The high molecular diversity in Noctiluca scintillans is dominated by intra-genomic variations revealed by single cell high-throughput sequencing of 18S rDNA V4

doi:10.1016/j.hal.2024.102568

	The high molecular diversity in Noctiluca scintillans is dominated by intra-genomic variations revealed by single cell high-throughput sequencing of 18S rDNA V4
	Liu, Kuiyan 1,2,3,4; Huang, Xianliang 1,2,3,4; Ding, Xiangxiang1,2,3,4 ; Chen, Nansheng 1,2,4,5,6
	2024-02-01
发表期刊	HARMFUL ALGAE
ISSN	1568-9883
卷号	132 页码:10
通讯作者	Chen, Nansheng(chenn@qdio.ac.cn)
摘要	The application of high-throughput sequencing (HTS) technologies has revolutionized research on phytoplankton biodiversity by generating an unprecedented amount of molecular data in marine ecosystem surveys. However, high-level of molecular diversity uncovered in HTS-based metabarcoding analyses may lead to overinterpretation of phytoplankton diversity due to excessive intra-genomic variations (IGVs). The aims in this study are to explore the nature of phytoplankton molecular diversity and to test the hypothesis. We carried out single-cell metabarcoding analysis of 18S rDNA V4 sequences obtained in single Noctiluca scintillans cells isolated from various sites in coastal waters of China. Results showed that each single N. scintillans cell harbored a high level of IGVs with about 100 amplicon sequence variants (ASVs). The large numbers of non-dominant ASVs identified in N. scintillans cells, which might correspond to the larger numbers of ASVs annotated as N. scintillans and showed similar temporal dynamics in metabarcoding analyses, could inflate the inter-species diversity or intra-species genetic diversity. In addition, there were large numbers of additional ASVs that were not annotated as N. scintillans. These non-N. scintillans ASVs might represent diverse preys for N. scintillans, consistent with previous reports that N. scintillans may act as chance predator of a broad-spectrum preys. This single-cell study has unambiguously demonstrated that the existence of high levels of IGVs in N. scintillans and most likely many other phytoplankton species, demonstrating that the majority of the molecular diversity revealed in metabarcoding analysis, which were generally interpreted as the sum of inter-species diversity and intra-species diversity, actually included high levels of IGVs and should be interpreted with caution.
关键词	Noctiluca scintillans Single cell analysis Molecular diversity Inter -species diversity Intra -species diversity
DOI	10.1016/j.hal.2024.102568
收录类别	SCI
语种	英语
资助项目	National Key Research and Development (R & D) Program of China[2022YFC3105200] ; Marine S&T Fund of Shandong Province for Pilot National Labora-tory for Marine Science and Technology (Qingdao)[LSKJ202203700] ; Natural Science Foundation of China[42176162] ; Natural Science Foundation of China[41906118] ; Strategic Priority Research Program of Chinese Academy of Sciences[XDB42000000] ; Chinese Academy of Sciences Pioneer Hundred Talents Program ; Taishan Scholar Project Special Fund
WOS研究方向	Marine & Freshwater Biology
WOS类目	Marine & Freshwater Biology
WOS记录号	WOS:001167632800001
出版者	ELSEVIER
WOS关键词	RIBOSOMAL-RNA GENES ; INTERNAL TRANSCRIBED SPACER ; GREEN NOCTILUCA ; DNA ; RED ; CHINA ; BIODIVERSITY ; PHYTOPLANKTON ; POLYMORPHISM ; DINOPHYCEAE
引用统计
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/184524
专题	海洋生态与环境科学重点实验室
通讯作者	Chen, Nansheng
作者单位	1.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Peoples R China 2.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Ecol & Environm Sci, Qingdao 266200, Peoples R China 3.Univ Chinese Acad Sci, Coll Marine Sci, Beijing 100039, Peoples R China 4.Chinese Acad Sci, Ctr Ocean Mega Sci, Qingdao 266071, Peoples R China 5.Simon Fraser Univ, Dept Mol Biol & Biochem, 8888 Univ Dr, Burnaby, BC V5A 1S6, Canada 6.Chinese Acad Sci, 7 Nanhai Rd, Qingdao 266071, Peoples R China
第一作者单位	海洋生态与环境科学重点实验室
通讯作者单位	海洋生态与环境科学重点实验室
推荐引用方式 GB/T 7714	Liu, Kuiyan,Huang, Xianliang,Ding, Xiangxiang,et al. The high molecular diversity in Noctiluca scintillans is dominated by intra-genomic variations revealed by single cell high-throughput sequencing of 18S rDNA V4[J]. HARMFUL ALGAE,2024,132:10.
APA	Liu, Kuiyan,Huang, Xianliang,Ding, Xiangxiang,&Chen, Nansheng.(2024).The high molecular diversity in Noctiluca scintillans is dominated by intra-genomic variations revealed by single cell high-throughput sequencing of 18S rDNA V4.HARMFUL ALGAE,132,10.
MLA	Liu, Kuiyan,et al."The high molecular diversity in Noctiluca scintillans is dominated by intra-genomic variations revealed by single cell high-throughput sequencing of 18S rDNA V4".HARMFUL ALGAE 132(2024):10.