scholarly journals Genome-Wide Association Study Identifies Genomic Loci Affecting Filet Firmness and Protein Content in Rainbow Trout

2019 ◽  
Vol 10 ◽  
Author(s):  
Ali Ali ◽  
Rafet Al-Tobasei ◽  
Daniela Lourenco ◽  
Tim Leeds ◽  
Brett Kenney ◽  
...  
Keyword(s):  
Rainbow Trout ◽  
Association Study ◽  
Protein Content ◽  
Genome Wide Association Study ◽  
Genome Wide Association ◽  
Genome Wide

scholarly journals Genome-wide association study identified candidate genes for seed size and seed composition improvement in M. truncatula

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Zhijuan Chen ◽  
Vanessa Lancon-Verdier ◽  
Christine Le Signor ◽  
Yi-Min She ◽  
Yun Kang ◽  
...  
Keyword(s):  
Association Study ◽  
Protein Content ◽  
Seed Size ◽  
Seed Protein ◽  
Genome Wide Association Study ◽  
Genome Wide Association ◽  
Strong Positive Correlation ◽  
Seed Composition ◽  
Seed Traits ◽  
Genome Wide

AbstractGrain legumes are highly valuable plant species, as they produce seeds with high protein content. Increasing seed protein production and improving seed nutritional quality represent an agronomical challenge in order to promote plant protein consumption of a growing population. In this study, we used the genetic diversity, naturally present in Medicago truncatula, a model plant for legumes, to identify genes/loci regulating seed traits. Indeed, using sequencing data of 162 accessions from the Medicago HAPMAP collection, we performed genome-wide association study for 32 seed traits related to seed size and seed composition such as seed protein content/concentration, sulfur content/concentration. Using different GWAS and postGWAS methods, we identified 79 quantitative trait nucleotides (QTNs) as regulating seed size, 41 QTNs for seed composition related to nitrogen (i.e. storage protein) and sulfur (i.e. sulfur-containing amino acid) concentrations/contents. Furthermore, a strong positive correlation between seed size and protein content was revealed within the selected Medicago HAPMAP collection. In addition, several QTNs showed highly significant associations in different seed phenotypes for further functional validation studies, including one near an RNA-Binding Domain protein, which represents a valuable candidate as central regulator determining both seed size and composition. Finally, our findings in M. truncatula represent valuable resources to be exploitable in many legume crop species such as pea, common bean, and soybean due to its high synteny, which enable rapid transfer of these results into breeding programs and eventually help the improvement of legume grain production.

scholarly journals Genome-wide association study uncovers genomic regions associated with grain iron, zinc and protein content in pearl millet

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Mahesh Pujar ◽  
S. Gangaprasad ◽  
Mahalingam Govindaraj ◽  
Sunil S. Gangurde ◽  
A. Kanatti ◽  
...  
Keyword(s):  
Association Study ◽  
Protein Content ◽  
Pearl Millet ◽  
Genome Wide Association Study ◽  
Breeding Strategy ◽  
Genome Wide Association ◽  
Late Embryogenesis Abundant Protein ◽  
Pentatricopeptide Repeat ◽  
Genome Wide ◽  
Population Structure Analysis

Abstract Pearl millet hybrids biofortified with iron (Fe) and zinc (Zn) promise to be part of a long-term strategy to combat micronutrient malnutrition in the arid and semi-arid tropical (SAT) regions of the world. Biofortification through molecular breeding is the way forward to achieving a rapid trait-based breeding strategy. This genome-wide association study (GWAS) was conducted to identify significant marker-trait associations (MTAs) for Fe, Zn, and protein content (PC) for enhanced biofortification breeding. A diverse panel of 281 advanced inbred lines was evaluated for Fe, Zn, and PC over two seasons. Phenotypic evaluation revealed high variability (Fe: 32–120 mg kg−1, Zn: 19–87 mg kg−1, PC: 8–16%), heritability (hbs2 ≥ 90%) and significantly positive correlation among Fe, Zn and PC (P = 0.01), implying concurrent improvement. Based on the Diversity Arrays Technology (DArT) seq assay, 58,719 highly informative SNPs were filtered for association mapping. Population structure analysis showed six major genetic groups (K = 6). A total of 78 MTAs were identified, of which 18 were associated with Fe, 43 with Zn, and 17 with PC. Four SNPs viz., Pgl04_64673688, Pgl05_135500493, Pgl05_144482656, and Pgl07_101483782 located on chromosomes Pgl04 (1), Pgl05 (2) and Pgl07 (1), respectively were co-segregated for Fe and Zn. Promising genes, ‘Late embryogenesis abundant protein’, ‘Myb domain’, ‘pentatricopeptide repeat’, and ‘iron ion binding’ coded by 8 SNPs were identified. The SNPs/genes identified in the present study presents prospects for genomics assisted biofortification breeding in pearl millet.

