Construction of genetic linkage map and mapping of QTL for seed color in<i>Brassica rapa</i>

Kebede, Berisso; Cheema, Kuljit Kaur; Greenshields, David L.; Li, Changxi; Selvaraj, Gopalan; Rahman, Habibur

doi:10.1139/g2012-066

Cited by 28 publications

(39 citation statements)

References 41 publications

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“…Heritability and the cross-environment correlation for this trait were both over 0.8, and we detected one large-effect QTL affecting only this trait on A9 in both environments. This supports previous studies mapping seed color to one or a few genes on A9 in B. rapa [23,49]. The candidate gene BrTT8 has been identified in this region and shown to control the accumulation of proanthocyanidins in the seed coat [71,72].…”

Section: Discussionsupporting

confidence: 88%

“…Brassica rapa is an internationally cultivated seed oil and vegetable crop and a parent of the hybrid-origin mustard crops, B. napus (canola) and B. juncea (Indian mustard) [47]. Numerous genetic resources have been developed for this species [22,23,48,49], and the first reference sequence for B. rapa was released in 2011 [50]. Naturalized populations of B. rapa are distributed throughout the United States and often occur in disturbed habitats or the margins of agricultural fields [51,52].…”

Section: Introductionmentioning

confidence: 99%

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QTL architecture of reproductive fitness characters in Brassica rapa

2014

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BackgroundReproductive output is critical to both agronomists seeking to increase seed yield and to evolutionary biologists interested in understanding natural selection. We examine the genetic architecture of diverse reproductive fitness traits in recombinant inbred lines (RILs) developed from a crop (seed oil) × wild-like (rapid cycling) genotype of Brassica rapa in field and greenhouse environments.ResultsSeveral fitness traits showed strong correlations and QTL-colocalization across environments (days to bolting, fruit length and seed color). Total fruit number was uncorrelated across environments and most QTL affecting this trait were correspondingly environment-specific. Most fitness components were positively correlated, consistent with life-history theory that genotypic variation in resource acquisition masks tradeoffs. Finally, we detected evidence of transgenerational pleiotropy, that is, maternal days to bolting was negatively correlated with days to offspring germination. A QTL for this transgenerational correlation was mapped to a genomic region harboring one copy of FLOWERING LOCUS C, a genetic locus known to affect both days to flowering as well as germination phenotypes.ConclusionsThis study characterizes the genetic structure of important fitness/yield traits within and between generations in B. rapa. Several identified QTL are suitable candidates for fine-mapping for the improvement of yield in crop Brassicas. Specifically, brFLC1, warrants further investigation as a potential regulator of phenology between generations.

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Section: Discussionsupporting

confidence: 88%

Section: Introductionmentioning

confidence: 99%

QTL architecture of reproductive fitness characters in Brassica rapa

2014

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“…In the present study the SNP marker SNP21195A09 was identified to the other side of the QTL peak, enabling the QTL to be clearly located on the B. rapa genome sequence. Xiao et al [39] mapped a recessive gene for seed colour on chromosome A09 in B. rapa , however the physical region containing this gene (between 19.3 and 22.1 Mbp) does not correspond to the locus identified in our study. Furthermore, Kebede et al [40] mapped a major seed colour QTL in B. rapa on the middle of A09.…”

Section: Discussioncontrasting

confidence: 86%

A High-Density SNP Map for Accurate Mapping of Seed Fibre QTL in Brassica napus L

