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64. Genetic and multi-omics analyses reveal BnaA07.PAP2 In-184-317 as the key gene conferring anthocyanin-based color in Brassica napus flowers

Author

Ye, Shenhua, primary, Hua, Shuijin, additional, Ma, Tiantian, additional, Ma, Xiaowei, additional, Chen, Yanping, additional, Wu, Lumei, additional, Zhao, Lun, additional, Yi, Bin, additional, Ma, Chaozhi, additional, Tu, Jinxing, additional, Shen, Jinxiong, additional, Fu, Tingdong, additional, and Wen, Jing, additional

Published
2022
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73. Genome-Wide Association Studies of Salt-Alkali Tolerance at Seedling and Mature Stages in Brassica napus

Author

Zhang, Guofang, primary, Peng, Yan, additional, Zhou, Jinzhi, additional, Tan, Zengdong, additional, Jin, Cheng, additional, Fang, Shuai, additional, Zhong, Shengzhu, additional, Jin, Cunwang, additional, Wang, Ruizhen, additional, Wen, Xiaoliang, additional, Li, Binrui, additional, Lu, Shaoping, additional, Zhou, Guangsheng, additional, Fu, Tingdong, additional, Guo, Liang, additional, and Yao, Xuan, additional

Published
2022
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76. Additional file 1 of Comparative transcriptomic analysis reveals the molecular mechanism underlying seedling biomass heterosis in Brassica napus

Author

Xiong, Jie, Hu, Kaining, Shalby, Nesma, Zhuo, Chenjian, Wen, Jing, Yi, Bin, Shen, Jinxiong, Ma, Chaozhi, Fu, Tingdong, and Tu, Jinxing

Abstract

Additional file 1: Figure S1. Photos showing the seedling phenotypes of the parents and hybrids in the T1 and T2 periods.T1: 21DAS; T2: 24 DAS; Male parent: A, C, H; Female parent: M, W; Hybrid F1:AM, CM, HM, HW. Figure S2. Pearson correlation heat map between all RNA sequencing samples. The red color indicates a higher correlation between samples. -1, -2, and -3 represent three biological replicates at each time point. T1: 21 DAS; T2: 24DAS; -l: leaf. Figure S3. Number of the expression level of dominant(ELD) genes in hybrid canola seedlings in each of the 12 DEG types in the T1 and T2 periods. Genes with an expression degree in the F1 hybrids analogous to that of the female parent are defined as ELD-F; genes with an expression degree in the F1 hybrids analogous to that of the male parent are defined as ELD-M. T1: 21 DAS;T2: 24 DAS. Figure S4. Venn diagram analysis of the significant molecular function (MF) and cellular composition (CC) of the parental-ELD gene at 21 DAS. A and B display Venn diagrams of MF and CC, respectively. MF: molecular function; CC: cell component Figure S5. Venn diagram analysis of the significant molecular function (MF) andcellular composition (CC) of the parental-ELD gene at 24 DAS. A and B show Venn diagrams of MF and CC, respectively. MF: molecular function; CC: cell component. Figure S6. Remarkable biological processes of the parental-ELD gene at T1 and T2 in different hybrids.A and B exhibit Venn diagrams of the parental-ELD with significantly enriched BP in theT1 and T2 periods, respectively. C and D show heat maps of the BP terms where the parental-ELD gene is significantly enriched in different hybrids at 21 DAS and 24 DAS, respectively. T1: 21 DAS; T2: 24 DAS. Figure S7. Analysis of differentially expressed genes between strong and weak hybrids at 24 DAS.A Venn diagram of the number of unique and shared DEGs between the two groups of strong and weak hybrids at 24 DAS. B GO terms with significant enrichment of DEGs shared between the two strong and weak hybrids at 24 DAS. C The significantly enriched KEGG terms of DEGs shared between the two strong and weak hybrids at 24 DAS. Figure S8. Heat map of genes that promoted cell size in F1 hybrids relative to their parents at 24 DAS. T2: 24 DAS. Figure S9. Phenotypic changes of the leaf area of the third true leaf of all hybrids relative to their parents at 24 DAS. The third true leaf area A, leaf length B, and leaf width C of all F1 hybrids and their MPV at 24 DAS. D,The histogram shows the percentage of the contribution of leaf length and leaf width to the third true leaf area in four hybrids at 24 DAS. The data are expressed as mean ± SD, derived from the results of three biological replicates. AM, CM, HM, and HW are F1 hybrids; MPV: mid-parent value; *P

Published
2022
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78. Combined BSA-Seq Based Mapping and RNA-Seq Profiling Reveal Candidate Genes Associated with Plant Architecture in Brassica napus

Author

Ye, Shenhua, primary, Yan, Lei, additional, Ma, Xiaowei, additional, Chen, Yanping, additional, Wu, Lumei, additional, Ma, Tiantian, additional, Zhao, Lun, additional, Yi, Bin, additional, Ma, Chaozhi, additional, Tu, Jinxing, additional, Shen, Jinxiong, additional, Fu, Tingdong, additional, and Wen, Jing, additional

Published
2022
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80. Combined Transcriptomics and Metabolomics Analysis Reveals the Molecular Mechanism of Salt Tolerance of Huayouza 62, an Elite Cultivar in Rapeseed (Brassica napus L.)

