Fast tracking alien gene discovery by molecular markers in a late flowering Chinese cabbage-cabbage translocation line ‘AT7–4’

Li, Hui; Gu, Aiqin; Feng, Dingqing; Li, Na; Yang, Rui; Zhang, Xinpei; Luo, Sushan; Karamat, Umer; Wang, Qianyun; Xuan, Shuxin; Chen, Xueping; Lu, Yin; Wang, Yanhua; Shen, Shuxing; Jian-jun, Zhao

doi:10.1016/j.hpj.2021.11.009

Cited by 5 publications

(3 citation statements)

References 44 publications

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“…Alien chromosome additions have been used to link speciesspecific characteristics to particular chromosomes (Kapoor et al, 2011). The plasticity of the Brassica genome and existence of natural amphiploids have made it possible to develop several alien chromosome additions by dissecting the B. rapa, B. oleracea, and B. nigra genomes (Chevre et al, 1996;Gu et al, 2009;Li et al, 2013). Compared with the single species-specific SSR marker obtained by comparison between two species developed in previous studies (Gu et al, 2009;Li et al, 2013), the specific SSR developed in this study, BniSSR23228, has been verified among Brassica species in the triangle of U and their closely related species, radish and Arabidopsis.…”

Section: Bnissr23228 Is a B-genome Specific Ssr Markermentioning

confidence: 99%

“…The plasticity of the Brassica genome and existence of natural amphiploids have made it possible to develop several alien chromosome additions by dissecting the B. rapa, B. oleracea, and B. nigra genomes (Chevre et al, 1996;Gu et al, 2009;Li et al, 2013). Compared with the single species-specific SSR marker obtained by comparison between two species developed in previous studies (Gu et al, 2009;Li et al, 2013), the specific SSR developed in this study, BniSSR23228, has been verified among Brassica species in the triangle of U and their closely related species, radish and Arabidopsis. The results revealed that it is a B-genome specific SSR marker, therefore has more significant B-genome specificity and more extensive application value in the future.…”

Section: Bnissr23228 Is a B-genome Specific Ssr Markermentioning

confidence: 99%

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Development and utility of SSR markers based on Brassica sp. whole-genome in triangle of U

Sun,

Chen,

Wang

et al. 2024

Front. Plant Sci.

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IntroductionSimple sequence repeats (SSR), also known as microsatellites, are crucial molecular markers in both animals and plants. Despite extensive previous research on SSRs, the development of microsatellite markers in Brassica crops remains limited and inefficient.MethodsKrait software was used to identify microsatellites by genome-wide and marker development based on three recently sequenced basic species of Brassica crops in the triangle of U (Brassica rapa, B. nigra and B. oleracea), as well as three allotetraploids (B. juncea, B. napus and B. carinata) using public databases. Subsequently, the primers and the characteristics of microsatellites for most of them were accordingly designed on each chromosome of each of the six Brassica species, and their physical locations were identified,and the cross-transferability of primers have been carried out. In addition, a B-genome specific SSR marker was screened out.ResultsA total of 79341, 92089, 125443, 173964, 173604, and 222160 SSR loci have been identified from the whole genome sequences of Brassica crops within the triangle of U crops, B. rapa (AA), B. nigra (BB), B. oleracea (CC), B. napus (AACC), B. juncea (AABB) and B. carinata (BBCC), respectively. Comparing the number distribution of the three allotetraploid SSR loci in the three subgenomes AA, BB and CC, results indicate that the allotetraploid species have significant reduction in the number of SSR loci in the genome compared with their basic diploid counterparts. Moreover, we compared the basic species with their corresponding varieties, and found that the microsatellite characters between the allotetraploids and their corresponding basic species were very similar or almost identical. Subsequently, each of the 40 SSR primers was employed to investigate the polymorphism potential of B. rapa (85.27%), B. nigra (81.33%) and B. oleracea (73.45%), and B. rapa was found to have a higher cross-transfer rate among the basic species in the triangle of U. Meanwhile, a B-genome specific SSR marker, BniSSR23228 possessing the (AAGGA)3 sequence characteristics was obtained, and it located in chromosome B3 with a total length of 97 bp.DiscussionIn this study, results suggest that the pattern of distribution may be highly conserved during the differentiation of basic Brassica species and their allotetraploid counterparts. Our data indicated that the allotetraploidization process resulted in a significant reduction in SSR loci in the three subgenomes AA, BB and CC. The reasons may be partial gene dominated chromosomal homologous recombination and rearrangement during the evolution of basic diploid species into allotetraploids. This study provides a basis for future genomics and genetic research on the relatedness of Brassica species.