et al. 2013

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A high density genetic linkage map for the complex allotetraploid crop species Brassica napus (oilseed rape) was constructed in a late-generation recombinant inbred line (RIL) population, using genome-wide single nucleotide polymorphism (SNP) markers assayed by the Brassica 60 K Infinium BeadChip Array. The linkage map contains 9164 SNP markers covering 1832.9 cM. 1232 bins account for 7648 of the markers. A subset of 2795 SNP markers, with an average distance of 0.66 cM between adjacent markers, was applied for QTL mapping of seed colour and the cell wall fiber components acid detergent lignin (ADL), cellulose and hemicellulose. After phenotypic analyses across four different environments a total of 11 QTL were detected for seed colour and fiber traits. The high-density map considerably improved QTL resolution compared to the previous low-density maps. A previously identified major QTL with very high effects on seed colour and ADL was pinpointed to a narrow genome interval on chromosome A09, while a minor QTL explaining 8.1% to 14.1% of variation for ADL was detected on chromosome C05. Five and three QTL accounting for 4.7% to 21.9% and 7.3% to 16.9% of the phenotypic variation for cellulose and hemicellulose, respectively, were also detected. To our knowledge this is the first description of QTL for seed cellulose and hemicellulose in B. napus, representing interesting new targets for improving oil content. The high density SNP genetic map enables navigation from interesting B. napus QTL to Brassica genome sequences, giving useful new information for understanding the genetics of key seed quality traits in rapeseed.

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“…A genetic linkage map constructed based on 96 RILs of the Sampad × 3-0026.027 cross of B. rapa and by the use of simple sequence repeat (SSR) and amplified fragment length polymorphism (AFLP) markers (Kebede et al, 2012) was used to map the QTL for total seed GSL content. Composite interval mapping (CIM) using QTL Cartographer (http://statgen.ncsu.edu/qtlcart/WQTLCart.htm; Wang et al, 2006) was done to identify the flanking markers and to estimate the likelihood of a QTL and its effect at 2 cM intervals with 10 cM windows.…”

Section: Qtl Mappingmentioning

confidence: 99%

“…1). The markers were developed based on the genomic DNA sequence of B. rapa cultivar Chiifu available at www.brassica.bbsrc.ac.uk/BrassicaDB (Kebede et al, 2012). 2, Table 4).…”

Section: Qtl Mappingmentioning

confidence: 99%

Genetic Study and QTL Mapping of Seed Glucosinolate Content in Brassica rapa L.

et al. 2014

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537ReseaRch G lucosinolates (GSLs) are the secondary plant metabolites characteristic of the family Brassicaceae (Cruciferae). There are three major types of GSLs, aliphatic, indolyl, and aromatic which are biosynthesized from different amino acid precursors such as methionine, phenylalanine, and tryptophan. Traditional oilseed B. napus or B. rapa, collectively called rapeseed, contain > 100 µmol of total GSL per gram seed, where the aliphatic 3-butenyl (gluconapin), 2-hydroxy-3-butenyl (progoitrin), 4-pentenyl (glucobrassicanapin), and 2-hydroxy-4-pentenyl (napoleiferin) GSLs, and the indolyl 4-hydroxy-3-indolylmethyl (4-hydroxyglucobrassicin) GSL are the dominating ones (Sang and Salisbury, 1988). Enzymatic hydrolysis of these GSLs by the enzyme myrosinase, which normally occurs in all GSL containing plants, liberates various goitrogenic compounds, such as oxazolidinethione, isothiocyanates, and thiocyanates (for review, see Halkier and Gershenzon, 2006). Their presence in seed meal significantly reduces the biological value and net protein utilization of the feed (Bjerg et al., 1989). Breeding efforts in the last few decades have reduced the content of total GSL to less than 15 µmol per gram of seed ABSTRACT Self-incompatibility in Brassica rapa L. is a major impediment to experimental studies on the genetic control of quantitative traits such as seed glucosinolate (GSL) content. In this paper, Abbreviations: AFLP, amplified fragment length polymorphism; CIM, composite interval mapping; GSL, glucosinolate; LOD, logarithm of the odds; NIRS, near-infrared reflectance spectroscopy; QTL, quantitative trait loci; RIL, recombinant inbred line; SE, standard error; SSD, single seed descent; SSR, simple sequence repeat.

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Construction of genetic linkage map and mapping of QTL for seed color inBrassica rapa

Cited by 28 publications

References 41 publications

QTL architecture of reproductive fitness characters in Brassica rapa

QTL architecture of reproductive fitness characters in Brassica rapa

A High-Density SNP Map for Accurate Mapping of Seed Fibre QTL in Brassica napus L

Genetic Study and QTL Mapping of Seed Glucosinolate Content in Brassica rapa L.

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