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Quantitative Trait Locus Analysis of Seed Germination and Seedling Vigor in Brassica rapa Reveals QTL Hotspots and Epistatic Interactions.

Basnet RK, Duwal A, Tiwari DN, Xiao D, Monakhos S, Bucher J, Visser RG, Groot SP, Bonnema G, Maliepaard C - Front Plant Sci (2015)

Bottom Line: The genetic basis of seed germination and seedling vigor is largely unknown in Brassica species.We identified 26 QTL regions across all 10 linkage groups for traits related to seed weight, seed germination and seedling vigor under non-stress and salt stress conditions illustrating the polygenic nature of these traits.These results contribute to the understanding of the genetics of seed quality and seeding vigor in B. rapa and can offer tools for Brassica breeding.

View Article: PubMed Central - PubMed

Affiliation: Wageningen UR Plant Breeding, Wageningen University and Research Center, Wageningen University Wageningen, Netherlands ; Centre for BioSystems Genomics Wageningen, Netherlands.

ABSTRACT
The genetic basis of seed germination and seedling vigor is largely unknown in Brassica species. We performed a study to evaluate the genetic basis of these important traits in a B. rapa doubled haploid population from a cross of a yellow-seeded oil-type yellow sarson and a black-seeded vegetable-type pak choi. We identified 26 QTL regions across all 10 linkage groups for traits related to seed weight, seed germination and seedling vigor under non-stress and salt stress conditions illustrating the polygenic nature of these traits. QTLs for multiple traits co-localized and we identified eight hotspots for quantitative trait loci (QTL) of seed weight, seed germination, and root and shoot lengths. A QTL hotspot for seed germination on A02 mapped at the B. rapa Flowering Locus C (BrFLC2). Another hotspot on A05 with salt stress specific QTLs co-located with the B. rapa Fatty acid desaturase 2 (BrFAD2) locus. Epistatic interactions were observed between QTL hotspots for seed germination on A02 and A10 and with a salt tolerance QTL on A05. These results contribute to the understanding of the genetics of seed quality and seeding vigor in B. rapa and can offer tools for Brassica breeding.

No MeSH data available.


Related in: MedlinePlus

Epistatic interactions of QTL regions for seed germination and seedling vigor traits. QTLs identified for different traits were tested in a pair of two QTLs for each trait. Identical numbers within a trait-row indicate a pair of QTLs with significant epistatic interaction (α = 0.05) for that particular trait. The color intensity increases with higher explained variance (%) of the interaction.
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Figure 3: Epistatic interactions of QTL regions for seed germination and seedling vigor traits. QTLs identified for different traits were tested in a pair of two QTLs for each trait. Identical numbers within a trait-row indicate a pair of QTLs with significant epistatic interaction (α = 0.05) for that particular trait. The color intensity increases with higher explained variance (%) of the interaction.

Mentions: Among the 64 trait combinations (germination and seedling vigor measured under two treatments from seeds harvested in 2 years), epistatic interactions were observed for 16 traits: 9 for germination and 7 for seedling vigor traits. Most had only a single epistatic interaction, with an explained variance between 5 and 10%; however, four traits had 2 or 3 epistatic interactions (Figure 3). For T50 (50 mM salt, 2011) there were two epistatic interactions between Co-QTL2-2 and Co-QTL5-1, and between Co-QTL2-2 and Co-QTL5-2 with 10.54 and 17.58% explained variation, respectively. QTL hotspots Co-QTL10-1, Co-QTL2-2 and Co-QTL6-2 were the regions that had the largest number of QTL by QTL interactions, with 8, 6, and 5 other regions, respectively (Figure 3).


Quantitative Trait Locus Analysis of Seed Germination and Seedling Vigor in Brassica rapa Reveals QTL Hotspots and Epistatic Interactions.

Basnet RK, Duwal A, Tiwari DN, Xiao D, Monakhos S, Bucher J, Visser RG, Groot SP, Bonnema G, Maliepaard C - Front Plant Sci (2015)

Epistatic interactions of QTL regions for seed germination and seedling vigor traits. QTLs identified for different traits were tested in a pair of two QTLs for each trait. Identical numbers within a trait-row indicate a pair of QTLs with significant epistatic interaction (α = 0.05) for that particular trait. The color intensity increases with higher explained variance (%) of the interaction.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4664704&req=5

Figure 3: Epistatic interactions of QTL regions for seed germination and seedling vigor traits. QTLs identified for different traits were tested in a pair of two QTLs for each trait. Identical numbers within a trait-row indicate a pair of QTLs with significant epistatic interaction (α = 0.05) for that particular trait. The color intensity increases with higher explained variance (%) of the interaction.
Mentions: Among the 64 trait combinations (germination and seedling vigor measured under two treatments from seeds harvested in 2 years), epistatic interactions were observed for 16 traits: 9 for germination and 7 for seedling vigor traits. Most had only a single epistatic interaction, with an explained variance between 5 and 10%; however, four traits had 2 or 3 epistatic interactions (Figure 3). For T50 (50 mM salt, 2011) there were two epistatic interactions between Co-QTL2-2 and Co-QTL5-1, and between Co-QTL2-2 and Co-QTL5-2 with 10.54 and 17.58% explained variation, respectively. QTL hotspots Co-QTL10-1, Co-QTL2-2 and Co-QTL6-2 were the regions that had the largest number of QTL by QTL interactions, with 8, 6, and 5 other regions, respectively (Figure 3).

Bottom Line: The genetic basis of seed germination and seedling vigor is largely unknown in Brassica species.We identified 26 QTL regions across all 10 linkage groups for traits related to seed weight, seed germination and seedling vigor under non-stress and salt stress conditions illustrating the polygenic nature of these traits.These results contribute to the understanding of the genetics of seed quality and seeding vigor in B. rapa and can offer tools for Brassica breeding.

View Article: PubMed Central - PubMed

Affiliation: Wageningen UR Plant Breeding, Wageningen University and Research Center, Wageningen University Wageningen, Netherlands ; Centre for BioSystems Genomics Wageningen, Netherlands.

ABSTRACT
The genetic basis of seed germination and seedling vigor is largely unknown in Brassica species. We performed a study to evaluate the genetic basis of these important traits in a B. rapa doubled haploid population from a cross of a yellow-seeded oil-type yellow sarson and a black-seeded vegetable-type pak choi. We identified 26 QTL regions across all 10 linkage groups for traits related to seed weight, seed germination and seedling vigor under non-stress and salt stress conditions illustrating the polygenic nature of these traits. QTLs for multiple traits co-localized and we identified eight hotspots for quantitative trait loci (QTL) of seed weight, seed germination, and root and shoot lengths. A QTL hotspot for seed germination on A02 mapped at the B. rapa Flowering Locus C (BrFLC2). Another hotspot on A05 with salt stress specific QTLs co-located with the B. rapa Fatty acid desaturase 2 (BrFAD2) locus. Epistatic interactions were observed between QTL hotspots for seed germination on A02 and A10 and with a salt tolerance QTL on A05. These results contribute to the understanding of the genetics of seed quality and seeding vigor in B. rapa and can offer tools for Brassica breeding.

No MeSH data available.


Related in: MedlinePlus