Full-length transcriptome analysis of the bloom-forming dinoflagellate Akashiwo sanguinea by single-molecule real-time sequencing

doi:10.3389/fmicb.2022.993914

	Full-length transcriptome analysis of the bloom-forming dinoflagellate Akashiwo sanguinea by single-molecule real-time sequencing
	Chen, Tiantian1,2 ; Liu, Yun 3,4; Song, Shuqun 3,4; Bai, Jie 1,2; Li, Caiwen3,4
	2022-10-17
发表期刊	FRONTIERS IN MICROBIOLOGY
卷号	13 页码:12
通讯作者	Li, Caiwen([email protected])
摘要	The dinoflagellate Akashiwo sanguinea is a harmful algal species and commonly observed in estuarine and coastal waters around the world. Harmful algal blooms (HABs) caused by this species lead to serious environmental impacts in the coastal waters of China since 1998 followed by huge economic losses. However, the full-length transcriptome information of A. sanguinea is still not fully explored, which hampers basic genetic and functional studies. Herein, single-molecule real-time (SMRT) sequencing technology was performed to characterize the full-length transcript in A. sanguinea. Totally, 83.03 Gb SMRT sequencing clean reads were generated, 983,960 circular consensus sequences (CCS) with average lengths of 3,061 bp were obtained, and 81.71% (804,016) of CCS were full-length non-chimeric reads (FLNC). Furthermore, 26,461 contigs were obtained after being corrected with Illumina library sequencing, with 20,037 (75.72%) successfully annotated in the five public databases. A total of 13,441 long non-coding RNA (lncRNA) transcripts, 3,137 alternative splicing (AS) events, 514 putative transcription factors (TFs) members from 23 TF families, and 4,397 simple sequence repeats (SSRs) were predicted, respectively. Our findings provided a sizable insights into gene sequence characteristics of A. sanguinea, which can be used as a reference sequence resource for A. sanguinea draft genome annotation, and will contribute to further molecular biology research on this harmful bloom algae.
关键词	Akashiwo sanguinea harmful algal blooms full-length transcript single molecule real-time sequencing reference resource
DOI	10.3389/fmicb.2022.993914
收录类别	SCI
语种	英语
WOS研究方向	Microbiology
WOS类目	Microbiology
WOS记录号	WOS:000891413500001
出版者	FRONTIERS MEDIA SA
引用统计	被引频次：2[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/180275
专题	海洋生态与环境科学重点实验室
通讯作者	Li, Caiwen
作者单位	1.Ocean Univ China, Coll Environm Sci & Engn, Qingdao, Peoples R China 2.Ocean Univ China, Key Lab Marine Environm & Ecol, Qingdao, Peoples R China 3.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao, Peoples R China 4.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Ecol & Environm Sci, Qingdao, Peoples R China
通讯作者单位	中国科学院海洋研究所
推荐引用方式 GB/T 7714	Chen, Tiantian,Liu, Yun,Song, Shuqun,et al. Full-length transcriptome analysis of the bloom-forming dinoflagellate Akashiwo sanguinea by single-molecule real-time sequencing[J]. FRONTIERS IN MICROBIOLOGY,2022,13:12.
APA	Chen, Tiantian,Liu, Yun,Song, Shuqun,Bai, Jie,&Li, Caiwen.(2022).Full-length transcriptome analysis of the bloom-forming dinoflagellate Akashiwo sanguinea by single-molecule real-time sequencing.FRONTIERS IN MICROBIOLOGY,13,12.
MLA	Chen, Tiantian,et al."Full-length transcriptome analysis of the bloom-forming dinoflagellate Akashiwo sanguinea by single-molecule real-time sequencing".FRONTIERS IN MICROBIOLOGY 13(2022):12.

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