Combining Multiple Markers in Environmental DNA Metabarcoding to Assess Deep-Sea Benthic Biodiversity
文献类型:期刊论文
作者 | Liu, Jun; Zhang, Haibin |
刊名 | FRONTIERS IN MARINE SCIENCE |
出版日期 | 2021-08-19 |
卷号 | 8页码:9 |
关键词 | benthic community 18S 28S environmental DNA deep sea metabarcoding |
DOI | 10.3389/fmars.2021.684955 |
英文摘要 | Environmental DNA (eDNA) metabarcoding is an emerging tool to estimate diversity by combining DNA from the environmental samples and the high-throughput sequencing. Despite its wide use in estimating eukaryotic diversity, many factors may bias the results. Maker choice and reference databases are among the key issues in metabarcoding analyses. In the present study, we compared the performance of a novel 28S rRNA gene marker designed in this study and two commonly used 18S rRNA gene markers (V1-2 and V9) in estimating the eukaryotic diversity in the deep-sea sediments. The metabarcoding analyses based on the sediment surveys of the Okinawa Trough found that more eukaryotic taxa were discovered by 18S V9 than 28S and 18S V1-2, and that 18S V9 also performed better in metazoan recovery than the other two markers. Although a broad range of taxa were detected by the three metabarcoding markers, only a small proportion of taxa were shared between them even at the phylum level. The non-metric multidimensional scaling (NMDS) analysis also supported that communities detected by the three markers were distinct from each other. In addition, different communities were resolved by different reference databases (NCBI nt vs. SILVA) for the two 18S markers. Combining the three markers, annelids were found to be the most abundant (44.9%) and diverse [179 operational taxonomic units (OTUs)] metazoan group in the sediments of the Okinawa Trough. Therefore, multiple independent markers are recommended to be used in metabarcoding analyses during marine diversity surveys, especially for the poorly understood deep-sea sediments. |
WOS关键词 | DIVERSITY PATTERNS ; CONSERVATION ; COMMUNITIES ; MEIOFAUNA ; TRENCH |
资助项目 | National Key R&D Program of China[2017YFC0306604] ; National Key R&D Program of China[2016YFC0304905] ; major scientific and technological projects of Hainan Province[ZDKJ2019011] ; Strategic Priority Research Program of the Chinese Academy of Sciences (CAS)[XDA22040502] |
WOS研究方向 | Environmental Sciences & Ecology ; Marine & Freshwater Biology |
语种 | 英语 |
出版者 | FRONTIERS MEDIA SA |
WOS记录号 | WOS:000692808200001 |
资助机构 | National Key R&D Program of China ; major scientific and technological projects of Hainan Province ; Strategic Priority Research Program of the Chinese Academy of Sciences (CAS) |
源URL | [http://ir.idsse.ac.cn/handle/183446/8889] |
专题 | 深海科学研究部_深海生物学研究室_海洋生物生态与进化研究组 |
通讯作者 | Zhang, Haibin |
作者单位 | Chinese Acad Sci, Inst Deep Sea Sci & Engn, Sanya, Peoples R China |
推荐引用方式 GB/T 7714 | Liu, Jun,Zhang, Haibin. Combining Multiple Markers in Environmental DNA Metabarcoding to Assess Deep-Sea Benthic Biodiversity[J]. FRONTIERS IN MARINE SCIENCE,2021,8:9. |
APA | Liu, Jun,&Zhang, Haibin.(2021).Combining Multiple Markers in Environmental DNA Metabarcoding to Assess Deep-Sea Benthic Biodiversity.FRONTIERS IN MARINE SCIENCE,8,9. |
MLA | Liu, Jun,et al."Combining Multiple Markers in Environmental DNA Metabarcoding to Assess Deep-Sea Benthic Biodiversity".FRONTIERS IN MARINE SCIENCE 8(2021):9. |
入库方式: OAI收割
来源:深海科学与工程研究所
浏览0
下载0
收藏0
其他版本
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。