干旱区生态环境知识资源中心(Arid): Genome size, chromosome number determination, and analysis of the repetitive elements in Cissus quadrangularis

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DOI	10.7717/peerj.8201
	Genome size, chromosome number determination, and analysis of the repetitive elements in Cissus quadrangularis
	Gichuki, Duncan Kiragu 1,2,3; Ma, Lu 4; Zhu, Zhenfei 1,2,3; Du, Chang 1,2; Li, Qingyun 1,2; Hu, Guangwan 1,2; Zhong, Zhixiang 1,2; Li, Honglin 1,2; Wang, Qingfeng 1,2; Xin, Haiping 1,2
通讯作者	Xin, Haiping
来源期刊	PEERJ
ISSN	2167-8359
出版年	2019
卷号	7
英文摘要	Cissus quadrangularis (Vitaceae) is a perennial climber endemic to Africa and is characterized by succulent angular stems. The plant grows in arid and semi-arid regions of Africa especially in the African savanna. The stem of C. quadrangularis has a wide range of applications in both human and animal medicine, but there is limited cytogenetic information available for this species. In this study, the chromosome number, genome size, and genome composition for C. quadrangularis were determined. Flow cytometry results indicated that the genome size of C. quadrangularis is approximately 2C = 1.410 pg. Fluorescence microscopy combined with DAPI stain showed the chromosome numbers to be 2n = 48. It is likely that C. quadrangularis has a tetraploid genome after considering the basic chromosome numbers in Cissus genus (n = 10, 11, or 12). A combination of low-throughput genome sequencing and bioinformatics analysis allowed identification and quantification of repetitive elements that make up about 52% of the C. quadrangularis genome, which was dominated by LTR-retrotransposons. Two LTR superfamilies were identified as Copia and Gypsy, with 24% and 15% of the annotated clusters, respectively. The comparison of repeat elements for C. quadrangularis, Vitis vinifera, and four other selected members in the Cissus genus revealed a high diversity in the repetitive element components, which could suggest recent amplification events in the Cissus genus. Our data provides a platform for further studies on the phylogeny and karyotype evolution in this genus and in the family Vitaceae.
英文关键词	Cissus quadrangularis Genome size Copia Repeat elements Chromosome counts Gypsy Flow cytometry C value
类型	Article
语种	英语
国家	Peoples R China
开放获取类型	Green Published, gold
收录类别	SCI-E
WOS记录号	WOS:000503805000007
WOS关键词	NUCLEAR-DNA CONTENT ; GRAPE FAMILY ; LTR-RETROTRANSPOSONS ; CHLOROPLAST DNA ; FLOW-CYTOMETRY ; SEQUENCE ; EVOLUTION ; INSIGHTS ; L. ; CLASSIFICATION
WOS类目	Multidisciplinary Sciences
WOS研究方向	Science & Technology - Other Topics
EI主题词	2019-12-20
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/311873
作者单位	1.Chinese Acad Sci, Innovat Acad Seed Design, Wuhan Bot Garden, CAS Key Lab Plant Germplasm Enhancement & Special, Wuhan, Hubei, Peoples R China; 2.Chinese Acad Sci, Ctr Econ Bot, Core Bot Gardens, Wuhan, Hubei, Peoples R China; 3.Univ Chinese Acad Sci, Beijing, Peoples R China; 4.Shenzhen Tobeacon Technol Co Ltd, Shenzhen, Guangdong, Peoples R China
推荐引用方式 GB/T 7714	Gichuki, Duncan Kiragu,Ma, Lu,Zhu, Zhenfei,et al. Genome size, chromosome number determination, and analysis of the repetitive elements in Cissus quadrangularis[J],2019,7.
APA	Gichuki, Duncan Kiragu.,Ma, Lu.,Zhu, Zhenfei.,Du, Chang.,Li, Qingyun.,...&Xin, Haiping.(2019).Genome size, chromosome number determination, and analysis of the repetitive elements in Cissus quadrangularis.PEERJ,7.
MLA	Gichuki, Duncan Kiragu,et al."Genome size, chromosome number determination, and analysis of the repetitive elements in Cissus quadrangularis".PEERJ 7(2019).