Quantitative Trait Loci Mapping in Brassica rapa Revealed the Structural and Functional Conservation of Genetic Loci Governing Morphological and Yield Component Traits in the A, B, and C Subgenomes of Brassica Species

Li, Xiaonan; Ramchiary, Nirala; Dhandapani, Vignesh; Choi, Su Ryun; Hur, Yoonkang; Nou, Ill–Sup; Yoon, Moo Kyoung; Lim, Yong Pyo

doi:10.1093/dnares/dss029

Cited by 55 publications

(40 citation statements)

References 35 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In addition, the two parental species have diverged more recently compared to other polyploid species such as cotton [14, 50]. Li et al [51] recently identified QTL for morphological and yield component traits in duplicated regions within the A genome of B. rapa and in homoeologous regions between the A, B, and C genomes of B. rapa , B. juncea and B. napus , which supports the strong level of conservation between Brassica genomes.…”

Section: Discussionmentioning

confidence: 91%

Homoeologous duplicated regions are involved in quantitative resistance of Brassica napus to stem canker

et al. 2014

View full text Add to dashboard Cite

BackgroundSeveral major crop species are current or ancient polyploids. To better describe the genetic factors controlling traits of agronomic interest (QTL), it is necessary to understand the structural and functional organisation of these QTL regions in relation to genome duplication. We investigated quantitative resistance to the fungal disease stem canker in Brassica napus, a highly duplicated amphidiploid species, to assess the proportion of resistance QTL located at duplicated positions.ResultsGenome-wide association analysis on a panel of 116 oilseed rape varieties genotyped with 3228 SNP indicated that 321 markers, corresponding to 64 genomic regions, are associated with resistance to stem canker. These genomic regions are relatively equally distributed on the A (53%) and C (47%) genomes of B. napus. Overall, 44% of these regions (28/64) are duplicated homoeologous regions. They are located in duplications of six (E, J, R, T, U and W) of the 24 ancestral blocks that constitute the B. napus genome. Overall, these six ancestral blocks have 34 duplicated copies in the B.napus genome. Almost all of the duplicated copies (82% of the 34 regions) harboured resistance associated markers for stem canker resistance, which suggests structural and functional conservation of genetic factors involved in this trait in B. napus.ConclusionsOur study provides information on the involvement of duplicated loci in the control of stem canker resistance in B. napus. Further investigation of the similarity/divergence in sequence and gene content of these duplicated regions will provide insight into the conservation and allelic diversity of the underlying genes.Electronic supplementary materialThe online version of this article (doi:10.1186/1471-2164-15-498) contains supplementary material, which is available to authorized users.

show abstract

Section: Discussionmentioning

confidence: 91%

Homoeologous duplicated regions are involved in quantitative resistance of Brassica napus to stem canker

et al. 2014

View full text Add to dashboard Cite

show abstract

“…Brassica rapa (2n =20, AA) is a diploid crop in this family, which is currently widely cultivated in China, Japan, Korea, India, Canada, and Europe to produce vegetable, oilseed and fodder (Hirai and Matsumoto 2007;Li et al 2013). Since Ogura (1968) first reported the CMS line of radish, a number of F1 hybrid cultivars have been developed using the Ogura CMS system in many economically important Brassica family crops.…”

Section: Introductionmentioning

confidence: 99%

Mitochondrial-targeted Expression of orf456 Causes Male Sterility in Chinese Cabbage (Brassica rapa L.)

Liu¹,

Jo²,

Kang³

et al. 2013

Plant Breed. Biotech.

View full text Add to dashboard Cite

This is an Open-Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. ABSTRACT Cytoplasmic male sterility (CMS) is a phenomenon specific to plant reproduction that has been extensively exploited for hybrid seed production. Orf456 was previously identified as a candidate gene mediating male sterility in pepper. To gain further insight of this candidate gene, we carried out experiments to transform Chinese cabbage (Brassica rapa L.). About 30 T1 transgenic lines were obtained and approximately 50 % of T1 transgenic Chinese cabbage lines showed male-sterility. To evaluate pollen viability, three different approaches including plasmolysis test, staining pollen and in vitro germination assay were used. Analysis of the CMS transgenic lines showed that trasgenic Chinese cabbages produced aberrant pollen development while some were unable to produce pollen. In conclusion, the mitochondrial orf456 gene could induce partial male sterility in transgenic Chinese cabbage. Nevertheless, how the orf456 gene precisely functions to induce male sterility and its biochemical function remains to be discovered.

show abstract

“…To analyze nucleotide polymorphisms in CCA1 associated with variation in flowering, two inbred lines of B. rapa ssp. pekinensis with different flowering phenotypes, Chiifu and Kenshin (Li et al 2013), and an RCBr (IBM-218-DH1) were selecte`d as reference lines. In addition, leaf samples for inbred lines of B. rapa were obtained from three different Korean seed companies: Hankook Seed Co. (indicated by CI or HS in line names), Nonghyup Seed Co. (indicated by BN or NS in line names) and Woori Seed Co.…”

Section: Plant Materialsmentioning

confidence: 99%

Natural variation in CIRCADIAN CLOCK ASSOCIATED 1 is associated with flowering time in Brassica rapa

Lee

et al. 2017

Genome

View full text Add to dashboard Cite

Flowering time is a very important agronomic trait and the development of molecular markers associated with this trait can facilitate crop breeding. CIRCADIAN CLOCK ASSOCIATED 1 (CCA1), a core oscillator component of circadian rhythms that affect metabolic pathways in plants, has been implicated in flowering time control in species of Brassica. CCA1 gene sequences from three Brassica rapa inbred lines, showing either early flowering or late flowering phenotypes, were analyzed and a high level of sequence variation was identified, especially within the fourth intron. Using this information, three PCR primer sets were designed and tested using various inbred lines of B. rapa. The usage of InDel markers was further validated by evaluation of flowering time and high resolution melting (HRM) analysis. Both methods, PCR and HRM, validated the use of newly developed markers. Additional sequence analyses of Brassica plants with diploid (AA, BB, or CC) and allotetraploid genomes further confirmed a large number of sequence polymorphisms in the CCA1 gene, including insertions/deletions in the fourth intron. Our results demonstrated that sequence variations in CCA1 can be used to develop valuable trait-related molecular markers for Brassica crop breeding.

show abstract

Quantitative Trait Loci Mapping in Brassica rapa Revealed the Structural and Functional Conservation of Genetic Loci Governing Morphological and Yield Component Traits in the A, B, and C Subgenomes of Brassica Species

Cited by 55 publications

References 35 publications

Homoeologous duplicated regions are involved in quantitative resistance of Brassica napus to stem canker

Homoeologous duplicated regions are involved in quantitative resistance of Brassica napus to stem canker

Mitochondrial-targeted Expression of orf456 Causes Male Sterility in Chinese Cabbage (Brassica rapa L.)

Natural variation in CIRCADIAN CLOCK ASSOCIATED 1 is associated with flowering time in Brassica rapa

Contact Info

Product

Resources

About