Molecular markers for seed colour in Brassica juncea

Genome ◽  
2005 ◽  
Vol 48 (4) ◽  
pp. 755-760 ◽  
Author(s):  
T Mahmood ◽  
M H Rahman ◽  
G R Stringam ◽  
J P Raney ◽  
A G Good
Keyword(s):  
Brassica Juncea ◽  
Phenotypic Variation ◽  
Molecular Mapping ◽  
Interaction Analysis ◽  
Duplicate Gene ◽  
Multiple Regression Model ◽  
Doubled Haploid Population ◽  
Seed Colour ◽  
Rflp Map ◽  
Dh Lines

A detailed RFLP map was used to map QTLs associated with seed colour in Brassica juncea using a doubled-haploid population derived from a cross between a black/brown-seeded cultivar and a yellow-seeded breeding line. Segregation analysis suggested that seed colour was under control of 2 unlinked loci with duplicate gene action. However, QTL analysis revealed 3 QTLs, SC-B4, SC-A10 and SC-A6, affecting seed colour. The QTLs were consistent across environments, and individually explained 43%, 31%, and 16%, respectively, and collectively 62% of the phenotypic variation in the population. Digenic interaction analysis showed that closest flanking locus of QTL SC-B4, wg7b6cNM, had strong epistasis with the locus wg5a1a, which is tightly linked to QTL SC-A6. The interaction of these 2 loci explained 27% of the phenotypic variation in the population, while the whole model explained 84%. In a multiple regression model, the effects of QTL SC-A10, as well as its interaction with other loci, were non-significant, whereas the effects of loci wg7b6cNM and wg5a1a and their interaction were significant. Ninety-eight percent of the DH lines carried the expected alleles of loci wg7b6cNM and wg5a1a for seed colour, confirming that only these 2 loci were linked to seed colour in B. juncea. Four additional digenic interactions significantly affected seed colour, and all 5 digenic interactions were consistent across environments.Key words: epistasis, Brassica juncea, seed colour, quantitative trait loci, molecular mapping.

scholarly journals Novel QTL Associated with Shoot Branching Identified in Doubled Haploid Rice (Oryza sativa L.) under Low Nitrogen Cultivation

Genes ◽  
2021 ◽  
Vol 12 (5) ◽  
pp. 745
Author(s):  
Youngho Kwon ◽  
Nkulu Rolly Kabange ◽  
Ji-Yun Lee ◽  
So-Myeong Lee ◽  
Jin-Kyung Cha ◽  
...  
Keyword(s):  
Doubled Haploid ◽  
Phenotypic Variation ◽  
Growth And Development ◽  
Oryza Sativa L ◽  
Tiller Number ◽  
Yield Potential ◽  
Doubled Haploid Population ◽  
Shoot Branching ◽  
Normal Nitrogen ◽  
Low Nitrogen

Shoot branching is considered as an important trait for the architecture of plants and contributes to their growth and productivity. In cereal crops, such as rice, shoot branching is controlled by many factors, including phytohormones signaling networks, operating either in synergy or antagonizing each other. In rice, shoot branching indicates the ability to produce more tillers that are essential for achieving high productivity and yield potential. In the present study, we evaluated the growth and development, and yield components of a doubled haploid population derived from a cross between 93-11 (P1, indica) and Milyang352 (P2, japonica), grown under normal nitrogen and low nitrogen cultivation open field conditions. The results of the phenotypic evaluation indicated that parental lines 93-11 (P1, a high tillering indica cultivar) and Milyang352 (P2, a low tillering japonica cultivar) showed distinctive phenotypic responses, also reflected in their derived population. In addition, the linkage mapping and quantitative trait locus (QTL) analysis detected three QTLs associated with tiller number on chromosome 2 (qTNN2-1, 130 cM, logarithm of the odds (LOD) 4.14, PVE 14.5%; and qTNL2-1, 134 cM, LOD: 6.05, PVE: 20.5%) and chromosome 4 (qTN4-1, 134 cM, LOD 3.92, PVE 14.5%), with qTNL2-1 having the highest phenotypic variation explained, and the only QTL associated with tiller number under low nitrogen cultivation conditions, using Kompetitive Allele-Specific PCR (KASP) and Fluidigm markers. The additive effect (1.81) of qTNL2-1 indicates that the allele from 93-11 (P1) contributed to the observed phenotypic variation for tiller number under low nitrogen cultivation. The breakthrough is that the majority of the candidate genes harbored by the QTLs qTNL2-1 and qTNN4-1 (here associated with the control of shoot branching under low and normal nitrogen cultivation, respectively), were also proposed to be involved in plant stress signaling or response mechanisms, with regard to their annotations and previous reports. Therefore, put together, these results would suggest that a possible crosstalk exists between the control of plant growth and development and the stress response in rice.

