DNA barcoding of fishes from Zhoushan coastal waters using mitochondrial COI and 12S rRNA genes

Yehui WANG; Na SONG; Shude LIU; Zhi CHEN; Anle XU; Tianxiang GAO

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DNA barcoding of fishes from Zhoushan coastal waters using mitochondrial COI and 12S rRNA genes

Aquaculture and Fisheries | Updated：2024-10-14

- DNA barcoding of fishes from Zhoushan coastal waters using mitochondrial COI and 12S rRNA genes
- DNA barcoding of fishes from Zhoushan coastal waters using mitochondrial COI and 12S rRNA genes
- 海洋湖沼学报(英文) 2023年41卷第5期页码：1997-2009
- Affiliations：
  
  1.Fisheries College, Ocean University of China, Qingdao 266003, China
  2.Shandong Fisheries Development and Resources Conservation Center, Yantai 264003, China
  3.College of Fisheries and Life Science, Hainan Tropical Ocean University, Sanya 572022, China
  4.School of Fishery, Zhejiang Ocean University, Zhoushan 316000, China
- Author bio：
  
  ‍Corresponding authors: happyxu1234@163.‍com; gaotianxiang0611@zjou.edu.cn
- Funds：
  
  the Zhejiang Provincial Key Research and Development Program(2021C02047)
- DOI：
  中图分类号：
- 收稿：2022-05-06，
  
  录用：2022-07-18，
  
  网络首发：2022-08-22，
  
  纸质出版：2023-09-01
- Accepted：
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DNA barcoding of fishes from Zhoushan coastal waters using mitochondrial COI and 12S rRNA genes[J]. 海洋湖沼学报(英文), 2023,41(5):1997-2009.

WANG Yehui,SONG Na,LIU Shude,et al.DNA barcoding of fishes from Zhoushan coastal waters using mitochondrial COI and 12S rRNA genes[J].Journal of Oceanology and Limnology,2023,41(05):1997-2009.
DNA barcoding of fishes from Zhoushan coastal waters using mitochondrial COI and 12S rRNA genes[J]. 海洋湖沼学报(英文), 2023,41(5):1997-2009. DOI：

WANG Yehui,SONG Na,LIU Shude,et al.DNA barcoding of fishes from Zhoushan coastal waters using mitochondrial COI and 12S rRNA genes[J].Journal of Oceanology and Limnology,2023,41(05):1997-2009. DOI：

摘要

Abstract

Accurate species identification is a key component of biodiversity research. DNA barcoding is an effective molecular method used for fish species identification. We aimed to study the DNA barcoding of fish in Zhoushan coastal waters

explore the differences and applicability of two gene fragments (12S rRNA and COI) of DNA barcoding in fish species identification

and established a comprehensive fish barcoding reference database. Two hundred and eighty-seven captured fish samples from Zhoushan coastal waters were identified using morphological characteristics and DNA barcoding. A total of 264 12S rRNA sequences (belonging to eight orders

31 families

55 genera

and 66 species) and 188 COI sequences (belonging to seven orders

30 families

48 genera

and 58 species) were obtained. The lengths of the 12S rRNA sequences ranged from 165 to 178 bp

and the guanine-cytosine (GC) content was 45.37%. The average 12S rRNA interspecific and intraspecific genetic distances (K2P) were 0.10% and 26.66%

respectively. The length of the COI sequence ranged 574‍‍‍–‍655 bp

and the content of GC was 45.97%. The average 12S rRNA interspecific and intraspecific genetic distances (K2P) were 0.16% and 27.45%

respectively. The minimum interspecific genetic distances of 12S rRNA and COI (1.23% and 1.86%) were both greater than their maximum intraspecific genetic distances (2.42% and 8.66%). Three molecular analyses (NJ tree

ABGD

and GMYC) were performed to accurately identify and delineate species. Clustering errors occurred when the 12S rRNA sequences were delimited using the NJ tree method

and the delimitation results of ABGD and GMYC are consistent with the final species identification results. Our results demonstrate that DNA barcoding based on 12S rRNA and COI can be used as an effective tool for fish species identification

and 12S rRNA has good application prospects in the environmental DNA (eDNA) metabarcoding of marine fish.

关键词

Keywords

references

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