A high-density genetic map and QTL mapping of leaf traits and glucosinolates in Barbarea vulgaris

Abstract

Background Barbarea vulgaris is a wild cruciferous plant and include two distinct types: the G- and P-types named after their glabrous and pubescent leaves, respectively. The types differ significantly in resistance to a range of insects and diseases as well as glucosinolates and other chemical defenses. A high-density linkage map was needed for further progress to be made in the molecular research of this plant. Results We performed restriction site-associated DNA sequencing (RAD-Seq) on an F 2 population generated from G- and P-type B. vulgaris. A total of 1545 SNP markers were mapped and ordered in eight linkage groups, which represents the highest density linkage map to date for the crucifer tribe Cardamineae. A total of 722 previously published genome contigs (50.2 Mb, 30% of the total length) can be anchored to this high density genetic map, an improvement compared to a previously published map (431 anchored contigs, 38.7 Mb, 23% of the assembly genome). Most of these (572 contigs, 31.2 Mb) were newly anchored to the map, representing a significant improvement. On the basis of the present high-density genetic map, 37 QTL were detected for eleven traits, each QTL explaining 2.9–71.3% of the phenotype variation. QTL of glucosinolates, leaf size and color traits were in most cases overlapping, possibly implying a functional connection. Conclusions This high-density linkage map and the QTL obtained in this study will be useful for further understanding of the genetic of the B. vulgaris and molecular basis of these traits, many of which are shared in the related crop watercress. Electronic supplementary material The online version of this article (10.1186/s12864-019-5769-z) contains supplementary material, which is available to authorized users.

Ancient Biosyntheses in an Oil Crop: Glucosinolate Profiles in Limnanthes alba and Its Relatives (Limnanthaceae, Brassicales)

“…Because of the possibility of peak coelution (Figure 4), analytes can be overlooked unless specifically searched for. A number of related GSLs were searched for in all of the investigated Limnanthes and Floerkea species but not found, including methylGSL (51) and the known hydroxyl derivatives of 56 and 31, as well as any isomer (Table S1 and Figure S5). We also searched for corresponding GSLs that would require chain elongation, but none were detected.…”

“…Previous literature documents the feasibility of this approach also beyond the usual model systems. 23,48,51,52 Finally, an elegant approach is transport engineering, 53,54 which should consider both 45 and 31 in L. alba.…”

“…Future whole-genome sequencing projects should allow for mining candidate genes of GSL biosynthesis in the Limnanthaceae. Previous literature documents the feasibility of this approach also beyond the usual model systems. ,,, Finally, an elegant approach is transport engineering, , which should consider both 45 and 31 in L. alba.…”

Engineering and optimization of the 2‐phenylethylglucosinolate production in Nicotiana benthamiana by combining biosynthetic genes from Barbarea vulgaris and Arabidopsis thaliana

“…Roots of B. vulgaris are enriched in 2PE, but the transcriptome data were from leaves, where a hydroxyl derivative of 2PE rather than 2PE dominates. However, as 2PE is a precursor for the hydroxylated 2PE derivative (Liu et al, 2019; Van Leur et al, 2006), the biosynthetic genes in 2PE biosynthesis could be inferred from the transcriptome data from leaves.…”

Engineering and optimization of the 2-phenylethylglucosinolate production inNicotiana benthamianaby combining biosynthetic genes fromBarbarea vulgarisandArabidopsis thaliana

“…Roots of B. vulgaris are enriched in 2PE, but the transcriptome data were from leaves, where a hydroxyl derivative of 2PE rather than 2PE dominated. However, since 2PE is precursor for the hydroxylated 2PE derivative (van Leur et al, 2006;Liu et al, 2019), biosynthetic genes in 2PE biosynthesis was deduced to exist in B. vulgaris leaves, suggesting that the transcriptome data from leaves would be useful for gene discovery in an engineering context.…”