Genome‐wide association study of soybean ( Glycine Max ) phosphorus deficiency tolerance during the seedling stage

2021 ◽  
Author(s):  
Shengqian Chao ◽  
Wenkai Du ◽  
Tian Lu ◽  
Yuming Yang ◽  
Kaiqiang Wang ◽  
...  
Keyword(s):  
Glycine Max ◽  
Association Study ◽  
Genome Wide Association Study ◽  
Phosphorus Deficiency ◽  
Seedling Stage ◽  
Genome Wide Association ◽  
Genome Wide

scholarly journals Genome-Wide Association Study Reveals the Genetic Basis of Cold Tolerance in Rice at the Seedling Stage

Agriculture ◽  
2021 ◽  
Vol 11 (4) ◽  
pp. 318
Author(s):  
Tae-Ho Ham ◽  
Yebin Kwon ◽  
Yoonjung Lee ◽  
Jisu Choi ◽  
Joohyun Lee
Keyword(s):  
Association Study ◽  
Candidate Genes ◽  
Cold Tolerance ◽  
Genome Wide Association Study ◽  
Seedling Stage ◽  
Genome Wide Association ◽  
Matrix Analysis ◽  
Rice Seedlings ◽  
Genome Wide ◽  
A Genome

We conducted a genome-wide association study (GWAS) of cold tolerance in a collection of 127 rice accessions, including 57 Korean landraces at the seedling stage. Cold tolerance of rice seedlings was evaluated in a growth chamber under controlled conditions and scored on a 0–9 scale, based on their low-temperature response and subsequent recovery. GWAS, together with principal component analysis (PCA) and kinship matrix analysis, revealed four quantitative trait loci (QTLs) on chromosomes 1, 4, and 5 that explained 16.5% to 18.5% of the variance in cold tolerance. The genomic region underlying the QTL on chromosome four overlapped with a previously reported QTL associated with cold tolerance in rice seedlings. Similarly, one of the QTLs identified on chromosome five overlapped with a previously reported QTL associated with seedling vigor. Subsequent bioinformatic and haplotype analyses revealed three candidate genes affecting cold tolerance within the linkage disequilibrium (LD) block of these QTLs: Os01g0357800, encoding a pentatricopeptide repeat (PPR) domain-containing protein; Os05g0171300, encoding a plastidial ADP-glucose transporter; and Os05g0400200, encoding a retrotransposon protein, Ty1-copia subclass. The detected QTLs and further evaluation of these candidate genes in the future will provide strategies for developing cold-tolerant rice in breeding programs.

Genetic dissection of 2-heptenal content in soybean (Glycine max) seed through genome-wide association study

2020 ◽  
Vol 71 (10) ◽  
pp. 884
Author(s):  
Zhikun Wang ◽  
Mingming Yang ◽  
Yuanzhuo Wang ◽  
Chao Yang ◽  
Xue Zhao ◽  
...  
Keyword(s):  
Glycine Max ◽  
Association Study ◽  
Quantitative Trait ◽  
Genome Wide Association Study ◽  
Fatty Acid Content ◽  
Soybean Seed ◽  
Genome Wide Association ◽  
Quality Characteristic ◽  
Genome Wide ◽  
A Genome

Association analysis is an alternative to conventional, family-based methods for detecting the location of gene(s) or quantitative trait loci (QTLs), and provides relatively high resolution in terms of defining the genome position of a gene or QTL. Flavour is an essential quality characteristic of soymilk; however, soymilk contains volatile compounds unacceptable to consumers. One of main constituents in the volatiles of normal soymilk is 2-heptenal, which is thought to be a degradative oxidation product of polyunsaturated acids. In this study, a genome-wide association study using 24651 single-nucleotide polymorphisms (SNPs) was performed to identify quantitative trait nucleotides (QTNs) controlling 2-heptenal content in soybean (Glycine max (L.) Merr.) seed from a natural population of 110 soybean germplasm accessions. We detected 62 significant QTNs located on 18 different chromosomes that are significantly associated with 2-heptenal content in soybean seed. Among these, 17 QTNs co-localised with QTLs previously found to be related to protein, oil and/or fatty acid content in soybean seed. We also identified some candidate genes involved in lipid metabolism. These findings further our understanding of the genetic basis of 2-heptenal content in soybean seed and the improvement of marker-assisted breeding efficiency, which will be important for breeding soybean cultivars with low 2-heptenal content.

Genome-wide association study (GWAS) of carbon isotope ratio (δ13C) in diverse soybean [Glycine max (L.) Merr.] genotypes

2014 ◽  
Vol 128 (1) ◽  
pp. 73-91 ◽  
Author(s):  
Arun Prabhu Dhanapal ◽  
Jeffery D. Ray ◽  
Shardendu K. Singh ◽  
Valerio Hoyos-Villegas ◽  
James R. Smith ◽  
...  
Keyword(s):  
Glycine Max ◽  
Association Study ◽  
Carbon Isotope ◽  
Isotope Ratio ◽  
Genome Wide Association Study ◽  
Carbon Isotope Ratio ◽  
Genome Wide Association ◽  
Genome Wide ◽  
Glycine Max L

scholarly journals Genome-Wide Association Study of Ureide Concentration in Diverse Maturity Group IV Soybean [Glycine max (L.) Merr.] Accessions

2015 ◽  
Vol 5 (11) ◽  
pp. 2391-2403 ◽  
Author(s):  
Jeffery D. Ray ◽  
Arun Prabhu Dhanapal ◽  
Shardendu K. Singh ◽  
Valerio Hoyos-Villegas ◽  
James R. Smith ◽  
...  
Keyword(s):  
Glycine Max ◽  
Association Study ◽  
Genome Wide Association Study ◽  
Group Iv ◽  
Genome Wide Association ◽  
Maturity Group ◽  
Genome Wide ◽  
Glycine Max L

Genome-wide association study of phosphorus-deficiency-tolerance traits in Aegilops tauschii

2015 ◽  
Vol 128 (11) ◽  
pp. 2203-2212 ◽  
Author(s):  
Yaxi Liu ◽  
Lang Wang ◽  
Mei Deng ◽  
Zhanyi Li ◽  
Yanli Lu ◽  
...  
Keyword(s):  
Association Study ◽  
Genome Wide Association Study ◽  
Phosphorus Deficiency ◽  
Aegilops Tauschii ◽  
Genome Wide Association ◽  
Genome Wide
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