Identification of QTL for seed coat colour and oil content in Brassica napus by association mapping using SSR markers

2015 ◽  
Vol 95 (2) ◽  
pp. 387-395 ◽  
Author(s):  
Cunmin Qu ◽  
Maen Hasan ◽  
Kun Lu ◽  
Liezhao Liu ◽  
Kai Zhang ◽  
...  
Keyword(s):  
Brassica Napus ◽  
Association Mapping ◽  
Ssr Markers ◽  
Seed Coat ◽  
Oil Content ◽  
Coat Colour ◽  
Seed Coat Colour ◽  
Functional Polymorphisms ◽  
Genome Wide ◽  
Major Qtl

Qu, C., Hasan, M., Lu, K., Liu, L., Zhang, K., Fu, F., Wang, M., Liu, S., Bu, H., Wang, R., Xu, X., Chen, L. and Li, J. 2015. Identification of QTL for seed coat colour and oil content in Brassica napus by association mapping using SSR markers. Can. J. Plant Sci. 95: 387–395. Association mapping identifies quantitative trait loci (QTL) based on the strength of linkage disequilibrium (LD) between markers and functional polymorphisms across a set of diverse germplasms. In this study, we used association mapping to detect QTL and genome-wide simple sequence repeat (SSR) markers linked to seed coat colour and oil content in a population of 217 oilseed rape (Brassica napus L.) accessions. We corrected for the population structure of B. napus using 389 genome-wide SSR markers. In total, 25 and 11 SSR markers linked to seed coat colour and oil content were detected, respectively, and these two sets of markers were in different linkage groups. Nine of these markers for seed coat colour spanned the major QTL region for seed coat colour, and been mapped to chromosome A9. Six of these markers showed high levels of association with both seed coat colour and oil content, and markers H081N08.8 and KS20291 were mapped to the major QTL region for seed coat colour on chromosome A9. Another marker, CB10364, was in high LD with all determined seed coat colour and oil content traits, and was mapped to the co-localized QTL region for them on chromosome A8. These data indicate that seed coat colour was found to be an important contributor to seed oil content. Further, we show that association mapping using a heterogeneous set of genotypes is a suitable approach for complementing and enhancing previously obtained QTL information for marker-assisted selection.

Genome-Wide Association Mapping of Seed Coat Color in Brassica napus

2017 ◽  
Vol 65 (26) ◽  
pp. 5229-5237 ◽  
Author(s):  
Jia Wang ◽  
Xiaohua Xian ◽  
Xinfu Xu ◽  
Cunmin Qu ◽  
Kun Lu ◽  
...  
Keyword(s):  
Brassica Napus ◽  
Association Mapping ◽  
Seed Coat ◽  
Coat Color ◽  
Genome Wide Association ◽  
Seed Coat Color ◽  
Genome Wide

Identification of a major gene and RAPD markers for yellow seed coat colour in Brassica napus

Genome ◽  
2001 ◽  
Vol 44 (6) ◽  
pp. 1077-1082 ◽  
Author(s):  
Daryl J. Somers ◽  
Gerhard Rakow ◽  
Vinod K. Prabhu ◽  
Ken R.D. Friesen
Keyword(s):  
Brassica Napus ◽  
Seed Coat ◽  
Rapd Markers ◽  
Major Gene ◽  
Coat Colour ◽  
Seed Coat Colour ◽  
Yellow Seed ◽  
Yellow Seed Coat

scholarly journals Dissection of the genetic basis of oil content in Chinese peanut cultivars by association mapping

2020 ◽  
Author(s):  
Nian Liu ◽  
Li Huang ◽  
Weigang Chen ◽  
Bei Wu ◽  
Manish K. Pandey ◽  
...  
Keyword(s):  
Association Mapping ◽  
Ssr Markers ◽  
Oil Content ◽  
Genetic Basis ◽  
Primary Sources ◽  
Phenotypic Variance ◽  
Phenotypic Data ◽  
Mapping Panel ◽  
Genome Wide ◽  
Stable Association

