum L.).

Guo J, Hao C, Zhang Y, Zhang B, Cheng X, Qin L, Li T, Shi W, Chang X, Jing R, Yang W, Hu W, Zhang X, Cheng S - PLoS ONE (2015)

Bottom Line: The associated loci were distributed on all chromosomes except 4A, 7A, and 7D.Further analysis showed that genetic effects of associated loci were greatly influenced by association panels, and the R2 of crucial loci were lower in modern cultivars than in the mini core collection, probably caused by strong selection in wheat breeding.In order to confirm the results of association analysis, yield-related favorable alleles Xgwm135-1A138, Xgwm337-1D186, Xgwm102-2D144, and Xgwm132-6B128 were evaluated in a double haploid (DH) population derived from Hanxuan10 xLumai14.These favorable alleles that were validated in various populations might be valuable in breeding for high-yield.

View Article: PubMed Central - PubMed

Affiliation: National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China.

ABSTRACT
Common wheat is one of the most important crops in China, which is the largest producer in the world. A set of 230 cultivars was used to identify yield-related loci by association mapping. This set was tested for seven yield-related traits, viz. plant height (PH), spike length (SL), spikelet number per spike (SNPS), kernel number per spike (KNPS), thousand-kernel weight (TKW), kernel weight per spike (KWPS), and sterile spikelet number (SSN) per plant in four environments. A total of 106 simple sequence repeat (SSR) markers distributed on all 21 chromosomes were used to screen the set. Twenty-one and 19 of them were associated with KNPS and TKW, respectively. Association mapping detected 73 significant associations across 50 SSRs, and the phenotypic variation explained (R2) by the associations ranged from 1.54 to 23.93%. The associated loci were distributed on all chromosomes except 4A, 7A, and 7D. Significant and potentially new alleles were present on 8 chromosomes, namely 1A, 1D, 2A, 2D, 3D, 4B, 5B, and 6B. Further analysis showed that genetic effects of associated loci were greatly influenced by association panels, and the R2 of crucial loci were lower in modern cultivars than in the mini core collection, probably caused by strong selection in wheat breeding. In order to confirm the results of association analysis, yield-related favorable alleles Xgwm135-1A138, Xgwm337-1D186, Xgwm102-2D144, and Xgwm132-6B128 were evaluated in a double haploid (DH) population derived from Hanxuan10 xLumai14.These favorable alleles that were validated in various populations might be valuable in breeding for high-yield.

No MeSH data available.


Related in: MedlinePlus

Associations of seven phenotypic traits with 106 genome-wide SSR markers illustrated as dot plots of compressed MLM at P<0.01.The red dotted line indicates the threshold value of significant association.
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pone.0130029.g003: Associations of seven phenotypic traits with 106 genome-wide SSR markers illustrated as dot plots of compressed MLM at P<0.01.The red dotted line indicates the threshold value of significant association.

Mentions: Association analysis was performed between the 907 alleles at 106 SSR loci and seven yield-related traits over four environments using a mixed linear model. Seventy three significant associations were identified at 50 SSR loci (Fig 3, Table 2) located on all chromosomes except 4A, 7A and 7D. SSR loci associated with KNPS were located on chromosome 1A, 1D, 2D, 3B, 5B, 5D and 6B, KWPS-associated loci were located on 1A, 2D and 5B, PH-associated loci were located on 1B, 2A, 2B, 3A, 4B, 5A, 5B, 6B and 7B, SL-associated loci were located on 1A, 2B, 4B, 4D, 5D and 6A, SNPS-associated loci were located on 1D, 5A, 5D, 6B and 7B, SSN-associated loci were located on 2B, 2D, 3A, 3D, 5A, 5B, 6D and 7B, and TKW-associated loci were located on 2A, 2B, 4B and 5A. In addition, seven SSR loci were significantly associated with yield-related traits in two or more environments, such as, Xgwm135-1A with KNPS, Xgwm515-2A and Xgwm132-6B with PH, Xgwm219-6B with SNPS, and Xgwm102-2D, Xgwm297-7B and Xgwm383-3D with SSN. Furthermore, nine SSR loci, including Xgwm135-1A, Xwmc361-2B, Xgwm102-2D, Xgwm495-4B, Xbarc56-5A, Xgwm186-5A, Xgwm540-5B, Xgwm182-5D and Xgwm132-6B, were significantly associated with two or more traits across environments.


Association and Validation of Yield-Favored Alleles in Chinese Cultivars of Common Wheat (Triticumaestivum L.).