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Section: Bnissr23228 Is a B-genome Specific Ssr Markermentioning

confidence: 99%

Section: Bnissr23228 Is a B-genome Specific Ssr Markermentioning

confidence: 99%

Development and utility of SSR markers based on Brassica sp. whole-genome in triangle of U

Sun,

Chen,

Wang

et al. 2024

Front. Plant Sci.

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“…The fusion of genomics and breeding has accelerated the development of cultivars with enhanced traits ( Dou et al., 2022 ; Liu et al., 2022 ; Cai et al., 2023 ; Li et al., 2023 ). Utilizing trait-specific markers in conjunction with genomic background analysis has proven to be a potent breeding strategy for overcoming SI.…”

Section: Introductionmentioning

confidence: 99%

Development of self-compatible Chinese cabbage lines of Chiifu through marker-assisted selection

Chang,

Liang,

Cai

et al. 2024

Front. Plant Sci.

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The continuously refined genome assembly of the Chinese cabbage accession Chiifu is widely recognized as the reference for Brassica rapa. However, the high self-incompatibility of Chiifu limits its broader utilization. In this study, we report the development of self-compatible Chiifu lines through a meticulous marker-assisted selection (MAS) strategy, involving the substitution of the Chiifu allele of MLPK (M-locus protein kinase) with that from the self-compatible Yellow Sarson (YS). A YS-based marker (SC-MLPK) was employed to screen 841 B. rapa accessions, confirming that all eight accessions with the mlpk/mlpk (mm) genotype exhibited self-compatibility. Additionally, we designed 131 High-Resolution Melting (HRM) markers evenly distributed across the B. rapa genome as genomic background selection (GBS) markers to facilitate the introgression of self-compatibility from YS into Chiifu along with SC-MLPK. Genome background screening revealed that the BC3S1 population had a proportion of the recurrent parent genome (PR) ranging from 93.9% to 98.5%. From this population, we identified self-compatible individuals exhibiting a high number of pollen tubes penetrating stigmas (NPT) (>25) and a maximum compatibility index (CI) value of 7.5. Furthermore, we selected two individuals demonstrating significant similarity to Chiifu in both genetic background and morphological appearance, alongside self-compatibility. These selected individuals were self-pollinated to generate two novel lines designated as SC-Chiifu Lines. The development of these self-compatible Chiifu lines, together with the SC-MLPK marker and the set of HRM markers, represents valuable tools for B. rapa genetics and breeding.

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Molecular mechanism of flowering time regulation in Brassica rapa: similarities and differences with Arabidopsis

Li,

Yang,

Shen

et al. 2024

Horticultural Plant Journal

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Fast tracking alien gene discovery by molecular markers in a late flowering Chinese cabbage-cabbage translocation line ‘AT7–4’

Cited by 5 publications

References 44 publications

Development and utility of SSR markers based on Brassica sp. whole-genome in triangle of U

Development and utility of SSR markers based on Brassica sp. whole-genome in triangle of U

Development of self-compatible Chinese cabbage lines of Chiifu through marker-assisted selection

Molecular mechanism of flowering time regulation in Brassica rapa: similarities and differences with Arabidopsis

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