scholarly journals Single-Step Genome-Wide Association Study for Resistance to Piscirickettsia salmonis in Rainbow Trout (Oncorhynchus mykiss)

2019 ◽  
Vol 9 (11) ◽  
pp. 3833-3841 ◽  
Author(s):  
Agustin Barria ◽  
Rodrigo Marín-Nahuelpi ◽  
Pablo Cáceres ◽  
María E. López ◽  
Liane N. Bassini ◽  
...  
Keyword(s):  
Rainbow Trout ◽  
Oncorhynchus Mykiss ◽  
Association Study ◽  
Genome Wide Association Study ◽  
Single Step ◽  
Genome Wide Association ◽  
Rainbow Trout Oncorhynchus Mykiss ◽  
Genome Wide ◽  
Piscirickettsia Salmonis

scholarly journals Mapping loci controlling fatty acid profiles, oil and protein content by genome-wide association study in Brassica napus

2019 ◽  
Vol 7 (2) ◽  
pp. 217-226 ◽  
Author(s):  
Minqiang Tang ◽  
Yuanyuan Zhang ◽  
Yueying Liu ◽  
Chaobo Tong ◽  
Xiaohui Cheng ◽  
...  
Keyword(s):  
Fatty Acid ◽  
Brassica Napus ◽  
Association Study ◽  
Protein Content ◽  
Genome Wide Association Study ◽  
Genome Wide Association ◽  
Fatty Acid Profiles ◽  
Genome Wide

Candidate genes and genome-wide association study of grain protein content and protein deviation in durum wheat

Planta ◽  
2019 ◽  
Vol 249 (4) ◽  
pp. 1157-1175 ◽  
Author(s):  
D. Nigro ◽  
A. Gadaleta ◽  
G. Mangini ◽  
P. Colasuonno ◽  
I. Marcotuli ◽  
...  
Keyword(s):  
Association Study ◽  
Durum Wheat ◽  
Protein Content ◽  
Candidate Genes ◽  
Genome Wide Association Study ◽  
Grain Protein Content ◽  
Genome Wide Association ◽  
Grain Protein ◽  
Genome Wide

scholarly journals Genetic Dissection of Grain Zinc and Iron Concentration, Protein Content, Test Weight and Thousand Kernel Weight in Wheat (Triticum Aestivum L.) through Genome Wide Association Study

2022 ◽  
Author(s):  
Rathan N D ◽  
Hari Krishna ◽  
Ranjith Kumar Ellur ◽  
Deepamala Sehgal ◽  
Velu Govindan ◽  
...  
Keyword(s):  
Association Study ◽  
Protein Content ◽  
Genome Wide Association Study ◽  
Iron Concentration ◽  
Kernel Weight ◽  
Test Weight ◽  
Genome Wide Association ◽  
Thousand Kernel Weight ◽  
Genome Wide ◽  
Grain Zinc

Abstract Malnutrition due to micronutrients and protein deficiency is recognized among the major global health issues. Genetic biofortification of wheat varieties is both cost-effective and sustainable strategy to contain global micronutrient and protein malnutrition. Genomic regions governing grain zinc concentration (GZnC), grain iron concentration (GFeC), grain protein content (GPC), test weight (TW), and thousand kernel weight (TKW) were investigated in a set of 183 diverse bread wheat genotypes through genome wide association study (GWAS). The RIL population was genotyped using Breeders' 35K Axiom Array and phenotyped in three environments during 2019-2020. A total of 55 marker-trait associations (MTAs) were identified, of which four significant MTAs for GFeC on chromosome 2B, 3A, 3B, 6A and two for GZnC on chromosomes 1A and 7B. Further, a stable SNP was detected for TKW and also identified pleiotropic regions controlling GPC and TKW. In silico analysis revealed a few important putative candidate genes viz., F-box-like domain superfamily, Zinc finger CCCH-type proteins, Serine-threonine/tyrosine-protein kinase, Histone deacetylase domain superfamily and SANT/Myb domain superfamily proteins, etc. The identified novel MTAs will be validated to estimate their effects on different genetic backgrounds for subsequent use in marker-assisted selection (MAS).

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