Genome‐wide association study of differences in 14 agronomic traits under low‐ and high‐density planting models based on the 660k SNP array for common wheat

2019 ◽  
Vol 139 (2) ◽  
pp. 272-283
Author(s):  
Shulin Chen ◽  
Xiyong Cheng ◽  
Kang Yu ◽  
Xiangnan Chang ◽  
Huihui Bi ◽  
...  
Keyword(s):  
Association Study ◽  
Common Wheat ◽  
Genome Wide Association Study ◽  
Agronomic Traits ◽  
Snp Array ◽  
High Density ◽  
Genome Wide Association ◽  
Genome Wide

scholarly journals Novel genes identified in a high-density genome wide association study for nicotine dependence

2006 ◽  
Vol 16 (1) ◽  
pp. 24-35 ◽  
Author(s):  
Laura Jean Bierut ◽  
Pamela A.F. Madden ◽  
Naomi Breslau ◽  
Eric O. Johnson ◽  
Dorothy Hatsukami ◽  
...  
Keyword(s):  
Association Study ◽  
Nicotine Dependence ◽  
Genome Wide Association Study ◽  
High Density ◽  
Genome Wide Association ◽  
Novel Genes ◽  
Genome Wide

scholarly journals Genome-wide association study of agronomic traits in rice cultivated in temperate regions

BMC Genomics ◽  
2018 ◽  
Vol 19 (1) ◽  
Author(s):  
Juan L Reig-Valiente ◽  
Luis Marqués ◽  
Manuel Talón ◽  
Concha Domingo
Keyword(s):  
Association Study ◽  
Genome Wide Association Study ◽  
Agronomic Traits ◽  
Genome Wide Association ◽  
Genome Wide

scholarly journals Genome-wide association study and genomic selection for plant height, maturity, seed weight, and yield in soybean

2019 ◽  
Author(s):  
Waltram Ravelombola ◽  
Jun Qin ◽  
Ainong Shi ◽  
Fengmin Wang ◽  
Yan Feng ◽  
...  
Keyword(s):  
Association Study ◽  
Genomic Selection ◽  
Candidate Genes ◽  
Plant Height ◽  
Seed Weight ◽  
Genome Wide Association Study ◽  
Agronomic Traits ◽  
Snp Markers ◽  
Genome Wide Association ◽  
Genome Wide

Abstract Background Soybean [ Glycine max (L.) Merr.] is a legume of great interest worldwide. Enhancing genetic gain for agronomic traits via molecular approaches has been long considered as the main task for soybean breeders and geneticists. The objectives of this study were to evaluate maturity, plant height, seed weight, and yield in a diverse soybean accession panel, to conduct a genome-wide association study (GWAS) for these traits and identify SNP markers associated with the four traits, and to assess genomic selection (GS) accuracy. Results A total of 250 soybean accessions were evaluated for maturity, plant height, seed weight, and yield over three years. This panel was genotyped with a total of 10,259 high quality SNPs postulated from genotyping by sequencing (GBS). GWAS was performed using a Bayesian Information and Linkage Disequilibrium Iteratively Nested Keyway (BLINK) model, and GS was evaluated using a ridge regression best linear unbiased predictor (rrBLUP) model. The results revealed that a total of 20, 31, 37, 31, and 23 SNPs were significantly associated with the average 3-year data for maturity, plant height, seed weight, and yield, respectively; some significant SNPs were mapped into previously described loci ( E2 , E4 , and Dt1 ) affecting maturity and plant height in soybean and a new locus mapped on chromosome 20 was significantly associated with plant height; Glyma.10g228900 , Glyma.19g200800 , Glyma.09g196700 , and Glyma.09g038300 were candidate genes found in the vicinity of the top or the second best SNP for maturity, plant height, seed weight, and yield, respectively; a 11.5-Mb region of chromosome 10 was associated with both seed weight and yield; and GS accuracy was trait-, year-, and population structure-dependent. Conclusions The SNP markers identified from this study for plant height, maturity, seed weight and yield can be used to improve the four agronomic traits through marker-assisted selection (MAS) and GS in soybean breeding programs. After validation, the candidate genes can be transferred to new cultivars using SNP markers through MAS. The high GS accuracy has confirmed that the four agronomic traits can be selected in molecular breeding through GS.

Genome‐wide association study reveals loci associated with seed longevity in common wheat ( Triticum aestivum L.)

2019 ◽  
Vol 139 (2) ◽  
pp. 295-303 ◽  
Author(s):  
Jing Hong Zuo ◽  
Feng Ying Chen ◽  
Xiao Ying Li ◽  
Xian Chun Xia ◽  
Hong Cao ◽  
...  
Keyword(s):  
Triticum Aestivum ◽  
Association Study ◽  
Common Wheat ◽  
Genome Wide Association Study ◽  
Triticum Aestivum L ◽  
Seed Longevity ◽  
Genome Wide Association ◽  
Genome Wide

scholarly journals Genome-wide association study identifies loci and candidate genes for internal organ weights in Simmental beef cattle

2018 ◽  
Vol 50 (7) ◽  
pp. 523-531 ◽  
Author(s):  
Bingxing An ◽  
Jiangwei Xia ◽  
Tianpeng Chang ◽  
Xiaoqiao Wang ◽  
Jian Miao ◽  
...  
Keyword(s):  
Beef Cattle ◽  
Association Study ◽  
Genome Wide Association Study ◽  
Snp Array ◽  
Genome Wide Association ◽  
Heart Weight ◽  
Spleen Weight ◽  
Internal Organs ◽  
Genome Wide ◽  
A Genome

Cattle internal organs as accessible raw materials have a long history of being widely used in beef processing, feed and pharmaceutical industry. These traits not only are of economic interest to breeders, but they are intrinsically linked to many valuable traits, such as growth, health, and productivity. Using the Illumina Bovine HD 770K SNP array, we performed a genome-wide association study for heart weight, liver weight, spleen weight, lung weight, and kidney weight in 1,217 Simmental cattle. In our research, 38 significant single nucleotide polymorphisms (SNPs) ( P < 1.49 × 10−6) were identified for five internal organ weight traits. These SNPs are within or near 13 genes, and some of them have been reported previously, including NDUFAF4, LCORL, BT.94996, SLIT2, FAM184B, LAP3, BBS12, MECOM, CD300LF, HSD17B3, TLR4, MXI1, and MB21D2. In addition, we detected four haplotype blocks on BTA6 containing 18 significant SNPs associated with spleen weight. Our results offer worthy insights into understanding the genetic mechanisms of internal organs' development, with potential application in breeding programs of Simmental beef cattle.

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