Abstract Background Peanut is one of the primary sources for vegetable oil worldwide, and enhancing oil content is the main objective in these peanut breeding programs. Linked markers for oil content is required for use in genomics-assisted breeding (GAB), and association mapping is one of the promising approaches for discovery of associated markers. Results An association mapping panel consisting of 292 peanut varieties extensively distributed in China were phenotyped for oil content and genotyped with 583 polymorphic SSR markers. These markers amplified 3663 alleles with an average of 6.28 alleles per locus. The results of structure, phylogenetic relationship, and PCA analyses indicated two subgroups majorly differentiating based on geographic regions. Genome-wide association analysis using genetic and phenotypic data identified 12 associated markers including one (AGGS1014_2) highly stable association controlling up to 9.94% phenotypic variance explained (PVE) across multiple environments. Interestingly, the frequency of the favorable alleles for 12 associated markers showed a geographic difference. Two associated markers AGGS1014_2 and AHGS0798 with 6.90-9.94% PVE were verified to enhance oil content in an independent RIL population. The combined genotypes of AGGS1014_2 and AHGS0798 appeared to experience selection during the breeding program. Conclusion This study provided insights into the genetic basis of oil content in peanut and verified that two SSR markers were highly associated with oil content. Our results could facilitate marker-assisted selection for high-oil content breeding.

Identification of a major gene and RAPD markers for yellow seed coat colour in Brassica napus

Genome ◽  
2001 ◽  
Vol 44 (6) ◽  
pp. 1077-1082 ◽  
Author(s):  
Daryl J Somers ◽  
Gerhard Rakow ◽  
Vinod K Prabhu ◽  
Ken RD Friesen
Keyword(s):  
Brassica Napus ◽  
Seed Coat ◽  
Rapd Markers ◽  
Major Gene ◽  
Coat Colour ◽  
Seed Coat Colour ◽  
Yellow Seed ◽  
Dh Population ◽  
Seed Trait ◽  
Yellow Seed Coat

The development of yellow-seeded Brassica napus for improving the canola-meal quality characteristics of lower fibre content and higher protein content has been restricted because no yellow-seeded forms of B. napus exist, and their conventional development requires interspecific introgression of yellow seed coat colour genes from related species. A doubled-haploid (DH) population derived from the F1 generation of the cross 'Apollo' (black-seeded) × YN90-1016 (yellow-seeded) B. napus was analysed via bulked segregant analysis to identify molecular markers associated with the yellow-seed trait in B. napus for future implementation in marker-assisted breeding. A single major gene (pigment 1) flanked by eight RAPD markers was identified co-segregating with the yellow seed coat colour trait in the population. This gene explained over 72% of the phenotypic variation in seed coat colour. Further analysis of the yellow-seeded portion of this DH population revealed two additional genes favouring 'Apollo' alleles, explaining 11 and 8.5%, respectively, of the yellow seed coat colour variation. The data suggested that there is a dominant, epistatic interaction between the pigment 1 locus and the two additional genes. The potential of the markers to be implemented in plant breeding for the yellow-seed trait in B. napus is discussed.Key words: Brassica napus, yellow seed, RAPD.

Correlation Studies of Some Agronomic Characters in Sesame

1970 ◽  
Vol 6 (1) ◽  
pp. 27-31 ◽  
Author(s):  
M. Osman Khidir ◽  
H. El Gizouli Osman
Keyword(s):  
Seed Size ◽  
Seed Coat ◽  
Coat Colour ◽  
Stem Height ◽  
Agronomic Characters ◽  
Seed Coat Colour ◽  
Correlation Studies ◽  
First Maturity ◽  
Criteria For Selection ◽  
Number Of Branches

SummaryIn 90 local sesame types there was some association between seed coat colour and seed size, stem height, number of branches, number of pods, yield per plant and earliness. Forty-five coefficients show the degree of correlation between ten agronomic characters. Yield was significantly and positively correlated with all characters except the number of days to first flowering and to first maturity. Stem height, number of pods per plant and seed size seem to be the best criteria for selection in sesame.

