scholarly journals Identification of novel seed longevity genes related to oxidative stress and seed coat by genome‐wide association studies and reverse genetics

2020 ◽  
Vol 43 (10) ◽  
pp. 2523-2539 ◽  
Author(s):  
Joan Renard ◽  
Regina Niñoles ◽  
Irene Martínez‐Almonacid ◽  
Beatriz Gayubas ◽  
Rubén Mateos‐Fernández ◽  
...  
Keyword(s):  
Oxidative Stress ◽  
Seed Coat ◽  
Reverse Genetics ◽  
Association Studies ◽  
Seed Longevity ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Genome Wide ◽  
Longevity Genes

scholarly journals Bench Research Informed by GWAS Results

Cells ◽  
2021 ◽  
Vol 10 (11) ◽  
pp. 3184
Author(s):  
Nikolay V. Kondratyev ◽  
Margarita V. Alfimova ◽  
Arkadiy K. Golov ◽  
Vera E. Golimbet
Keyword(s):  
Complex Traits ◽  
Genetic Architecture ◽  
Reverse Genetics ◽  
Genetic Factors ◽  
Association Studies ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Genome Wide

Scientifically interesting as well as practically important phenotypes often belong to the realm of complex traits. To the extent that these traits are hereditary, they are usually ‘highly polygenic’. The study of such traits presents a challenge for researchers, as the complex genetic architecture of such traits makes it nearly impossible to utilise many of the usual methods of reverse genetics, which often focus on specific genes. In recent years, thousands of genome-wide association studies (GWAS) were undertaken to explore the relationships between complex traits and a large number of genetic factors, most of which are characterised by tiny effects. In this review, we aim to familiarise ‘wet biologists’ with approaches for the interpretation of GWAS results, to clarify some issues that may seem counterintuitive and to assess the possibility of using GWAS results in experiments on various complex traits.

scholarly journals Genome-Wide Association Studies and Transcriptome Changes during Acclimation and Deacclimation in Divergent Brassica napus Varieties

2020 ◽  
Vol 21 (23) ◽  
pp. 9148 ◽  
Author(s):  
David P. Horvath ◽  
Jiaping Zhang ◽  
Wun S. Chao ◽  
Ashok Mandal ◽  
Mukhlesur Rahman ◽  
...  
Keyword(s):  
Oxidative Stress ◽  
Cold Acclimation ◽  
Candidate Genes ◽  
Calcium Binding ◽  
Association Studies ◽  
Differentially Expressed ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Genome Wide ◽  
A Genome

Information concerning genes and signals regulating cold acclimation processes in plants is abundant; however, less is known about genes and signals regulating the deacclimation process. A population of primarily winter B. napus varieties was used to conduct a genome-wide association study and to compare the transcriptomes from two winter B. napus varieties showing time-dependent differences in response to cold acclimation and deacclimation treatments. These studies helped to identify loci, candidate genes, and signaling processes impacting deacclimation in B. napus. GWAS identified polymorphisms at five different loci associated with freezing tolerance following deacclimation. Local linkage decay rates near these polymorphisms identified 38 possible candidate genes. Several of these genes have been reported as differentially regulated by cold stress in arabidopsis (Arabidopsis thaliana), including a calcium-binding EF-hand family protein (encoded by BnaCnng10250D) that was also differentially expressed during deacclimation in this study. Thousands of other genes differentially expressed during the acclimation and deacclimation treatments implicated processes involving oxidative stress, photosynthesis, light-regulated diurnal responses, and growth regulation. Generally, responses observed during acclimation were reversed within one week of deacclimation. The primary differences between the two winter B. napus varieties with differential deacclimation responses involved protection from oxidative stress and the ability to maintain photosynthesis.

scholarly journals Publisher Correction: A meta-analysis of genome-wide association studies identifies multiple longevity genes

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Joris Deelen ◽  
Daniel S. Evans ◽  
Dan E. Arking ◽  
Niccolò Tesi ◽  
Marianne Nygaard ◽  
...  
Keyword(s):  
Association Studies ◽  
Meta Analysis ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Genome Wide ◽  
Longevity Genes

A Correction to this paper has been published: https://doi.org/10.1038/s41467-021-22613-2

scholarly journals A meta-analysis of genome-wide association studies identifies multiple longevity genes

2019 ◽  
Vol 10 (1) ◽  
Author(s):  
Joris Deelen ◽  
Daniel S. Evans ◽  
Dan E. Arking ◽  
Niccolò Tesi ◽  
Marianne Nygaard ◽  
...  
Keyword(s):  
Association Studies ◽  
Meta Analysis ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Genome Wide ◽  
Longevity Genes
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