Harmonized coexistence of intragenomic variations in diatom Skeletonema strains
文献类型：期刊论文
| 作者 | Liu, Shuya1,3,4; Ding, Xiangxiang1,2,3,4 ; Liu, Kuiyan1,2,3,4; Chen, Nansheng1,3,4
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| 刊名 | ENVIRONMENTAL RESEARCH
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| 出版日期 | 2024-12-01 |
| 卷号 | 262页码:12 |
| 关键词 | Skeletonema species Metabarcoding analysis Intra-genomic variations Molecular diversity 18S rDNA |
| ISSN号 | 0013-9351 |
| DOI | 10.1016/j.envres.2024.119799 |
| 通讯作者 | Chen, Nansheng(chenn@qdio.ac.cn) |
| 英文摘要 | Metabarcoding analysis has been demonstrated to be an effective technology for monitoring diversity and dynamics of phytoplankton including Skeletonema species. Although molecular diversity uncovered in metabarcoding projects has generally been interpreted as sum of interspecies diversity and intraspecies diversity, accumulating evidence suggests that it also harbors unprecedentedly high levels of intra-genomic variations (IGVs). As up to thousands of amplicon sequence variants (ASVs) identified in a typical metabarcoding project can be annotated to be Skeletonema species, we hypothesize that substantial portions of these ASVs are contributed by IGVs. Here, the nature of IGVs in Skeletonema species was quantitatively analyzed by carrying out single-strain metabarcoding analysis of 18S rDNA V4 in 49 strains belonging to seven Skeletonema species. Results showed that each Skeletonema strain harbored a high level of IGVs as expected. While many Skeletonema strains each contained one dominant ASV and a substantial number of ASVs displaying much lower relative abundance, other Skeletonema strains each contained multiple ASVs with comparable or nearly equally abundances. Thus the co-existence of multiple dominant ASVs in a single cell indicated a tug-of-war of these variants in evolution, which may eventually result in harmonized coexistence of multiple dominant ASVs. A total of nine dominant ASVs and 652 non-dominant ASVs were found in 49 strains of seven Skeletonema species, indicating rich interspecies and intraspecies variations, and complex evolution of IGVs in genus of Skeletonema. The results confirmed that the extensive degree of IGVs was the main contributor to the high molecular diversity revealed by metabarcoding analysis. This study highlights the importance of quantitative characterization of IGVs in Skeletonema species for accurate interpretation of species diversity in metabarcoding analysis. |
| WOS关键词 | RIBOSOMAL-RNA GENES ; CONCERTED EVOLUTION ; DIVERSITY ; DNA ; BACILLARIOPHYCEAE ; COSTATUM ; HETEROGENEITY ; REVEALS ; POLYMORPHISM ; VARIABILITY |
| 资助项目 | National Key Research and Development (R&D) Program of China[2022YFC3105200] ; Natural Science Foundation of China[42176162] ; Natural Science Foundation of China[41906118] ; Taishan Scholar Project Special Fund, China ; Strategic Priority Research Program of Chinese Academy of Sciences, China[XDB42000000] ; Chinese Academy of Sciences Pioneer Hundred Talents Program, China |
| WOS研究方向 | Environmental Sciences & Ecology ; Public, Environmental & Occupational Health |
| 语种 | 英语 |
| WOS记录号 | WOS:001297899300001 |
| 出版者 | ACADEMIC PRESS INC ELSEVIER SCIENCE |
| 源URL | [http://ir.qdio.ac.cn/handle/337002/198188]  |
| 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 | Chen, Nansheng |
| 作者单位 | 1.Chinese Acad Sci, Ctr Ocean Mega Sci, Qingdao 266071, Peoples R China 2.Univ Chinese Acad Sci, Coll Adv Agr Sci, Beijing 100039, Peoples R China 3.Qingdao Marine Sci & Technol Ctr, Lab Marine Ecol & Environm Sci, Qingdao 266200, Peoples R China 4.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Peoples R China |
| 推荐引用方式 GB/T 7714 | Liu, Shuya,Ding, Xiangxiang,Liu, Kuiyan,et al. Harmonized coexistence of intragenomic variations in diatom Skeletonema strains[J]. ENVIRONMENTAL RESEARCH,2024,262:12. |
| APA | Liu, Shuya,Ding, Xiangxiang,Liu, Kuiyan,&Chen, Nansheng.(2024).Harmonized coexistence of intragenomic variations in diatom Skeletonema strains.ENVIRONMENTAL RESEARCH,262,12. |
| MLA | Liu, Shuya,et al."Harmonized coexistence of intragenomic variations in diatom Skeletonema strains".ENVIRONMENTAL RESEARCH 262(2024):12. |
入库方式： OAI收割
来源：海洋研究所
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