scholarly journals Dissection of the genetic basis of oil content in Chinese peanut cultivars through association mapping

2020 ◽  
Author(s):  
Nian Liu ◽  
Li Huang ◽  
Weigang Chen ◽  
Bei Wu ◽  
Manish K. Pandey ◽  
...  
Keyword(s):  
Association Mapping ◽  
Ssr Markers ◽  
Oil Content ◽  
Genetic Basis ◽  
Principal Component ◽  
Primary Sources ◽  
Phenotypic Variance ◽  
Mapping Panel ◽  
Stable Association ◽  
Faster Development

Abstract Background: Peanut is one of the primary sources for vegetable oil worldwide, and enhancing oil content is the main objective in several peanut breeding programs of the world. Tightly linked markers are required for faster development of high oil content peanut varieties through genomics-assisted breeding (GAB), and association mapping is one of the promising approaches for discovery of such associated markers. Results: An association mapping panel consisting of 292 peanut varieties extensively distributed in China was phenotyped for oil content and genotyped with 583 polymorphic SSR markers. These markers amplified 3663 alleles with an average of 6.28 alleles per locus. The structure, phylogenetic relationship, and principal component analysis (PCA) indicated two subgroups majorly differentiating based on geographic regions. Genome-wide association analysis identified 12 associated markers including one (AGGS1014_2) highly stable association controlling up to 9.94% phenotypic variance explained (PVE) across multiple environments. Interestingly, the frequency of the favorable alleles for 12 associated markers showed a geographic difference. Two associated markers (AGGS1014_2 and AHGS0798) with 6.90-9.94% PVE were verified to enhance oil content in an independent RIL population and also indicated selection during the breeding program. Conclusion: This study provided insights into the genetic basis of oil content in peanut and verified highly associated two SSR markers to facilitate marker-assisted selection for developing high-oil content breeding peanut varieties.

Genotypic variation for phenolic compounds in developing and whole seeds, and storage conditions influence visual seed quality of yellow dry bean genotypes

2020 ◽  
Vol 100 (3) ◽  
pp. 284-295
Author(s):  
Mei Xiong ◽  
Mengli Zhao ◽  
Zhen-Xiang Lu ◽  
Parthiba Balasubramanian
Keyword(s):  
Antioxidant Activity ◽  
Phenolic Compounds ◽  
Seed Coat ◽  
Storage Temperature ◽  
Condensed Tannin ◽  
Consumer Preference ◽  
Coat Colour ◽  
Seed Coat Colour ◽  
Duration Of Storage

Seed coat colour is an important determinant of the visual quality of dry beans, as seeds are sold as a dry commodity. Phenolic compounds have a major effect on the colour of bean seeds. The objectives of the study were to determine the changes in phenolic compounds during seed development and in whole seeds of yellow bean genotypes with contrasting seed coat colour, and the effects of storage temperature and duration on seed phenolics and colour. Condensed tannin, phenolic acid, flavonoids, and antioxidant activity were observed as early as 10 d after flowering in the developing seeds of Arikara Yellow, which darken at harvest and during postharvest storage. In contrast, for CDC Sol and AAC Y073 seeds which remain yellow, phenolic compounds and antioxidant activity were consistently low. Seed brightness (L*) and yellow colour (b*) were negatively correlated with phenolic compounds and antioxidant activity, and conversely seed redness (a*) was positively correlated with phenolic compounds, confirming a negative influence of phenolic compounds on seed coat colour. Yellow bean genotypes had low anthocyanin but were high in β-carotene. Storage temperature influenced condensed tannin and seed coat colour, whereas the duration of storage influenced phenolic compounds, antioxidant activity, and seed coat colour. Higher temperatures (20 or 30 °C) and longer storage duration (120 or 180 d) generally resulted in darker seeds with increasing redness compared with seeds stored at 6 °C or for 60 d. AAC Y073 and CDC Sol with improved seed coat colour may increase consumer preference, value, and marketability of yellow beans.

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