scholarly journals Genetic Analysis of Heterosis for Yield Influencing Traits in Brassica juncea Using a Doubled Haploid Population and Its Backcross Progenies

2021 ◽  
Vol 12 ◽  
Author(s):  
Aakanksha ◽  
Satish Kumar Yadava ◽  
Bal Govind Yadav ◽  
Vibha Gupta ◽  
Arundhati Mukhopadhyay ◽  
...  
Keyword(s):  
Brassica Juncea ◽  
Doubled Haploid ◽  
Snp Array ◽  
Hybrid Breeding ◽  
Doubled Haploid Population ◽  
Data Sets ◽  
East European ◽  
Common Qtl ◽  
Backcross Hybrids ◽  
Multiple Trials

The exploitation of heterosis through hybrid breeding is one of the major breeding objectives for productivity increase in crop plants. This research analyzes the genetic basis of heterosis in Brassica juncea by using a doubled haploid (DH) mapping population derived from F1 between two heterotic inbred parents, one belonging to the Indian and the other belonging to the east European gene pool, and their two corresponding sets of backcross hybrids. An Illumina Infinium Brassica 90K SNP array-based genetic map was used to identify yield influencing quantitative trait loci (QTL) related to plant architecture, flowering, and silique- and seed-related traits using five different data sets from multiple trials, allowing the estimation of additive and dominance effects, as well as digenic epistatic interactions. In total, 695 additive QTL were detected for the 14 traits in the three trials using five data sets, with overdominance observed to be the predominant type of effect in determining the expression of heterotic QTL. The results indicated that the design in the present study was efficient for identifying common QTL across multiple trials and populations, which constitute a valuable resource for marker-assisted selection and further research. In addition, a total of 637 epistatic loci were identified, and it was concluded that epistasis among loci without detectable main effects plays an important role in controlling heterosis in yield of B. juncea.

scholarly journals Identification and mapping of a leaf rust resistance gene in barley line Q21861

Genome ◽  
1997 ◽  
Vol 40 (2) ◽  
pp. 236-241 ◽  
Author(s):  
I. G. Borovkova ◽  
B. J. Steffenson ◽  
Y. Jin ◽  
A. Kilian ◽  
A. Kleinhofs ◽  
...  
Keyword(s):  
Leaf Rust ◽  
Molecular Mapping ◽  
Bulked Segregant Analysis ◽  
Dominant Gene ◽  
Puccinia Hordei ◽  
Doubled Haploid Population ◽  
Leaf Rust Resistance Gene ◽  
Resistance Locus ◽  
Sequence Tagged Sites ◽  
Barley Line

Barley line Q21861 possesses an incompletely dominant gene (RphQ) for resistance to leaf rust caused by Puccinia hordei. To investigate the allelic and linkage relations between RphQ and other known Rph genes, F2 populations from crosses between Q21861 and donors of Rph1 to Rph14 (except for Rph8) were evaluated for leaf rust reaction at the seedling stage. Results indicate that RphQ is either allelic with or closely linked to the Rph2 locus. A doubled haploid population derived from a cross between Q21861 and SM89010 (a leaf rust susceptible line) was used for molecular mapping of the resistance locus. Bulked segregant analysis was used to identify markers linked to RphQ, using random amplified polymorphic DNAs (RAPDs), restriction fragment length polymorphisms (RFLPs), and sequence tagged sites (STSs). Of 600 decamer primers screened, amplified fragments generated by 9 primers were found to be linked to the RphQ locus; however, only 4 of them were within 10 cM of the target. The RphQ locus was mapped to the centromeric region of chromosome 7, with a linkage distance of 3.5 cM from the RFLP marker CDO749. Rrn2, an RFLP clone from the ribosomal RNA intergenic spacer region, was found to be very closely linked with RphQ, based on bulked segregant analysis. An STS marker, ITS1, derived from Rrn2, was also closely linked (1.6 cM) to RphQ.Key words: Hordeum vulgare, Puccinia hordei, allelism testing, linkage, molecular markers.

scholarly journals QTL analysis for stomatal density and size in wheat spike organ

2018 ◽  
pp. 173
Author(s):  
ShuguangWang, Fanfan Dong ◽  
Daizhen Sun, Yaoyu Chen ◽  
Xue Yan, Ruilian Jing
Keyword(s):  
Opposite Direction ◽  
Stomatal Density ◽  
Additive Effect ◽  
Doubled Haploid Population ◽  
Wheat Leaf ◽  
Chromosome 5A ◽  
Haploid Population ◽  
Stomatal Length ◽  
Dh Lines ◽  
Wheat Spike

