Full-Length Transcriptome Analysis of Plasmodium falciparum by Single-Molecule Long-Read Sequencing

doi:10.3389/fcimb.2021.631545

	Full-Length Transcriptome Analysis of Plasmodium falciparum by Single-Molecule Long-Read Sequencing
	Yang, Mengquan 1,4,5; Shang, Xiaomin 1; Zhou, Yiqing 4; Wang, Changhong 1; Wei, Guiying 1; Tang, Jianxia 3; Zhang, Meihua 3; Liu, Yaobao 3; Cao, Jun 2,3; Zhang, Qingfeng 1
刊名	FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
	2021-02-23
卷号	11 页码:11
关键词	Plasmodium falciparum small protein long non-coding RNA alternative splicing full-length RNA-seq
ISSN号	2235-2988
DOI	10.3389/fcimb.2021.631545
通讯作者	Cao, Jun(caojuncn@hotmail.com) ; Zhang, Qingfeng(qfzhang@tongji.edu.cn)
英文摘要	Malaria, an infectious disease caused by Plasmodium parasites, still accounts for amounts of deaths annually in last decades. Despite the significance of Plasmodium falciparum as a model organism of malaria parasites, our understanding of gene expression of this parasite remains largely elusive since lots of progress on its genome and transcriptome are based on assembly with short sequencing reads. Herein, we report the new version of transcriptome dataset containing all full-length transcripts over the whole asexual blood stages by adopting a full-length sequencing approach with optimized experimental conditions of cDNA library preparation. We have identified a total of 393 alternative splicing (AS) events, 3,623 long non-coding RNAs (lncRNAs), 1,555 alternative polyadenylation (APA) events, 57 transcription factors (TF), 1,721 fusion transcripts in P. falciparum. Furthermore, the shotgun proteome was performed to validate the full-length transcriptome of P. falciparum. More importantly, integration of full-length transcriptomic and proteomic data identified 160 novel small proteins in lncRNA regions. Collectively, this full-length transcriptome dataset with high quality and accuracy and the shotgun proteome analyses shed light on the complex gene expression in malaria parasites and provide a valuable resource for related functional and mechanistic researches on P. falciparum genes.
资助项目	National Key R&D Program of China[2018YFA0507300] ; National Key R&D Program of China[2020YFC1200105] ; National Natural Science Foundation of China (NSFC)[81630063] ; National Natural Science Foundation of China (NSFC)[81971959] ; National Natural Science Foundation of China (NSFC)[31671353] ; National Natural Science Foundation of China (NSFC)[81971967] ; National Natural Science Foundation of China (NSFC)[22077011] ; Jiangsu Provincial Project of Invigorating Health Care Through Science, Technology and Education ; Jiangsu Provincial Commission of Health
WOS研究方向	Immunology ; Microbiology
语种	英语
出版者	FRONTIERS MEDIA SA
WOS记录号	WOS:000626617700001
内容类型	期刊论文
源URL	[http://119.78.100.183/handle/2S10ELR8/295529]
专题	中国科学院上海药物研究所
通讯作者	Cao, Jun; Zhang, Qingfeng
作者单位	1.Tongji Univ, Sch Med, Res Ctr Translat Med, Key Lab Arrhythmias,Minist Educ China,East Hosp, Shanghai, Peoples R China 2.Nanjing Med Univ, Sch Publ Hlth, Ctr Global Hlth, Nanjing, Peoples R China 3.Jiangsu Inst Parasit Dis, Natl Hlth Commiss Key Lab Parasit Dis Control & P, Jiangsu Prov Key Lab Parasite & Control Technol, Wuxi, Jiangsu, Peoples R China 4.Chinese Acad Sci, CAS Ctr Excellence Mol Plant Sci, CAS Key Lab Synthet Biol, Shanghai, Peoples R China 5.Chinese Acad Sci, Shanghai Inst Mat Med, State Key Lab Drug Res, Shanghai, Peoples R China
推荐引用方式 GB/T 7714	Yang, Mengquan,Shang, Xiaomin,Zhou, Yiqing,et al. Full-Length Transcriptome Analysis of Plasmodium falciparum by Single-Molecule Long-Read Sequencing[J]. FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY,2021,11:11.
APA	Yang, Mengquan.,Shang, Xiaomin.,Zhou, Yiqing.,Wang, Changhong.,Wei, Guiying.,...&Zhang, Qingfeng.(2021).Full-Length Transcriptome Analysis of Plasmodium falciparum by Single-Molecule Long-Read Sequencing.FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY,11,11.
MLA	Yang, Mengquan,et al."Full-Length Transcriptome Analysis of Plasmodium falciparum by Single-Molecule Long-Read Sequencing".FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY 11(2021):11.