Study on fish species diversity in the East China Sea in summer  based on environmental DNA technology

Li Xiaoling; Liu Yang; Wang Congcong; Yu Yewei; Li Gang

doi:10.12284/hyxb2022088

Volume 44 Issue 4

Apr. 2022

Turn off MathJax

Article Contents

Article Navigation > Haiyang Xuebao > 2022 > 44(4): 74-84

Li Xiaoling，Liu Yang，Wang Congcong, et al. Study on fish species diversity in the East China Sea in summer based on environmental DNA technology[J]. Haiyang Xuebao，2022, 44(4)：74–84 doi: 10.12284/hyxb2022088

Citation:

PDF( 1880 KB)

Study on fish species diversity in the East China Sea in summer based on environmental DNA technology

doi: 10.12284/hyxb2022088

Li Xiaoling^1
,,
Liu Yang^{1, 2, 3, 4, 5},
Wang Congcong^{1, 2, 3, 4, 5
,
,},
Yu Yewei¹,
Li Gang^{1, 2, 3, 4, 5
,
,}

1.
College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China
2.
Key Laboratory of Sustainable Exploitation of Oceanic Fisheries Resources, Ministry of Education, Shanghai 201306, China
3.
National Distant-water Fisheries Engineering Research Center, Shanghai Ocean University, Shanghai 201306, China
4.
Key Laboratory of Ocean Fisheries Exploitation, Ministry of Agriculture and Rural Affairs, Shanghai 201306, China
5.
Scientific Observing and Experimental Station of Oceanic Fishery Resources, Ministry of Agriculture and Rural Affairs, Shanghai 201306, China

Received Date: 2021-07-21
Rev Recd Date: 2021-12-17
Publish Date: 2022-04-14

Abstract

Abstract

To understand the species composition of the dominant fish species communities in the East China Sea and to monitor and protect their diversity, environmental DNA technology to analyze the species diversity of fish in the East China Sea was used in this study. Through the collection of seawater samples, eDNA extraction, amplification and high-throughput sequencing analysis, a total of 44 species of marine fishes in 2 classes, 23 orders, 29 families and 42 genera were detected, and most of the species were found in the traditional fishery resources survey in the East China Sea. Among them, the species with high relative abundance were red nose anchovy (Thryssa kammalensis), blue-spotted horse mackerel (Scomberomorus niphonius), Japanese mackerel (Scomber japonicus), small yellowtail (Larimichthys polyactis) and mullet (Mugil cephalus). The alpha diversity among stations was significant difference, and generally showed high biodiversity at coastal stations and high biological abundance at offshore stations. The results suggested that environmental DNA technology could quickly explore the diversity and spatial distribution of fish species in the East China Sea, as an effective supplementary to traditional fisheries resource monitoring.
- environmental DNA,
- East China Sea,
- biodiversity,
- fish

FullText(HTML)

References(39)