Plant changes its own photosynthetic rate and transpiration rate through regulating stomatal aperture, stomatal density and stomatal distribution. In this study, stomatal density, length and width of wheat spike organs, including palea, lemma and glume, at the third day after flowering were investigated, using a wheat doubled haploid population from a cross of Hanxuan10 and Lumai 14 in 2012 and 2013. And quantitative trait loci (QTL) of the above three traits were analyzed. There were stomata in the abaxial surface of palea, lemma and glume, but not in the adaxial surface for DH lines and their parents. A total of fourteen additive QTLs for those traits were identified. On the marker interval Xgwm291-Xgwm410-WMC340 on chromosome 5A, QMLsd-5A for stomatal density at middle of lemma and QDGsd-5A for stomatal density at down of glume, and QAGsl-5A for stomatal length at apex of glume were detected in 2012 and 2013，but with opposite direction of additive effect. In the previous study, Qsd-5A.3 and Qsd-5A.4 for stomatal density of wheat leaf, and Qsl-5A.1 for stomatal length of wheat leaf were also detected at the same marker region, and also with opposite direction of additive effect. These findings provided genetic basis for significantly negative correlation between stomatal density and length for wheat leaf and spike organs, but also implied stomatal density and length for wheat leaf and spike organs may be governed by the same or pleiotropic genes.

The identification of restriction fragment length polymorphisms linked to seed colour genes in Brassica napus

Genome ◽  
1995 ◽  
Vol 38 (3) ◽  
pp. 534-542 ◽  
Author(s):  
A. E. Van Deynze ◽  
B. S. Landry ◽  
K. P. Pauls
Keyword(s):  
Brassica Napus ◽  
Restriction Fragment ◽  
Fragment Length ◽  
Restriction Fragment Length Polymorphisms ◽  
Rflp Markers ◽  
Seed Colour ◽  
Dh Population ◽  
Length Polymorphisms ◽  
Dh Lines ◽  
Restriction Fragment Length

Restriction fragment length polymorphisms (RFLPs) linked to genes controlling seed colour were identified in rapeseed (Brassica napus). The efficiency of the RFLP analysis was enhanced by utilizing bulked segregant analysis, DNA clones that had previously been used to construct a RFLP map of B. napus, and a doubled-haploid (DH) population segregating for seed colour. Markers for two of the three seed colour genes segregating in the DH population were identified on the basis of χ2 analyses of marker distributions among visually classified black-, brown-, and yellow-seeded DH lines as well as ANOVA and quantitative trait locus analysis of light-reflectance measurements from seeds of the DH lines. The RFLP markers linked to seed colour that were identified in the present study will allow breeding strategies based on genotype selection to be developed for seed colour in rapeseed.Key words: RFLP markers, seed colour genes, rapeseed.

Molecular mapping and validation of Rlm1 gene for resistance to Leptosphaeria maculans in canola (Brassica napus L.)

2012 ◽  
Vol 63 (10) ◽  
pp. 1007 ◽  
Author(s):  
Rosy Raman ◽  
Belinda Taylor ◽  
Kurt Lindbeck ◽  
Neil Coombes ◽  
Denise Barbulescu ◽  
...  
Keyword(s):  
Brassica Napus ◽  
Ssr Markers ◽  
Genomic Sequence ◽  
Molecular Mapping ◽  
Durable Resistance ◽  
Leptosphaeria Maculans ◽  
Doubled Haploid Population ◽  
Brassica Napus L ◽  
Breeding Populations ◽  
Independent Population

European winter canola (Brassica napus L.) cultivars harbour genes for durable resistance to the fungus Leptosphaeria maculans, which causes blackleg disease under Australian environmental conditions. Previous studies have shown that resistance in winter-type cultivars Maxol and Columbus is controlled by two genes, Rlm1 and Rlm3, which have been mapped using randomly amplified polymorphic DNA markers onto chromosome A7. We mapped a doubled-haploid population that consisted of 101 lines from a cross between Maxol*1 and Westar-10 using diversity arrays technology and simple sequence repeat (SSR)-based markers. Two SSR marker loci, Xol12-e03 and Xra2-a05b, flanked the Rlm1 locus at an interval of 6.7 cM, which corresponds to ~3.2 Mb of the Brassica rapa genomic sequence; this region contains several genes encoding putative kinase and leucine-rich repeat-type disease-resistance proteins. SSR markers were further tested for their linkage with the Rlm1 locus in an independent population derived from Columbus*3/Westar-10. Our results showed that SSR markers linked to Rlm1 can be useful for monitoring Rlm1 gene introgression in breeding populations derived from Maxol and Columbus.

Sign in / Sign up

Export Citation Format

Share Document