scholarly journals AFLP and SSR markers linked to the yellow seed colour gene in Brassica juncea L.

2011 ◽  
Vol 47 (No. 4) ◽  
pp. 149-155
Author(s):  
Z. Huang ◽  
Y. Zhang ◽  
H.Q. Li ◽  
L. Yang ◽  
Y.Y. Ban ◽  
...  
Keyword(s):  
Brassica Juncea ◽  
Ssr Markers ◽  
Single Gene ◽  
Recessive Allele ◽  
Erucic Acid Content ◽  
Sequence Information ◽  
Seed Colour ◽  
Yellow Seed ◽  
Yellow Mustard ◽  
Colour Gene

Yellow mustard, cultivated in northern Shaanxi of China, is a valuable germplasm of Brassica juncea with low erucic acid content. Its yellow seed colour is controlled by a recessive allele of a single gene, whose dominant allele conditions brown seed colour. To map the yellow seed colour allele, amplified fragment length polymorphism (AFLP) and simple sequence repeat (SSR) technologies were used to identify markers linked to the recessive allele. The analysis was done on 386 F<sub>2</sub> plants, segregating for seed colour, from the cross Wuqi yellow mustard &times; Wugong mustard. The plants were selfed to determine their seed colour genotype. Twenty AFLP markers and eight SSR markers were identified from 256 AFLP primer combinations and 624 pairs of SSR primers, respectively. Blast analysis indicated that the sequences of four closely linked AFLP and SSR markers showed good collinearity with those of Arabidopsis chromosome 3, and the homologue of the yellow seed colour allele was located between At3g14190 and At3g32130. Sequence information of the region between the two genes of Arabidopsis could be used to develop more closely linked markers to narrow down the homologue of the yellow seed colour allele. These results would accelerate the procedure of yellow seed colour gene cloning and marker-assisted selection for yellow mustard.&nbsp;

Fine mapping of the yellow seed locus in Brassica juncea L.

Genome ◽  
2012 ◽  
Vol 55 (1) ◽  
pp. 8-14 ◽  
Author(s):  
Zhen Huang ◽  
Yuanyuan Ban ◽  
Li Yang ◽  
Yu Zhang ◽  
Huiqiang Li ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Genetic Map ◽  
Recessive Gene ◽  
Sequence Information ◽  
Brassica Napus L ◽  
Yellow Seed ◽  
Yellow Mustard ◽  
Sequence Characterized Amplified Region ◽  
Mustard Plant ◽  
Northern Shaanxi

The yellow mustard plant in Northern Shaanxi is a precious germplasm, and the yellow seed trait is controlled by a single recessive gene. In this report, amplified fragment length polymorphism (AFLP) and simple sequence repeat (SSR) techniques were used to identify markers linked to the brown seed locus in an F2 population consisting of 1258 plants. After screening 256 AFLP primer combinations and 456 pairs of SSR primers, we found 14 AFLP and 2 SSR markers that were closely linked to the brown seed locus. Among these markers, the SSR marker CB1022 showed codominant inheritance. By integrating markers previously found to be linked to the brown seed locus into the genetic map of the F2 population, 23 markers were linked to the brown seed locus. The two closest markers, EA02MC08 and P03MC08, were located on either side of the brown seed locus at a distance of 0.3 and 0.5 cM, respectively. To use the markers for the breeding of yellow-seeded mustard plants, two AFLP markers (EA06MC11 and EA08MC13) were converted into sequence-characterized amplified region (SCAR) markers, SC1 and SC2, with the latter as the codominant marker. The two SSR markers were subsequently mapped to the A9/N9 linkage group of Brassica napus L. by comparing common SSR markers with the published genetic map of B. napus. A BLAST analysis indicated that the sequences of seven markers showed good colinearity with those of Arabidopsis chromosome 3 and that the homolog of the brown seed locus might exist between At3g14120 and At3g29615 on this same chromosome. To develop closer markers, we could make use of the sequence information of this region to design primers for future studies. Regardless, the close markers obtained in the present study will lay a solid foundation for cloning the yellow seed gene using a map-based cloning strategy.

FAE1 Sequence Characteristics and Its Relationship with Erucic Acid Content in Brassica juncea

2010 ◽  
Vol 36 (5) ◽  
pp. 794-800 ◽  
Author(s):  
Ai-Xia XU ◽  
Zhen HUANG ◽  
Chao-Zhi MA ◽  
En-Shi XIAO ◽  
Xiu-Sen ZHANG ◽  
...  
Keyword(s):  
Erucic Acid ◽  
Brassica Juncea ◽  
Acid Content ◽  
Erucic Acid Content ◽  
Sequence Characteristics

scholarly journals Mapping and identification of yellow seed coat color genes in Brassica juncea L.

