Full-length transcriptome analysis of the bloom-forming dinoflagellate Akashiwo sanguinea by single-molecule real-time sequencing | |
Chen, Tiantian1,2; Liu, Yun3,4; Song, Shuqun3,4; Bai, Jie1,2; Li, Caiwen3,4 | |
刊名 | FRONTIERS IN MICROBIOLOGY |
2022-10-17 | |
卷号 | 13页码:12 |
关键词 | Akashiwo sanguinea harmful algal blooms full-length transcript single molecule real-time sequencing reference resource |
DOI | 10.3389/fmicb.2022.993914 |
通讯作者 | Li, Caiwen(cwli@qdio.ac.cn) |
英文摘要 | 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. |
WOS研究方向 | Microbiology |
语种 | 英语 |
出版者 | FRONTIERS MEDIA SA |
WOS记录号 | WOS:000891413500001 |
内容类型 | 期刊论文 |
源URL | [http://ir.qdio.ac.cn/handle/337002/180274] |
专题 | 海洋研究所_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 |
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. |
个性服务 |
查看访问统计 |
相关权益政策 |
暂无数据 |
收藏/分享 |
除非特别说明,本系统中所有内容都受版权保护,并保留所有权利。
修改评论