A High-Continuity Genome Assembly of Chinese Flowering Cabbage (Brassica rapa var. parachinensis) Provides New Insights into Brassica Genome Structure Evolution

Li, Guangguang; Jiang, Ding; Wang, Juntao; Liao, Yi; Zhang, Ting; Zhang, Hua; Dai, Xiuchun; Ren, Hailong; Chen, Changming; Zheng, Yong

doi:10.3390/plants12132498

Cited by 3 publications

(1 citation statement)

References 49 publications

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“…parachinensis (L.H. Bailey) Hanelt, locally known as caixin or choisum, is a widely cultivated vegetable in Asia (Li et al, 2023). Choisum was selected as the target plant based on its homogenous growth pattern, an abbreviated time period to reach maturity (30 d), and superior germination rate.…”

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confidence: 99%

Assessing the allelopathic effect of Chrysopogon zizanioides (L.) Roberty root methanolic extract on Brassica rapa subsp. chinensis var. parachinensis using an untargeted metabolomic approach

Sahrir,

Yusoff,

Azizan

et al. 2024

Chil. j. agric. res.

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Chrysopogon zizanioides (L.) Roberty, or vetiver grass, is a deep-rooted perennial grass. An examination of allelopathy using a metabolomic approach offers valuable insights into vetiver extract's mechanism of action and phytotoxicity. This study utilised an untargeted metabolomics approach through the use of choisum (Brassica rapa L. subsp. chinensis (L.) Hanelt var. parachinensis (L.H. Bailey) Hanelt) as target plant because it is easier to cultivate and susceptible to the extract. Vetiver root methanolic extracts at various concentrations (0, 0.1, 1, 10, 50, and 100 mg mL -1 ) were sprayed at 100 mL m -2 on choisum seedlings at the 2 to 3 leaves stage. After 21 d, the Soil Plant Analysis Development (SPAD) and chlorophyll content of exposed choisum were measured, and their metabolites were subjected to gas chromatography-mass spectrometer (GC-MS)-based metabolomics analysis. The result demonstrated that the 100 mg mL -1 methanolic extract significantly decreased SPAD reading by 57.29% and reduced chlorophyll content by 66.38% (chl a) and 73.49% (chl b) of choisum compared to the control. Furthermore, considerably reduced stomatal length of exposed choisum, up to 34.31%, was observed when exposed to maximum concentration (100 mg mL -1 ). In total, nine metabolites with variable importance in projection (VIP) > 1 and P < 0.05 were found and identified as amino acids and carbohydrates. The highest concentration of extract enriched pathways of propanoate, Se-compound, cysteine, and methionine metabolism in choisum, suggesting the extract induced plant stress. The findings confirm the allelopathic potential of vetiver root and provide insight into the response of choisum to the allelopathic activity of vetiver grass root methanolic extract.

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Section: Introductionmentioning

confidence: 99%

Assessing the allelopathic effect of Chrysopogon zizanioides (L.) Roberty root methanolic extract on Brassica rapa subsp. chinensis var. parachinensis using an untargeted metabolomic approach

Sahrir,

Yusoff,

Azizan

et al. 2024

Chil. j. agric. res.

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The Genome-Wide Identification of the R2R3-MYB Gene Family in Chinese Flowering Cabbage and the Characterization of Its Response to Pectobacterium carotovorum Infection

Lei,

Li,

Jiang

et al. 2024

Horticulturae

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Chinese flowering cabbage is an important bolting stem vegetable widely grown in southern China, but severe losses caused by soft rot disease are very common in this crop. The MYB transcription factor (TF) family is the largest TF family in plants and plays diverse roles in response to stresses. However, the responses of MYB TFs to biotic stress in Chinese flowering cabbage have not been systematically studied. Herein, 255 R2R3-MYB genes were identified in the genome of Chinese flowering cabbage and classified into 29 subgroups based on phylogenetic comparisons with Arabidopsis thaliana. Gene duplication events involved 182 gene duplication pairs, and we found that two tandem duplication events involving R2R3-MYB genes in Chinese flowering cabbage may also affect gene family expansion. Transcriptome data analysis indicated that MYB TF genes are highly enriched in differentially expressed gene (DEG) sets. Combined with phylogenetic and transcriptome analysis, we identified 12 R2R3-MYB genes that potentially play a role in the response to soft rot stress. Our research provides a foundation for further research on the response of R2R3-MYB genes to soft rot stress in Chinese flowering cabbage.

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Genome-Wide Investigation of the CRF Gene Family in Maize and Functional Analysis of ZmCRF9 in Response to Multiple Abiotic Stresses

Yan,

Hou,

Leng

et al. 2024

IJMS

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The cytokinin response factors (CRFs) are pivotal players in regulating plant growth, development, and responses to diverse stresses. Despite their significance, comprehensive information on CRF genes in the primary food crop, maize, remains scarce. In this study, a genome-wide analysis of CRF genes in maize was conducted, resulting in the identification of 12 members. Subsequently, we assessed the chromosomal locations, gene duplication events, evolutionary relationships, conserved motifs, and gene structures of all ZmCRF members. Analysis of ZmCRF promoter regions indicated the presence of cis-regulatory elements associated with plant growth regulation, hormone response, and various abiotic stress responses. The expression patterns of maize CRF genes, presented in heatmaps, exhibited distinctive patterns of tissue specificity and responsiveness to multiple abiotic stresses. qRT-PCR experiments were conducted on six selected genes and confirmed the involvement of ZmCRF genes in the plant’s adaptive responses to diverse environmental challenges. In addition, ZmCRF9 was demonstrated to positively regulate cold and salt tolerance. Ultimately, we explored the putative interaction partners of ZmCRF proteins. In summary, this systematic overview and deep investigation of ZmCRF9 provides a solid foundation for further exploration into how these genes contribute to the complex interplay of plant growth, development, and responses to stress.

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A High-Continuity Genome Assembly of Chinese Flowering Cabbage (Brassica rapa var. parachinensis) Provides New Insights into Brassica Genome Structure Evolution

Cited by 3 publications

References 49 publications

Assessing the allelopathic effect of Chrysopogon zizanioides (L.) Roberty root methanolic extract on Brassica rapa subsp. chinensis var. parachinensis using an untargeted metabolomic approach

Assessing the allelopathic effect of Chrysopogon zizanioides (L.) Roberty root methanolic extract on Brassica rapa subsp. chinensis var. parachinensis using an untargeted metabolomic approach

The Genome-Wide Identification of the R2R3-MYB Gene Family in Chinese Flowering Cabbage and the Characterization of Its Response to Pectobacterium carotovorum Infection

Genome-Wide Investigation of the CRF Gene Family in Maize and Functional Analysis of ZmCRF9 in Response to Multiple Abiotic Stresses

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