Sequencing and Analysis of Complete Chloroplast Genomes Provide Insight into the Evolution and Phylogeny of Chinese Kale (Brassica oleracea var. alboglabra)

被引:5
|
作者
Wang, Yilin [1 ]
Liang, Qiannan [1 ]
Zhang, Chenlu [1 ]
Huang, Huanhuan [1 ]
He, Hao [1 ]
Wang, Mengyu [2 ]
Li, Mengyao [1 ]
Huang, Zhi [1 ]
Tang, Yi [1 ]
Chen, Qing [1 ]
Miao, Huiying [2 ]
Li, Huanxiu [1 ]
Zhang, Fen [1 ]
Wang, Qiaomei [2 ]
Sun, Bo [1 ]
机构
[1] Sichuan Agr Univ, Coll Hort, Chengdu 611130, Peoples R China
[2] Zhejiang Univ, Dept Hort, Hangzhou 310058, Peoples R China
基金
中国国家自然科学基金;
关键词
chloroplast genomes; genome assembly and annotation; microsatellites; inverted repeat; genome comparison; phylogeny; ALGORITHM; TOOLS;
D O I
10.3390/ijms241210287
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Chinese kale is a widely cultivated plant in the genus Brassica in the family Brassicaceae. The origin of Brassica has been studied extensively, but the origin of Chinese kale remains unclear. In contrast to Brassica oleracea, which originated in the Mediterranean region, Chinese kale originated in southern China. The chloroplast genome is often used for phylogenetic analysis because of its high conservatism. Fifteen pairs of universal primers were used to amplify the chloroplast genomes of white-flower Chinese kale (Brassica oleracea var. alboglabra cv. Sijicutiao (SJCT)) and yellow-flower Chinese kale (Brassica oleracea var. alboglabra cv. Fuzhouhuanghua (FZHH)) via PCR. The lengths of the chloroplast genomes were 153,365 bp (SJCT) and 153,420 bp (FZHH) and both contained 87 protein-coding genes and eight rRNA genes. There were 36 tRNA genes in SJCT and 35 tRNA genes in FZHH. The chloroplast genomes of both Chinese kale varieties, along with eight other Brassicaceae, were analyzed. Simple sequence repeats, long repeats, and variable regions of DNA barcodes were identified. An analysis of inverted repeat boundaries, relative synonymous codon usage, and synteny revealed high similarity among the ten species, albeit the slight differences that were observed. The Ka/Ks ratios and phylogenetic analysis suggest that Chinese kale is a variant of B. oleracea. The phylogenetic tree shows that both Chinese kale varieties and B. oleracea var. oleracea were clustered in a single group. The results of this study suggest that white and yellow flower Chinese kale comprise a monophyletic group and that their differences in flower color arose late in the process of artificial cultivation. Our results also provide data that will aid future research on genetics, evolution, and germplasm resources of Brassicaceae.
引用
收藏
页数:13
相关论文
共 50 条
  • [1] Seed production of Chinese kale (Brassica oleracea L. var. alboglabra LH Bailey)
    Okuda, N
    Fujime, Y
    [J]. THIRD INTERNATIONAL SYMPOSIUM ON DIVERSIFICATION OF VEGETABLE CROPS, 1998, (467): : 317 - 323
  • [2] Molecular Cloning and Expression Analysis of the ζ-Carotene Desaturase Gene in Chinese kale (Brassica oleracea var. alboglabra Bailey)
    Sun Bo
    Zhang Fen
    Xue Shengling
    Chang Jiaqi
    Zheng Aihong
    Jiang Min
    Miao Huiying
    Wang Qiaomei
    Tang Haoru
    [J]. HORTICULTURAL PLANT JOURNAL, 2018, 4 (03) : 94 - 102
  • [3] Plant growth characters of Chinese kale (Brassica oleracea L var alboglabra)
    Okuda, N
    Fujime, Y
    [J]. INTERNATIONAL SYMPOSIUM ON BRASSICAS: NINTH CRUCIFER GENETICS WORKSHOP, 1996, (407): : 55 - 59
  • [4] Transcriptomic analysis of succulent stem development of Chinese kale (Brassica oleracea var. alboglabra Bailey) and its synthetic allotetraploid via RNA sequencing
    Zheng, Wen
    Shi, Jiang
    Zhu, Zhi-Yu
    Jin, Ping
    Chen, Jia-Hong
    Zhang, Liang
    Zhang, E.
    Lin, Tao
    Zhu, Zhu-Jun
    Zang, Yun-Xiang
    Wu, Jian-Guo
    [J]. FRONTIERS IN PLANT SCIENCE, 2022, 13
  • [5] Identification and Genome-Wide Gene Expression Perturbation of a Trisomy in Chinese Kale (Brassica oleracea var. alboglabra)
    Feng, Qun
    Yu, Junxing
    Yu, Jie
    Hu, Mingyang
    Gu, Lei
    Wang, Hongcheng
    Du, Xuye
    Zhu, Bin
    Cai, Mengxian
    [J]. PLANTS-BASEL, 2023, 12 (18):
  • [6] Rapid identification of the purple stem (Ps) gene of Chinese kale (Brassica oleracea var. alboglabra) in a segregation distortion population by bulked segregant analysis and RNA sequencing
    Qiwei Tang
    Mengyu Tian
    Guanghui An
    Weiyi Zhang
    Jiongjiong Chen
    Chenghuan Yan
    [J]. Molecular Breeding, 2017, 37
  • [7] Rapid identification of the purple stem (Ps) gene of Chinese kale (Brassica oleracea var. alboglabra) in a segregation distortion population by bulked segregant analysis and RNA sequencing
    Tang, Qiwei
    Tian, Mengyu
    An, Guanghui
    Zhang, Weiyi
    Chen, Jiongjiong
    Yan, Chenghuan
    [J]. MOLECULAR BREEDING, 2017, 37 (12)
  • [8] Effect of UV-C Irradiation on Chlorophyll Degradation and Quality Changes in Chinese Kale (Brassica oleracea var. alboglabra)
    Burana, C.
    Srilaong, V.
    [J]. SOUTHEAST ASIA SYMPOSIUM ON QUALITY AND SAFETY OF FRESH AND FRESH-CUT PRODUCE, 2010, 875 : 119 - 125
  • [9] Production of allohexaploid Brassica hybrid between tuber mustard (Brassica juncea L. var. crassicaulis Chen &Yang) and Chinese kale (Brassica oleracea var. alboglabra Bailey)
    Chen, Fangfang
    Zhu, Zhiyu
    Tong, Lu
    Guo, Xiaocan
    Xu, Shenglong
    Chen, Jiahong
    Wu, Jianguo
    Zhu, Zhujun
    [J]. SCIENTIA HORTICULTURAE, 2020, 270
  • [10] Genetic analysis of a cross of gaillon (Brassica oleracea var. alboglabra) with cauliflower (B.oleracea var. botrytis)
    Spini, VBMG
    Kerr, WE
    [J]. GENETICS AND MOLECULAR BIOLOGY, 2000, 23 (01) : 221 - 222