Guo J, Hao C, Zhang Y, Zhang B, Cheng X, Qin L, Li T, Shi W, Chang X, Jing R, Yang W, Hu W, Zhang X, Cheng S - PLoS ONE (2015)

Associations of seven phenotypic traits with 106 genome-wide SSR markers illustrated as dot plots of compressed MLM at P<0.01.The red dotted line indicates the threshold value of significant association.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4466017&req=5

pone.0130029.g003: Associations of seven phenotypic traits with 106 genome-wide SSR markers illustrated as dot plots of compressed MLM at P<0.01.The red dotted line indicates the threshold value of significant association.
Mentions: Association analysis was performed between the 907 alleles at 106 SSR loci and seven yield-related traits over four environments using a mixed linear model. Seventy three significant associations were identified at 50 SSR loci (Fig 3, Table 2) located on all chromosomes except 4A, 7A and 7D. SSR loci associated with KNPS were located on chromosome 1A, 1D, 2D, 3B, 5B, 5D and 6B, KWPS-associated loci were located on 1A, 2D and 5B, PH-associated loci were located on 1B, 2A, 2B, 3A, 4B, 5A, 5B, 6B and 7B, SL-associated loci were located on 1A, 2B, 4B, 4D, 5D and 6A, SNPS-associated loci were located on 1D, 5A, 5D, 6B and 7B, SSN-associated loci were located on 2B, 2D, 3A, 3D, 5A, 5B, 6D and 7B, and TKW-associated loci were located on 2A, 2B, 4B and 5A. In addition, seven SSR loci were significantly associated with yield-related traits in two or more environments, such as, Xgwm135-1A with KNPS, Xgwm515-2A and Xgwm132-6B with PH, Xgwm219-6B with SNPS, and Xgwm102-2D, Xgwm297-7B and Xgwm383-3D with SSN. Furthermore, nine SSR loci, including Xgwm135-1A, Xwmc361-2B, Xgwm102-2D, Xgwm495-4B, Xbarc56-5A, Xgwm186-5A, Xgwm540-5B, Xgwm182-5D and Xgwm132-6B, were significantly associated with two or more traits across environments.

Bottom Line: The associated loci were distributed on all chromosomes except 4A, 7A, and 7D.Further analysis showed that genetic effects of associated loci were greatly influenced by association panels, and the R2 of crucial loci were lower in modern cultivars than in the mini core collection, probably caused by strong selection in wheat breeding.In order to confirm the results of association analysis, yield-related favorable alleles Xgwm135-1A138, Xgwm337-1D186, Xgwm102-2D144, and Xgwm132-6B128 were evaluated in a double haploid (DH) population derived from Hanxuan10 xLumai14.These favorable alleles that were validated in various populations might be valuable in breeding for high-yield.

View Article: PubMed Central - PubMed

Affiliation: National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, Jiangsu, China.

ABSTRACT
Common wheat is one of the most important crops in China, which is the largest producer in the world. A set of 230 cultivars was used to identify yield-related loci by association mapping. This set was tested for seven yield-related traits, viz. plant height (PH), spike length (SL), spikelet number per spike (SNPS), kernel number per spike (KNPS), thousand-kernel weight (TKW), kernel weight per spike (KWPS), and sterile spikelet number (SSN) per plant in four environments. A total of 106 simple sequence repeat (SSR) markers distributed on all 21 chromosomes were used to screen the set. Twenty-one and 19 of them were associated with KNPS and TKW, respectively. Association mapping detected 73 significant associations across 50 SSRs, and the phenotypic variation explained (R2) by the associations ranged from 1.54 to 23.93%. The associated loci were distributed on all chromosomes except 4A, 7A, and 7D. Significant and potentially new alleles were present on 8 chromosomes, namely 1A, 1D, 2A, 2D, 3D, 4B, 5B, and 6B. Further analysis showed that genetic effects of associated loci were greatly influenced by association panels, and the R2 of crucial loci were lower in modern cultivars than in the mini core collection, probably caused by strong selection in wheat breeding. In order to confirm the results of association analysis, yield-related favorable alleles Xgwm135-1A138, Xgwm337-1D186, Xgwm102-2D144, and Xgwm132-6B128 were evaluated in a double haploid (DH) population derived from Hanxuan10 xLumai14.These favorable alleles that were validated in various populations might be valuable in breeding for high-yield.

No MeSH data available.


Related in: MedlinePlus