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. 2019 Aug 14:25:104402.
doi: 10.1016/j.dib.2019.104402. eCollection 2019 Aug.

Data in support of genetic architecture of glucosinolate variations in Brassica napus

Varanya Kittipol  1 , Zhesi He  1 , Lihong Wang  1 , Tim Doheny-Adams  1 , Swen Langer  1 , Ian Bancroft  1
Affiliations

Data in support of genetic architecture of glucosinolate variations in Brassica napus

Varanya Kittipol et al. Data Brief. .

Abstract

The transcriptome-based GWAS approach, Associative Transcriptomics (AT), which was employed to uncover the genetic basis controlling quantitative variation of glucosinolates in Brassica napus vegetative tissues is described. This article includes the phenotypic data of leaf and root glucosinolate (GSL) profiles across a diversity panel of 288 B. napus genotypes, as well as information on population structure and levels of GSLs grouped by crop types. Moreover, data on genetic associations of single nucleotide polymorphism (SNP) markers and gene expression markers (GEMs) for the major GSL types are presented in detail, while Manhattan plots and QQ plots for the associations of individual GSLs are also included. Root genetic association are supported by differential expression analysis generated from root RNA-seq. For further interpretation and details, please see the related research article entitled 'Genetic architecture of glucosinolate variation in Brassica napus' (Kittipol et al., 2019).

Keywords: Associative transcriptomics; Brassica napus; Gene expression markers; Genetic associations; Glucosinolates; Oilseed rape; Population structure; SNP markers.

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Figures

Fig. 1
Fig. 1
Population structure and Glucosinolate variation from 288 B. napus accessions of the Renewable Industrial Products from Rapeseed (RIPR) Panel. (A) Relatedness of accessions in the panel based on 355 536 scored single-nucleotide polymorphisms (SNPs). (B) Main crop types, color coded: orange for spring oilseed (SpOSR); green for semi-winter oilseed rape; light blue for swede; dark blue for kale; red for winter oilseed rape(WOSR); black for winter fodder and gray for crop type not assigned. (C) Population structure for highest likelihood k=2. Variation for glucosinolates content (D) leaf and (E) root of 288 B. napus accessions. Individual glucosinolates were grouped according to their structural class as aliphatic (dark blue), indole(margenta) and aromatic(light blue). Panel A, B and C reproduced from Havlickova et al 2018.
Fig. 2
Fig. 2
Overview of associative transcriptomic analysis.
See this image and copyright information in PMC

References

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