干旱区生态环境知识资源中心(Arid): Analysis of Alternative Splicing and Alternative Polyadenylation in Populus alba var. pyramidalis by Single-Molecular Long-Read Sequencing

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DOI	10.3389/fgene.2020.00048
	Analysis of Alternative Splicing and Alternative Polyadenylation in Populus alba var. pyramidalis by Single-Molecular Long-Read Sequencing
	Hu, Hongyin 1,2; Yang, Wenlu 3; Zheng, Zeyu 1,2; Niu, Zhimin 1,2; Yang, Yongzhi 1,2; Wan, Dongshi 1,2; Liu, Jianquan 1,2,3; Ma, Tao 1,2,3
通讯作者	Ma, Tao
来源期刊	FRONTIERS IN GENETICS
EISSN	1664-8021
出版年	2020
卷号	11
英文摘要	Poplars are worldwidely cultivated with ecologically and economically important value. Populus alba var. pyramidalis (= P. bolleana) is a main tree of the farmland shelter-belt system in the arid region of Northwest China due to its rapid growth, erect stems, and high biomass production. However, the full-length messenger RNA (mRNA) sequences and complete structure of P. alba var. pyramidalis remain unclear. In this study, using single-molecular real-time (SMRT) and next-generation high-throughput sequencing (NGS) platform, we sequenced transcripts from leaf, root, xylem, and phloem of P. alba var. pyramidalis, to obtain the full-length mRNA transcripts and annotate the complete structure. In total, 86,327 mapped full-length non-chimeric (FLNC) reads were identified, with 705 previously unannotated loci and 3,410 long noncoding RNAs (lncRNAs) and 174 fusion genes found. Alternative spicing (AS) events were detected in 7,536 genes, of which 4,652 genes had multiple AS events. A total of 10,213 alternative polyadenylation (APA) sites were identified, with two or more APA sites observed in 2,212 genes. Our transcriptome data provided the full-length sequences and gene isoforms of transcripts for P. alba var. pyramidalis, which will be helpful in improving our understanding for the genome annotation and gene structures of P. alba var. pyramidalis.
英文关键词	Populus alba var pyramidalis single molecule real-time technology sequencing alternative splicing alternative polyadenylation long non-coding ribonucleic acid fusion genes
类型	Article
语种	英语
国家	Peoples R China
开放获取类型	gold, Green Published
收录类别	SCI-E
WOS记录号	WOS:000517292700001
WOS关键词	GENE-EXPRESSION ; TRANSCRIPTOME DYNAMICS ; POPLAR POPULUS ; DESERT POPLAR ; MESSENGER-RNA ; GENOME ; PLANTS ; TIME ; LANDSCAPE ; RESPONSES
WOS类目	Genetics & Heredity
WOS研究方向	Genetics & Heredity
来源机构	兰州大学
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/314545
作者单位	1.Lanzhou Univ, Inst Innovat Ecol, State Key Lab Grassland Agroecosyst, Lanzhou, Peoples R China; 2.Lanzhou Univ, Sch Life Sci, Lanzhou, Peoples R China; 3.Sichuan Univ, Coll Life Sci, Key Lab Bioresource & Ecoenvironm, Minist Educ, Chengdu, Peoples R China
推荐引用方式 GB/T 7714	Hu, Hongyin,Yang, Wenlu,Zheng, Zeyu,et al. Analysis of Alternative Splicing and Alternative Polyadenylation in Populus alba var. pyramidalis by Single-Molecular Long-Read Sequencing[J]. 兰州大学,2020,11.
APA	Hu, Hongyin.,Yang, Wenlu.,Zheng, Zeyu.,Niu, Zhimin.,Yang, Yongzhi.,...&Ma, Tao.(2020).Analysis of Alternative Splicing and Alternative Polyadenylation in Populus alba var. pyramidalis by Single-Molecular Long-Read Sequencing.FRONTIERS IN GENETICS,11.
MLA	Hu, Hongyin,et al."Analysis of Alternative Splicing and Alternative Polyadenylation in Populus alba var. pyramidalis by Single-Molecular Long-Read Sequencing".FRONTIERS IN GENETICS 11(2020).