scholarly journals Identification and Validation of Candidate Genes Involved in Fatty Acid Content in Oil Palm by Genome-Wide Association Analysis

2019 ◽  
Vol 10 ◽  
Author(s):  
Wei Xia ◽  
Tingting Luo ◽  
Yajing Dou ◽  
Wei Zhang ◽  
Annaliese S. Mason ◽  
...  
Keyword(s):  
Fatty Acid ◽  
Candidate Genes ◽  
Association Analysis ◽  
Oil Palm ◽  
Acid Content ◽  
Fatty Acid Content ◽  
Genome Wide Association ◽  
Genome Wide Association Analysis ◽  
Genome Wide

scholarly journals Identification of genes affecting saturated fat acid content in Elaeis guineensis by genome-wide association analysis

2018 ◽  
Author(s):  
Wei Xia ◽  
Tingting Luo ◽  
Wei Zhang ◽  
Annaliese S. Mason ◽  
Dongyi Huang ◽  
...  
Keyword(s):  
Fatty Acid ◽  
Candidate Genes ◽  
Palm Oil ◽  
Oil Palm ◽  
Lauric Acid ◽  
Acid Content ◽  
Fatty Acid Content ◽  
Saturated Fat ◽  
Snp Markers ◽  
Genome Wide

AbstractOil palm is the highest yielding oil crop per unit area worldwide. Unfortunately, palm oil is often considered unhealthy. In particular, palmic acid (C16:0) is a major component of palm oil. In this study a total of 1 261 501 SNP markers were produced in a diversity panel of 200 oil palm individuals. Oil content in this population varied from 29.8% to 70.3%, palmic acid varied from 31.3% to 48.8%, and oleic acid varied from 31.3% to 50.1%. We identified 274 SNP markers significantly associated with fatty acid compositions; 44 candidate genes in the flanking regions of these SNPs were involved in fatty acid biosynthesis and metabolism. Among them, two acyl-ACP thioesterase B genes had differential expression patterns between the mesocarp and kernel, tissues which show different oil profiles in oil palm (high palmic acid and high lauric acid respectively). Overexpression of both genes caused a significant increase in palmic acid content, while overexpression of the EgFatB2 gene also caused an accumulation of lauric acid and myristic acid. Our research provides genome-wide SNPs, a set of markers significantly associated with fatty acid content, and validated candidate genes for future targeted breeding of lower saturated fat content in palm oil.

Identify known and novel candidate genes associated with backfat thickness in Duroc pigs by large-scale genome-wide association analysis

2022 ◽  
Author(s):  
Rongrong Ding ◽  
Zhanwei Zhuang ◽  
Yibin Qiu ◽  
Donglin Ruan ◽  
Jie Wu ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Association Analysis ◽  
Large Scale ◽  
Major Gene ◽  
Gene Set Enrichment Analysis ◽  
Genome Wide Association ◽  
Backfat Thickness ◽  
Lean Meat ◽  
Genome Wide Association Analysis ◽  
Genome Wide

Abstract Backfat thickness (BFT) is complex and economically important traits in the pig industry, since it reflects fat deposition and can be used to measure the carcass lean meat percentage in pigs. In this study, all 6,550 pigs were genotyped using the Geneseek Porcine 50K SNP Chip to identify SNPs related to BFT and to search for candidate genes through genome-wide association analysis in two Duroc populations. In total, 80 SNPs, including 39 significant and 41 suggestive SNPs, and 6 QTLs were identified significantly associated with the BFT. In addition, 9 candidate genes, including a proven major gene MC4R, 3 important candidate genes (RYR1, HMGA1 and NUDT3) which were previously described as related to BFT, and 5 novel candidate genes (SIRT2, NKAIN2, AMH, SORCS1 and SORCS3) were found based on their potential functional roles in BFT. The functions of candidate genes and gene set enrichment analysis indicate that most important pathways are related to energy homeostasis and adipogenesis. Finally, our data suggests that most of the candidate genes can be directly used for genetic improvement through molecular markers, except that the MC4R gene has an antagonistic effect on growth rate and carcass lean meat percentage in breeding. Our results will advance our understanding of the complex genetic architecture of BFT traits, and laid the foundation for additional genetic studies to increase carcass lean meat percentage of pig through marker-assisted selection and/or genomic selection.

scholarly journals Plasticity of Medicago truncatula seed dormancy relates to large-scale environment variation

2019 ◽  
Author(s):  
Juan Pablo Renzi ◽  
Martin Duchoslav ◽  
Jan Brus ◽  
Iveta Hradilová ◽  
Vilém Pechanec ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Association Analysis ◽  
Medicago Truncatula ◽  
Seed Dormancy ◽  
Genome Wide Association ◽  
Dormancy Release ◽  
Bet Hedging ◽  
Genome Wide Association Analysis ◽  
Genome Wide ◽  
Plastic Responses

AbstractSeed dormancy and timing of its release is important developmental transition determining the survival of individual as well as population and species. We used Medicago truncatula as model to study legume seed dormancy in ecological and genomics context. The effect of oscillating temperatures as one of the dormancy release factor was tested over the period of 88 days on the set of 178 accessions originating from variable environmental conditions of Mediterranean basin. Phenotypic plasticity of final dormancy was significantly correlated with increased aridity, suggesting that plastic responses to external stimuli provide seeds with strong bet-hedging capacity and the potential to cope with high levels of environmental heterogeneity. Genome-wide association analysis identified candidate genes associated with dormancy release related to secondary metabolites synthesis, hormone regulation and modification of the cell wall likely mediating seed coat permeability and ultimately imbibition and germination.HighlightMedicago seed dormancy was correlated with increased aridity of the environment, suggesting that plastic responses provide seeds with a bet-hedging capacity. Genome-wide association analysis identified candidate genes associated with release from dormancy.

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