Complete Chloroplast Genome Sequence and Characteristics Analysis of Vitis ficifolia

doi:10.16420/j.issn.0513-353x.2018-0596

ACTA HORTICULTURAE SINICA ›› 2019, Vol. 46 ›› Issue (4): 635-648.doi: 10.16420/j.issn.0513-353x.2018-0596

• Research Papers • Previous Articles Next Articles

Complete Chloroplast Genome Sequence and Characteristics Analysis of Vitis ficifolia

YANG Yameng1，JIAO Jian2，FAN Xiucai1，ZHANG Ying1，JIANG Jianfu1，LI Min1，and LIU Chonghuai1,*

1Zhengzhou Fruit Research Institute，Chinese Academy of Agricultural Sciences，Zhengzhou 450009，China；2College of Horticulture，Henan Agricultural University，Zhengzhou 450002，China

Online:2019-04-25 Published:2019-04-25

Abstract

Abstract:

Vitis ficifolia is an important wild resource in China. In this study，the whole genome resequencing of V. ficifolia was completed using Illumina HiSeq PE150 sequencing platform. The chloroplast genome was assembled. The results of the annotation indicated that the chloroplast genome of V. ficifolia has a total length of 160 751 bp，which is a typical tetrad structure. The length of LSC，IR and SSC regions are 88 971，26 355 and 19 070 bp，respectively. The chloroplast genome contains a total of 133 genes，including 88 protein-coding genes，8 rRNA genes，and 37 tRNA genes. We found 84 SSR loci in the V. ficifolia chloroplast genome，of which the number of mononucleotide，dinucleotide，trinucleotide，tetranucleotide and pentanucleotide repeat motifs was 55，8，9，9 and 3，respectively. The NJ tree using chloroplast genome sequences of 32 species including 5 Vitis species was contrusted by MEGA software. The results showed that V. ficifolia had a close genetic relationship with V. amurensis，Pinot Noir（V. vinifera），V. aestivalis and V. rotundifolia.

Key words: Vitis ficifolia, chloroplast genome, resequencing, cluster analysis

CLC Number:

S 633.1

YANG Yameng1，JIAO Jian2，FAN Xiucai1，ZHANG Ying1，JIANG Jianfu1，LI Min1，and LIU Chonghuai1,*. Complete Chloroplast Genome Sequence and Characteristics Analysis of Vitis ficifolia[J]. ACTA HORTICULTURAE SINICA, 2019, 46(4): 635-648.