Author

Wan, Heping, primary, Qian, Jiali, additional, Zhang, Hao, additional, Lu, Hongchen, additional, Li, Ouqi, additional, Li, Rihui, additional, Yu, Yi, additional, Wen, Jing, additional, Zhao, Lun, additional, Yi, Bin, additional, Fu, Tingdong, additional, and Shen, Jinxiong, additional

Published
2022
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81. Genetic and Molecular Characterization of a Self-Compatible Brassica rapa Line Possessing a New Class II S Haplotype

Author

Li, Bing, primary, Zhang, Xueli, additional, Liu, Zhiquan, additional, Wang, Lulin, additional, Song, Liping, additional, Liang, Xiaomei, additional, Dou, Shengwei, additional, Tu, Jinxing, additional, Shen, Jinxiong, additional, Yi, Bin, additional, Wen, Jing, additional, Fu, Tingdong, additional, Dai, Cheng, additional, Gao, Changbin, additional, Wang, Aihua, additional, and Ma, Chaozhi, additional

Published
2021
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90. Genetic and multi-omics analyses reveal BnaA07.PAP2In-184-317 as the key gene conferring anthocyanin-based color in Brassica napus flowers.

Author

Ye, Shenhua, Hua, Shuijin, Ma, Tiantian, Ma, Xiaowei, Chen, Yanping, Wu, Lumei, Zhao, Lun, Yi, Bin, Ma, Chaozhi, Tu, Jinxing, Shen, Jinxiong, Fu, Tingdong, and Wen, Jing

Subjects
ANTHOCYANINS, RAPESEED, PINK, REGULATOR genes, FLOWERS, MOLECULAR cloning
Abstract

The molecular mechanisms underlying anthocyanin-based flower coloration remain unknown in Brassica napus. To identify the key genes and metabolites associated with apricot and pink flower colors, metabolome, BSA-seq, and RNA-seq analyses were conducted on apricot-, pink-, yellow-, and white-flowered F2 B. napus. Yellow carotenoids and red anthocyanins were abundant in apricot petals, while colorless carotenoids and red anthocyanins accumulated in pink petals. Most carotenoid genes were not differentially regulated between apricot and yellow or between pink and white petals. Three regulator genes, BnaMYBL2 , BnaA07.PAP2 , and BnaTT8 , and structural genes in anthocyanin biosynthesis were dramatically enhanced in apricot and pink petals in comparison with yellow and white petals. Map-based cloning revealed that BnaA07.PAP2 is responsible for anthocyanin-based flower color and encodes a nucleus-localized protein predominantly expressed in apricot and pink flowers. Two insertions in the promoter region are responsible for the transcriptional activation of BnaA07.PAP2 in flowers. Introducing the BnaA07.PAP2 In-184-317 allele broadly activated the expression of anthocyanin-related genes and promoted anthocyanin accumulation in flowers, yielding color change from yellow to apricot. These findings illustrate the genetic basis of anthocyanin-based flower coloration and provide a valuable genetic resource for breeding varieties with novel flower colors in B. napus. [ABSTRACT FROM AUTHOR]

Published
2022
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91. BnaCRCs with domestication preference positively correlate with the seed‐setting rate of canola.

Author

Qin, Pei, Gao, Jinxiang, Shen, Wenhao, Wu, Zengxiang, Dai, Cheng, Wen, Jing, Yi, Bin, Ma, Chaozhi, Shen, Jinxiong, Fu, Tingdong, and Tu, Jinxing

Subjects
CANOLA, RECESSIVE genes, SCANNING transmission electron microscopy, RAPESEED, MOLECULAR cloning, OILSEED plants, CARPEL
Abstract

SUMMARY: Canola (Brassica napus) is an important oil crop worldwide. The seed‐setting rate (SS) is a critical factor in determining its yield, and the development of pistils affects pollination and seed sets. However, research on seed‐setting defects has been limited owing to difficulties in the identification of phenotypes, mutations, and complex genetic mechanisms. In this study, we found a stigma defect (sd) mutant in B. napus, which had no nectary. The SS of sd mutants in the field was approximately 93.4% lower than that of the wild type. Scanning and transmission electron microscopy imaging of sd mutants showed a low density of stigma papillary cells and stigma papillary cell vacuoles that disappeared 16 h after flowering. Genetic analysis of segregated populations showed that two recessive nuclear genes are responsible for the mutant phenotype of sd. Based on re‐sequencing and map‐based cloning, we reduced the candidate sites on ChrA07 (BnaSSA07) and ChrC06 (BnaSSC06) to 30 and 67 kb, including six and eight predicted genes, respectively. Gene analyses showed that a pair of CRABS CLAW (CRC) homeologous genes at BnaSSA07 and BnaSSC06 were associated with the development of carpel and nectary. BnaSSA07.CRC and BnaSSC06.CRC candidate genes were found to be expressed in flower organs only, with significant differences in their expression in the pistils of the near‐isogenic lines. DNA sequencing showed transposon insertions in the upstream region and intron of the candidate gene BnaSSA07.crc. We also found that BnaSSC06.crc exists widely in the natural population and we give possible reasons for its widespread existence. Significance Statement: The BnaCRCs of domesticated preference are located at A07 and C06 within 30‐ and 67‐kb regions, respectively, as determined by re‐sequencing and map‐based cloning. They were positively correlated with the Brassica napus seed‐setting rate. [ABSTRACT FROM AUTHOR]

Published
2022
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96. The Bnapus50K array: a quick and versatile genotyping tool for Brassica napus genomic breeding and research

Author

Xiao, Qing, primary, Wang, Huadong, additional, Song, Nuan, additional, Yu, Zewen, additional, Imran, Khan, additional, Xie, Weibo, additional, Qiu, Shuqing, additional, Zhou, Fasong, additional, Wen, Jing, additional, Dai, Cheng, additional, Ma, Chaozhi, additional, Tu, Jinxing, additional, Shen, Jinxiong, additional, Fu, Tingdong, additional, and Yi, Bin, additional

Published
2021
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