References

[1]	Edlinger A, Saghaï A, Herzog C, et al. Towards a multidimensional view of biodiversity and ecosystem functioning in a changing world[J]. New Phytologist, 2020, 228(3): 820−822. doi: 10.1111/nph.16881
[2]	Noor N M, Das S K. Effects of elevated carbon dioxide on marine ecosystem and associated fishes[J]. Thalassas: An International Journal of Marine Sciences, 2019, 35(2): 421−429. doi: 10.1007/s41208-019-00161-3
[3]	Worm B, Barbier E B, Beaumont N, et al. Impacts of biodiversity loss on ocean ecosystem services[J]. Science, 2006, 314(5800): 787−790. doi: 10.1126/science.1132294
[4]	李圣法, 程家骅, 严利平. 东海大陆架鱼类群落的空间结构[J]. 生态学报, 2007, 27(11): 4377−4386. doi: 10.3321/j.issn:1000-0933.2007.11.001 Li Shengfa, Cheng Jiahua, Yan Liping. Spatial structures of fish communities on the continental shelf of the East China Sea[J]. Acta Ecologica Sinica, 2007, 27(11): 4377−4386. doi: 10.3321/j.issn:1000-0933.2007.11.001
[5]	Liu J Y. Status of marine biodiversity of the China Seas[J]. PLoS One, 2013, 8(1): e50719. doi: 10.1371/journal.pone.0050719
[6]	Takayanagi K, Nishiuchi K, Yokouchi K, et al. A possible collaboration with China on marine ecosystem research in the East China Sea[J]. Japan Agricultural Research Quarterly: JARQ, 2006, 40(1): 59−64. doi: 10.6090/jarq.40.59
[7]	林龙山, 程家骅, 李惠玉. 东海底拖网渔业资源现状[J]. 现代渔业信息, 2006, 21(9): 13−15. Lin Longshan, Cheng Jiahua, Li Huiyu. Recent status of bottom trawl fishery resources in the East China Sea[J]. Modern Fisheries Information, 2006, 21(9): 13−15.
[8]	刘勇, 程家骅. 东海及黄海南部渔业资源水文环境类群划分及其相关特征的初步分析[J]. 中国水产科学, 2019, 26(4): 796−810. Liu Yong, Cheng Jiahua. Preliminary analysis on the division of fishery resources based on hydrological environment factors in the East China Sea and south of the Yellow Sea[J]. Journal of Fishery Sciences of China, 2019, 26(4): 796−810.
[9]	戴芳群, 朱玲, 陈云龙. 黄、东海渔业资源群落结构变化研究[J]. 渔业科学进展, 2020, 41(1): 1−10. Dai Fangqun, Zhu Ling, Chen Yunlong. Variations of fishery resource structure in the Yellow Sea and East China Sea[J]. Progress in Fishery Sciences, 2020, 41(1): 1−10.
[10]	高天翔, 陈治, 王晓艳. 近海鱼类多样性调查新方法—环境DNA分析技术[J]. 浙江海洋大学学报(自然科学版), 2018, 37(1): 1−7. Gao Tianxiang, Chen Zhi, Wang Xiaoyan. Environmental DNA, a new method for fish diversity investigation in the coastal waters[J]. Journal of Zhejiang Ocean University (Natural Science Edition), 2018, 37(1): 1−7.
[11]	张辉, 线薇薇. 环境DNA技术在生态保护和监测中的应用[J]. 海洋科学, 2020, 44(7): 96−102. doi: 10.11759/hykx20200119002 Zhang Hui, Xian Weiwei. Application of environmental DNA technology in ecological conservation and monitoring[J]. Marine Science, 2020, 44(7): 96−102. doi: 10.11759/hykx20200119002
[12]	吴昀晟, 唐永凯, 李建林, 等. 环境DNA在长江江豚监测中的应用[J]. 中国水产科学, 2019, 26(1): 124−132. doi: 10.3724/SP.J.1118.2019.18133 Wu Yunsheng, Tang Yongkai, Li Jianlin, et al. The application of environmental DNA in the monitoring of the Yangtze finless porpoise, Neophocaena phocaenoides asaeorientalis[J]. Journal of Fishery Sciences of China, 2019, 26(1): 124−132. doi: 10.3724/SP.J.1118.2019.18133
