NGS-metabarcoding revealing novel foraminiferal diversity in the Western Pacific Magellan Seamount sediments

Junfeng SHI; Yanli LEI; Haotian LI; Tiegang LI

doi:10.1007/s00343-021-0427-0

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NGS-metabarcoding revealing novel foraminiferal diversity in the Western Pacific Magellan Seamount sediments

Seamount microbial diversity and ecology | Updated：2023-04-27

- NGS-metabarcoding revealing novel foraminiferal diversity in the Western Pacific Magellan Seamount sediments
- NGS-metabarcoding revealing novel foraminiferal diversity in the Western Pacific Magellan Seamount sediments
- 海洋湖沼学报（英文） 2021年39卷第5期页码：1718-1729
- Affiliations：
  
  1.Laboratory of Marine Organism Taxonomy and Phylogeny, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
  2.Key Laboratory of Marine Sedimentology and Environmental Geology, First Institute of Oceanography, Ministry of Natural Resources (MNR), Qingdao 266061, China
  3.Clinical Research Center, Affiliated Hospital of Weifang Medical University, Weifang 261031, China
  4.Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China
  5.Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology (Qingdao), Qingdao 266237, China
  6.University of Chinese Academy of Sciences, Beijing 100049, China
  7.Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao 266071, China
- Author bio：
  
  Yanli LEI, E-mail: leiyanli@qdio.ac.cn
  Tiegang LI, E-mail: tgli@fio.org.cn
- Funds：
  
  the Science & Technology Basic Resources Investigation Program of China(2017FY100804);the Strategic Priority Research Program of Chinese Academy of Sciences(XDB42000000);the National Program on Global Change and Air-Sea Interaction(GASIGEOGE-04);the National Natural Science Foundation of China(41930533);the Taishan Scholars Project Funding(TS20190963);the Senior User Project of R/V Kexue, Center for Ocean Mega-Science, Chinese Academy of Sciences;© Chinese Society for Oceanology and Limnology, Science Press and Springer-Verlag GmbH Germany, part of Springer Nature 2021
- DOI：10.1007/s00343-021-0427-0
  中图分类号：
- 收稿：2020-11-11，
  
  录用：2021-1-14，
  
  网络首发：2021-08-16，
  
  纸质出版：2021-09
- Accepted：
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NGS-metabarcoding revealing novel foraminiferal diversity in the Western Pacific Magellan Seamount sediments[J]. 海洋湖沼学报（英文）, 2021,39(5):1718-1729.

Junfeng SHI, Yanli LEI, Haotian LI, et al. NGS-metabarcoding revealing novel foraminiferal diversity in the Western Pacific Magellan Seamount sediments[J]. Journal of Oceanology and Limnology, 2021, 39(5): 1718-1729.
NGS-metabarcoding revealing novel foraminiferal diversity in the Western Pacific Magellan Seamount sediments[J]. 海洋湖沼学报（英文）, 2021,39(5):1718-1729. DOI： 10.1007/s00343-021-0427-0.

Junfeng SHI, Yanli LEI, Haotian LI, et al. NGS-metabarcoding revealing novel foraminiferal diversity in the Western Pacific Magellan Seamount sediments[J]. Journal of Oceanology and Limnology, 2021, 39(5): 1718-1729. DOI： 10.1007/s00343-021-0427-0.

摘要

Abstract

Seamount is a unique deep-sea ecosystem widely distributed in the world. Its biodiversity is vibrant due to its specific geographical and hydrological conditions. However

the diversity and features of foraminifera in such an environment have rarely been studied. We extracted environmental DNA (eDNA) in sediments and amplified the partial small subunit ribosomal DNA (SSU rDNA) of foraminifera to understand the foraminiferal diversity from four sites in Magellan Seamount (Western Pacific Ocean). Partial SSU rDNA sequencing was conducted and 912 979 foraminiferal reads were obtained and gathered into 266 operational taxonomic units (OTUs). In the available dataset

a high proportion of rare OTUs and low identity OTUs in each studied sample showed that the Magellan Seamount foraminiferal community might have a high genetic novelty. The relative abundance of foraminifera varied between replicates probably due to the existence of bias in amplification process and patchiness of the deep-sea floor. It showed that the Magellan Seamount has a relatively high benthic foraminiferal diversity characterized mainly by monothalamiids (76.37% of total reads) in association with rotaliids (19.03% of total reads)

including planktic foraminiferal sequences (38.58% of rotaliids; 7.36% of total reads). The remaining reads were assigned to miliolids (0.83% of total reads) and textulariids (0.66% of total reads)

and 3.11% of total reads are unassigned to a specific family. The comparative analysis with foraminiferal assemblages from coastal and deep-sea environments indicated that seamounts could aggregate species from a nearby deep-sea.

关键词

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references

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