Genome-wide association study for frost tolerance in canola (Brassica napus L.) under field conditions

Wrucke, Danielle F.; Mamidi, Sujan; Rahman, Mukhlesur

doi:10.1007/s13562-018-0472-8

Cited by 7 publications

(7 citation statements)

References 68 publications

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“…Several GWAS studies on freezing tolerance in canola, under various conditions and phenotyping strategies, have been published [32][33][34][35][36][37][38]. However, none of the loci associated with these studies were identified as significant in both experimental runs in our study.…”

Section: Comparison To Other Association Mapping Studies Identify Add...contrasting

confidence: 64%

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Genome-Wide Association Mapping of Freezing Tolerance Loci in Canola (Brassica napus L.)

et al. 2021

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Winter canola generally produces greater yields than spring canola. However, its range is limited due to its inability to withstand the harsh winter conditions that occur in many northern regions of the U.S.A. To identify loci associated with freezing tolerance in canola, we conducted a genome-wide association study (GWAS) using a genotyped diversity panel containing 399 accessions consisting primarily of winter canola. One-month-old greenhouse grown plants were subsequently cold-acclimated for two months in an environmental growth chamber prior to phenotyping for freezing survival using a visual damage scale and chlorophyll fluorescence (Fv/Fo). There was reasonable correlation observed between visual damage and chlorophyll fluorescence ratings among the top associated loci; the results indicated that some loci contributed to both freezing damage/tolerance and photosynthetic efficiency. The resulting numerical values for phenotypes were used for association analyses with the identified SNPs. Thirteen significant markers were identified on nine chromosomes for the phenotypes scored, with several showing significance for multiple phenotypes. Twenty-five candidate genes were identified as previously associated with freezing tolerance, photosynthesis, or cold-responsive in canola or Arabidopsis.

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Section: Comparison To Other Association Mapping Studies Identify Add...contrasting

confidence: 64%

“…Previously genotyped populations of canola have been used for GWAS studies [32][33][34][35][36][37][38]. However, the majority of these diversity panels were a mix of winter, semi-winter and spring lines, and none had more than 200 winter varieties included in the population.…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Association Mapping of Freezing Tolerance Loci in Canola (Brassica napus L.)

et al. 2021

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“…The overall median is used to calculate the mean rank. The mean rank of the genotypes was also calculated by ranking all the medians from low to high and taking the mean of the ranks (Wrucke, Mamidi, & Rahman, ).…”

Section: Methodsmentioning

confidence: 99%

Genome‐wide association study for frost tolerance in rapeseed/canola (Brassica napus) under simulating freezing conditions

2019

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| INTRODUC TI ONRapeseed/canola (Brassica napus L.) is one of the most important oilseed crops in the world and second to soybean (Foreign Agriculture Services, United States Department of Agriculture, National Agricultural Statistics Service, 2019). It is an amphidiploid (AACC, 2n = 4x = 38) and evolved through spontaneous interspecific hybridization followed by genome duplication, chromosome fission, fusion and rearrangements between two diploid species, B. rapa L. (AA, 2n = 2x = 20) and B. oleracea L. (CC, 2n = 2x = 18)

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“…Interactions were estimated based on the protein-protein interactions in Arabidopsis thaliana and the reciprocal best hit pairs between A. thaliana and B. napus, as well as the regulations predicted in B. napus. All these genes were regulated in the same manner in 158A and SGDH284 plants response to varied environmental stresses like low temperature [40][41][42]. Considering the characteristics of transcriptomes based analysis, e.g., they are usually used to assess tissue-specific and stage-specific regulations, application of multi-dimensional research methods including transcriptomics, GWAS and the integrated strategy such as expression quantitative trait loci (eQTL) are therefore expected for systematically depiction of the cold stress mechanisms in B. napus in future.…”

Section: Discussionmentioning

confidence: 99%

Genome-wide identification of cold responsive transcription factors in Brassica napus L

Lei

Yang

et al. 2020

BMC Plant Biol

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Background: Cold stress is one of the primary environmental factors that affect plant growth and productivity, especially for crops like Brassica napus that live through cold seasons. Till recently, although a number of genes and pathways involved in B. napus cold response have been revealed by independent studies, a genome-wide identification of the key regulators and the regulatory networks is still lack. In this study, we investigated the transcriptomes of cold stressed semi-winter and winter type rapeseeds in short day condition, mainly with the purpose to systematically identify the functional conserved transcription factors (TFs) in cold response of B. napus. Results: Global modulation of gene expression was observed in both the semi-winter type line (158A) and the winter type line (SGDH284) rapeseeds, in response to a seven-day chilling stress in short-day condition. Function analysis of differentially expressed genes (DEGs) revealed enhanced stresses response mechanisms and inhibited photosynthesis in both lines, as well as a more extensive inhibition of some primary biological processes in the semi-winter type line. Over 400 TFs were differentially expressed in response to cold stress, including 56 of them showed high similarity to the known cold response TFs and were consistently regulated in 158A and SGDH284, as well as 25 TFs which targets were over-represented in the total DEGs. A further investigation based on their interactions indicated the critical roles of several TFs in cold response of B. napus. Conclusion: In summary, our results revealed the alteration of gene expression in cold stressed semi-winter and winter ecotype B. napus lines and provided a valuable collection of candidate key regulators involved in B. napus response to cold stress, which could expand our understanding of plant stress response and benefit the future improvement of the breed of rapeseeds.

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Genome-wide association study for frost tolerance in canola (Brassica napus L.) under field conditions

Cited by 7 publications

References 68 publications

Genome-Wide Association Mapping of Freezing Tolerance Loci in Canola (Brassica napus L.)

Genome-Wide Association Mapping of Freezing Tolerance Loci in Canola (Brassica napus L.)

Genome‐wide association study for frost tolerance in rapeseed/canola (Brassica napus) under simulating freezing conditions

Genome-wide identification of cold responsive transcription factors in Brassica napus L

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