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Genome-Wide Association Study on Resistance to Stalk Rot Diseases in Grain Sorghum.

Adeyanju A, Little C, Yu J, Tesso T - G3 (Bethesda) (2015)

Bottom Line: However, each associated SNP had relatively small effect on the traits, accounting for 19-30% of phenotypic variation.Linkage disequilibrium analyses suggest that significant SNPs are genetically independent.Estimation of frequencies of associated alleles revealed that durra and caudatum subpopulations were enriched for resistant alleles, but the results suggest complex molecular mechanisms underlying resistance to both pathogens.

View Article: PubMed Central - PubMed

Affiliation: Department of Agronomy, Kansas State University, Manhattan, Kansas 66506.

No MeSH data available.


Related in: MedlinePlus

Population structure plot for the 257 entries based on 25,000 SNPs. The red, green, blue, and yellow bars correspond to the caudatum, kafir, guinea, and durra races, respectively. Vertical and horizontal axes represent the membership coefficient and genotypes, respectively.
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fig2: Population structure plot for the 257 entries based on 25,000 SNPs. The red, green, blue, and yellow bars correspond to the caudatum, kafir, guinea, and durra races, respectively. Vertical and horizontal axes represent the membership coefficient and genotypes, respectively.

Mentions: Previous studies of these populations have assigned the genotypes to five subpopulations based on a probability of membership P ≥ 0.5. This subgrouping was largely based on botanical races of the genotypes. In the current study, a few of these genotypes were reassigned to the admixture group, perhaps due to a more stringent threshold for probability of membership, which is P ≥ 0.8. The majority of the bicolor group was reassigned to the admixed group. A majority of the genotypes that were reassigned from one of the population groups to the mixed group in the current analysis had probability of membership (P = 0.60–0.79) in their previously assigned group (Figure 2, Supporting Information, Table S3). This indicates that if the arbitrary threshold of P ≥ 0.5 were used, then the population subgrouping would have become similar to the previous grouping.


Genome-Wide Association Study on Resistance to Stalk Rot Diseases in Grain Sorghum.

Adeyanju A, Little C, Yu J, Tesso T - G3 (Bethesda) (2015)

Population structure plot for the 257 entries based on 25,000 SNPs. The red, green, blue, and yellow bars correspond to the caudatum, kafir, guinea, and durra races, respectively. Vertical and horizontal axes represent the membership coefficient and genotypes, respectively.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4478546&req=5

fig2: Population structure plot for the 257 entries based on 25,000 SNPs. The red, green, blue, and yellow bars correspond to the caudatum, kafir, guinea, and durra races, respectively. Vertical and horizontal axes represent the membership coefficient and genotypes, respectively.
Mentions: Previous studies of these populations have assigned the genotypes to five subpopulations based on a probability of membership P ≥ 0.5. This subgrouping was largely based on botanical races of the genotypes. In the current study, a few of these genotypes were reassigned to the admixture group, perhaps due to a more stringent threshold for probability of membership, which is P ≥ 0.8. The majority of the bicolor group was reassigned to the admixed group. A majority of the genotypes that were reassigned from one of the population groups to the mixed group in the current analysis had probability of membership (P = 0.60–0.79) in their previously assigned group (Figure 2, Supporting Information, Table S3). This indicates that if the arbitrary threshold of P ≥ 0.5 were used, then the population subgrouping would have become similar to the previous grouping.

Bottom Line: However, each associated SNP had relatively small effect on the traits, accounting for 19-30% of phenotypic variation.Linkage disequilibrium analyses suggest that significant SNPs are genetically independent.Estimation of frequencies of associated alleles revealed that durra and caudatum subpopulations were enriched for resistant alleles, but the results suggest complex molecular mechanisms underlying resistance to both pathogens.

View Article: PubMed Central - PubMed

Affiliation: Department of Agronomy, Kansas State University, Manhattan, Kansas 66506.

No MeSH data available.


Related in: MedlinePlus