[13]	Lear G, Dickie I, Banks J, et al. Methods for the extraction, storage, amplification and sequencing of DNA from environmental samples[J]. New Zealand Journal of Ecology, 2018, 42(1): 10.
[14]	单秀娟, 李苗, 王伟继. 环境DNA(eDNA)技术在水生生态系统中的应用研究进展[J]. 渔业科学进展, 2018, 39(3): 23−29. Shan Xiujuan, Li Miao, Wang Weiji. Application of environmental DNA technology in aquatic ecosystem[J]. Progress in Fishery Sciences, 2018, 39(3): 23−29.
[15]	Sigsgaard E E, Nielsen I B, Carl H, et al. Seawater environmental DNA reflects seasonality of a coastal fish community[J]. Marine Biology, 2017, 164(6): 128. doi: 10.1007/s00227-017-3147-4
[16]	Fraija-Fernández N, Bouquieaux M C, Rey A, et al. Marine water environmental DNA metabarcoding provides a comprehensive fish diversity assessment and reveals spatial patterns in a large oceanic area[J]. Ecology and Evolution, 2020, 10(14): 7560−7584. doi: 10.1002/ece3.6482
[17]	凌建忠, 姜亚洲, 孙鹏, 等. 环境DNA技术在象山港水域鱼类多样性调查中的应用与评估[J]. 中国水产科学, 2021, 28(2): 205−214. Ling Jianzhong, Jiang Yazhou, Sun Peng, et al. Application and evaluation of environmental DNA technology in fish diversity research in Xiangshan Bay[J]. Journal of Fishery Sciences of China, 2021, 28(2): 205−214.
[18]	舒璐, 林佳艳, 徐源, 等. 基于环境DNA宏条形码的洱海鱼类多样性研究[J]. 水生生物学报, 2020, 44(5): 1080−1086. doi: 10.7541/2020.125 Shu Lu, Lin Jiayan, Xu Yuan, et al. Investigating the fish diversity in Erhai Lake based on environmental DNA metabarcoding[J]. Acta Hydrobiologica Sinica, 2020, 44(5): 1080−1086. doi: 10.7541/2020.125
[19]	Wang Xiaoyan, Lu Guoqing, Zhao Linlin, et al. Assessment of fishery resources using environmental DNA: small yellow croaker (Larimichthys polyactis) in East China Sea[J]. PLoS One, 2020, 15(12): e0244495. doi: 10.1371/journal.pone.0244495
[20]	Miya M, Sato Y, Fukunaga T, et al. MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species[J]. Royal Society Open Science, 2015, 2(7): 150088. doi: 10.1098/rsos.150088
[21]	Bolyen E, Rideout J R, Dillon M R, et al. Author correction: reproducible, interactive, scalable and extensible microbiome data science using QIIME 2[J]. Nature Biotechnology, 2019, 37(9): 1091.
[22]	Whittaker R H. Evolution and measurement of species diversity[J]. Taxon, 1972, 21(2/3): 213−251.
[23]	Chao Anne. Nonparametric estimation of the number of classes in a population[J]. Scandinavian Journal of Statistics, 1984, 11(4): 265−270.
[24]	Shannon C E. A mathematical theory of communication part I: discrete noiseless systems[J]. The Bell System Technical Journal, 1948, 27(3): 379−423. doi: 10.1002/j.1538-7305.1948.tb01338.x
[25]	Shannon C E. A mathematical theory of communication part II: the discrete channel with noise[J]. The Bell System Technical Journal, 1948, 27(3): 623−656.
[26]	Simpson E H. Measurement of diversity[J]. Nature, 1949, 163(4148): 688. doi: 10.1038/163688a0
[27]	Pielou E C. The measurement of diversity in different types of biological collections[J]. Journal of Theoretical Biology, 1966, 13: 131−144. doi: 10.1016/0022-5193(66)90013-0
[28]	赵淑江, 吕宝强, 李汝伟, 等. 物种灭绝背景下东海渔业资源衰退原因分析[J]. 中国科学: 地球科学, 2015, 45(11): 1628−1640. Zhao Shujiang, Lü Baoqiang, Li Ruwei, et al. A preliminary analysis of fishery resource exhaustion in the context of biodiversity decline[J]. Science China: Earth Sciences, 2015, 45(11): 1628−1640.