2020 ◽  
Author(s):  
Zhen Huang ◽  
Yang Wang ◽  
Hong Lu ◽  
Xiang Liu ◽  
Lu Liu ◽  
...  
Keyword(s):  
Candidate Gene ◽  
Brassica Juncea ◽  
Seed Coat ◽  
Coat Color ◽  
Seed Color ◽  
Seed Coat Color ◽  
Flavonoid Pathway ◽  
Yellow Seed ◽  
Color Formation ◽  
Yellow Seed Coat

Abstract BackgroundYellow seed breeding is an effective method to improve the oil content in rapeseed. Yellow seed coat color formation is influenced by various factors, and no clear mechanisms are known. In this study, Bulked segregant RNA-Seq (BSR-Seq) of BC9 population of Wuqi mustard (yellow seed) and Wugong mustard (brown seed) was used to identity the candidate genes controlling the yellow seed color in Brassica juncea L.ResultsYellow seed coat color gene was mapped to chromosome A09, and differentially expressed genes (DEGs) between brown and yellow bulks enriched in the flavonoid pathway. A significant correlation between the expression of BjF3H and BjTT5 and the content of the seed coat color related indexes was identified. Two intron polymorphism (IP) markers linked to the target gene were developed around BjF3H. Therefore, BjF3H was considered as the candidate gene. The BjF3H coding sequences (CDS) of Wuqi mustard and Wugong mustard are 1071-1077bp, encoding protein of 356-358 amino acids. One amino acid change (254, F/V) was identified in the conserved domain. This mutation site was detected in four Brassica rapa (B. rapa) and six Brassica juncea (B. juncea) lines, but not in Brassica napus (B. napus).ConclusionsThe results indicated BjF3H is a candidate gene that related to yellow seed coat color formation in Brassica juncea and provided a comprehensive understanding of the yellow seed coat color mechanism.

Promoter polymorphism in FAE1.1 and FAE1.2 genes associated with erucic acid content in Brassica juncea

2019 ◽  
Vol 39 (5) ◽  
Author(s):  
Navinder Saini ◽  
Yashpal ◽  
Murali Krishna Koramutla ◽  
Naveen Singh ◽  
Satbeer Singh ◽  
...  
Keyword(s):  
Erucic Acid ◽  
Brassica Juncea ◽  
Acid Content ◽  
Promoter Polymorphism ◽  
Erucic Acid Content

scholarly journals Cross-transferability-based identification and validation of simple sequence repeat (SSR) markers in oaks of western Himalayas

2021 ◽  
Vol 70 (1) ◽  
pp. 108-116
Author(s):  
Chander Shekhar ◽  
Anita Rawat ◽  
Maneesh S. Bhandari ◽  
Santan Barthwal ◽  
Harish S. Ginwal ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Gene Diversity ◽  
Cost Effective ◽  
Sequence Information ◽  
Western Himalayas ◽  
Population Genetic Analysis ◽  
Expected Heterozygosity ◽  
Cost Effective Method ◽  
Quercus Semecarpifolia ◽  
Simple Sequence

Abstract Cross-amplification is a cost-effective method to extend the applicability of SSR markers to closely related taxa which lack their own sequence information. In the present study, 35 SSR markers developed in four oak species of Europe, North America and Asia were selected and screened in five species of the western Himalayas. Fifteen markers were successfully amplified in Quercus semecarpifolia, followed by 11 each in Q. floribunda and Q. leucotrichophora, 10 in Q. glauca, and 9 in Q. lana-ta. Except two primer pairs in Q. semecarpifolia, all were found to be polymorphic. Most of the positively cross-amplified SSRs were derived from the Asian oak, Q. mongolica. The genoty-ping of 10 individuals of each species with positively cross-amplified SSRs displayed varied levels of polymorphism in the five target oak species, viz., QmC00419 was most polymorphic in Q. floribunda, QmC00716 in Q. glauca and Q. lanata, QmC01368 in Q. leucotrichophora, and QmC02269 in Q. semecarpifolia. Among five oak species, the highest gene diversity was depicted in Q. lanata and Q. semecarpifolia with expected heterozygosity (He = 0.72), while the minimum was recorded for Q. leucotrichophora and Q. glauca (He = 0.65). The SSRs validated here provide a valuable resource to carry out further population genetic analysis in oaks of the western Himalayas.

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