[1]	YANG Xiuwei, SU Jiangshuo, ZHANG Fei, GUAN Zhiyong, FANG Weimin, CHEN Fadi. Quantitative Evaluation and Genetic Variation of Flower Opening Angles in Spray Cut Chrysanthemums [J]. Acta Horticulturae Sinica, 2022, 49(8): 1723-1734.
[2]	JIANG Sisi, YUAN Jun, ZHOU Wenjun, NIU Genhua, ZHOU Junqin. Complete Chloroplast Genome Sequence and Characteristics Analysis of Carya illinoinensis [J]. Acta Horticulturae Sinica, 2022, 49(8): 1772-1784.
[3]	QIAO Jun, LIU Jing, LI Suwen, WANG Liying. Prediction of Fruit Color Genes Under the Calyx of Eggplant Based on Genome-wide Resequencing in an Extreme Mixing Pool [J]. Acta Horticulturae Sinica, 2022, 49(3): 613-621.
[4]	TANG Chenqian, QIU Zhixin, TAN Chao, QIAN Yuming, CHEN Xin. Sorbus koehneana（Rosaceae）：Its Complete Chloroplast Genome and Phylogenetic Relationship with S. unguiculata [J]. Acta Horticulturae Sinica, 2022, 49(3): 641-654.
[5]	GUO Xin, CHENG Fangyun, ZHONG Yuan, CHENG Xinyun, TAO Xiwen. The Quantitative Classification of Flower Color Phenotype in Paeonia rockii（Flare Tree Peony） [J]. Acta Horticulturae Sinica, 2022, 49(1): 86-99.
[6]	SONG Yun, JIA Mengjun, CAO Yaping, LI Zheng, HE Jiaxin, WANG Yongfei, ZHANG Xinrui, QIAO Yonggang. Analysis on Chloroplast Genomic Characteristics of Forsythia suspensa [J]. Acta Horticulturae Sinica, 2022, 49(1): 187-199.
[7]	LI Yanhong, NIE Jun, ZHENG Jinrong, TAN Delong, ZHANG Changyuan, SHI Liangliang, XIE Yuming. Genetic Diversity Analysis and Multivariate Evaluation of Cherry Tomato by Phenotypic Traits in South China [J]. Acta Horticulturae Sinica, 2021, 48(9): 1717-1730.
[8]	NIE Weijie, WANG Chenhe, MA Wanru, SU Jiangshuo, ZHANG Fei, FANG Weimin, CHEN Sumei, CHEN Fadi, GUAN Zhiyong. Comprehensive Evaluation of Flower Branch Characteristics of Cut Chrysanthemums [J]. Acta Horticulturae Sinica, 2021, 48(6): 1150-1162.
[9]	DONG Yi, FENG Yufei, XU Zhongmin, WANG Shimin, TANG Honglü, HUANG Wei. Analysis of the Relationship Between Genetic Distance and Heterosis by SSR Markers in Cabbage(Brassica oleracea var. capitata) [J]. Acta Horticulturae Sinica, 2021, 48(5): 934-946.
[10]	CHEN Li, XUE Liangjiao, LI Shuxian. Genome-wide Association Study of Flower Color Trait in Prunus persicaf.versicolor [J]. Acta Horticulturae Sinica, 2021, 48(3): 553-565.
[11]	WANG Zhenjiang, LUO Guoqing, DAI Fanwei, XIAO Gengsheng, LIN Sen, LI Zhiyi, TANG Cuiming. Genetic Diversity of 569 Fruit Mulberry Germplasm Resources Based on Eight Agronomic Traits [J]. Acta Horticulturae Sinica, 2021, 48(12): 2375-2384.
[12]	TANG Xiaowei, SU Jiangshuo, GUAN Zhiyong, FANG Weimin, CHEN Fadi, ZHANG Fei. Comprehensive Evaluation of Tea Chrysanthemum’s Drought and Waterlogging Tolerance at Seedling Stage [J]. Acta Horticulturae Sinica, 2021, 48(12): 2443-2457.
[13]	YIN Hantai, YIN Junmei, LIAO Yi, LU Shunjiao, LI Chonghui. Phenotype Classification Based on Flower Color,Pigment Distribution and Epidermal Cell Shape of Dendrobium Hybrids [J]. Acta Horticulturae Sinica, 2021, 48(10): 1907-1920.
[14]	CHENG Xiaodan, WEI Yukun, HUANG Yanbo, SHI Chunyu, CI Huiting, WANG Shunli, and ZHANG Xiuxin, . Study on Test Guideline of Distinctness，Uniformity and Stability for Salvia [J]. Acta Horticulturae Sinica, 2020, 47(S2): 3153-3162.
[15]	GUO Jun1,2，ZHU Jie1,2，XIE Shangqian1,3，ZHANG Ye1,2，YE Beilei1,2，ZHENG Liyan2，and LING Peng1,3,* . Development of SSR Molecular Markers Based on Transcriptome and Analysis of Genetic Relationship of Germplasm Resources in Avocado [J]. ACTA HORTICULTURAE SINICA, 2020, 47(8): 1552-1564.

Complete Chloroplast Genome Sequence and Characteristics Analysis of Vitis ficifolia

PDF

Knowledge

Abstract

Cite this article

share this article

References

Related Articles 15

Recommended Articles

Metrics

Comments