[29]	Bergman P S, Schumer G, Blankenship S, et al. Detection of adult green sturgeon using environmental DNA analysis[J]. PLoS One, 2016, 11(4): e0153500. doi: 10.1371/journal.pone.0153500
[30]	Lugg W H, Griffiths J, Van Rooyen A R, et al. Optimal survey designs for environmental DNA sampling[J]. Methods in Ecology and Evolution, 2018, 9(4): 1049−1059. doi: 10.1111/2041-210X.12951
[31]	刘勇, 李圣法, 陈学刚, 等. 东、黄海2000年冬季底层鱼类群落结构及其多样性[J]. 海洋科学, 2007, 31(10): 19−24. doi: 10.3969/j.issn.1000-3096.2007.10.009 Liu Yong, Li Shengfa, Chen Xuegang, et al. The structure and diversity of demersal fish communities in winter 2000 in the East China Sea and the Yellow Sea[J]. Marine Science, 2007, 31(10): 19−24. doi: 10.3969/j.issn.1000-3096.2007.10.009
[32]	宫亚运, 章群, 曹艳, 等. 基于线粒体COⅠ基因的中国近海棱鳀属鱼类DNA条形码[J]. 水产学报, 2016, 40(10): 1513−1520. Gong Yayun, Zhang Qun, Cao Yan, et al. DNA barcoding of Thryssa in coastal waters of China based on the mitochondrial cytochrome oxidase subunit I sequence[J]. Journal of Fisheries of China, 2016, 40(10): 1513−1520.
[33]	马春艳, 马凌波, 倪勇, 等. 基于形态特征和线粒体16S rRNA基因序列探讨棱鳀属的系统进化[J]. 中国水产科学, 2010, 17(3): 471−477. Ma Chunyan, Ma Lingbo, Ni Yong, et al. Phylogenetic relationship of Thryssa inferred from morphologic characteristic and mitochondrial 16S rRNA gene sequences[J]. Journal of Fishery Sciences of China, 2010, 17(3): 471−477.
[34]	程家骅, 张秋华, 李圣法, 等. 东黄海渔业资源利用[M]. 上海: 上海科学技术出版社, 2006. Cheng Jiahua, Zhang Qiuhua, Li Shengfa, et al. Fishery Resource Utilization in the Yellow Sea and East China Sea[M]. Shanghai: Shanghai Science and Technology Press, 2006.
[35]	杜萍, 陈全震, 李尚鲁, 等. 东海带鱼资源变动及其栖息地驱动因子研究进展[J]. 广东海洋大学学报, 2020, 40(1): 126−132. doi: 10.3969/j.issn.1673-9159.2020.01.017 Du Ping, Chen Quanzhen, Li Shanglu, et al. Advances in the Trichiurus lepturus changes and habitat driving factors in the East China Sea[J]. Journal of Guangdong Ocean University, 2020, 40(1): 126−132. doi: 10.3969/j.issn.1673-9159.2020.01.017
[36]	杨青, 李宏俊, 李洪波, 等. 海洋生物多样性评价方法综述[J]. 海洋环境科学, 2013, 32(1): 157−160. Yang Qing, Li Hongjun, Li Hongbo, et al. Review on assessment methods of marine biodiversity[J]. Marine Environmental Science, 2013, 32(1): 157−160.
[37]	赵梦迪. 利用环境DNA分析冬季中国东黄海水域的鱼类多样性[D]. 上海: 上海海洋大学, 2017. Zhao Mengdi. Analysis of the fish diversity of the East China Sea and the Yellow Sea in winter using environmental DNA[D]. Shanghai: Shanghai Ocean University, 2017.
[38]	周永东, 李圣法. 东海区主要经济种类三场一通道及保护区图集[M]. 北京: 海洋出版社, 2018. Zhou Yongdong, Li Shengfa. Atlas of Spawning Grounds, Feeding Grounds, Overwintering Grounds, Migratory Channels and Protected Areas of the Main Economic Species in the East China Sea[M]. Beijing: China Ocean Press, 2018.
[39]	李圣法, 程家骅, 李长松, 等. 东海中部鱼类群落多样性的季节变化[J]. 海洋渔业, 2005, 27(2): 113−119. doi: 10.3969/j.issn.1004-2490.2005.02.005 Li Shengfa, Cheng Jiahua, Li Changsong, et al. Seasonal changes on fish community diversity in the middle part of the East China Sea[J]. Marine Fisheries, 2005, 27(2): 113−119. doi: 10.3969/j.issn.1004-2490.2005.02.005