基于环境DNA宏条形码技术研究黄河三角洲典型潮沟系统鱼类多样性及其对水文连通性的响应

doi:10.17520/biods.2023073

生物多样性 ›› 2023, Vol. 31 ›› Issue (7): 23073. DOI: 10.17520/biods.2023073

• 研究报告: 动物多样性 • 上一篇下一篇

基于环境DNA宏条形码技术研究黄河三角洲典型潮沟系统鱼类多样性及其对水文连通性的响应

董志远¹^,², 陈琳琳¹^,², 张乃鹏⁴, 陈莉¹^,³, 孙德斌¹^,², 倪艳梅¹^,³, 李宝泉¹^,²^,^*()

1.中国科学院烟台海岸带研究所海岸带生物学与生物资源保护实验室, 山东烟台 264003
2.中国科学院大学, 北京 100049
3.烟台大学海洋学院, 山东烟台 264003
4.东营市水文中心, 山东东营 257000

收稿日期:2023-03-09 接受日期:2023-04-18 出版日期:2023-07-20 发布日期:2023-04-26
通讯作者: *E-mail: bqli@yic.ac.cn
作者简介:*E-mail: bqli@yic.ac.cn
基金资助:
国家自然科学基金(42176160);国家自然科学基金(42276142);山东省自然科学基金(ZR2021MD084);中国科学院A类战略性先导科技专项(XDA23050202)

Response of fish diversity to hydrological connectivity of typical tidal creek system in the Yellow River Delta based on environmental DNA metabarcoding

Zhiyuan Dong¹^,², Linlin Chen¹^,², Naipeng Zhang⁴, Li Chen¹^,³, Debin Sun¹^,², Yanmei Ni¹^,³, Baoquan Li¹^,²^,^*()

1. Key Laboratory of Coastal Biology and Bioresource Utilization, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, Shandong 264003
2. University of Chinese Academy of Sciences, Beijing 100049
3. School of Ocean, Yantai University, Yantai, Shandong 264003
4. Dongying Municipal Hydrology Center, Dongying, Shandong 257000

Received:2023-03-09 Accepted:2023-04-18 Online:2023-07-20 Published:2023-04-26
Contact: *E-mail: bqli@yic.ac.cn

摘要/Abstract

摘要：

水文连通对于维护滨海湿地生物多样性至关重要, 鱼类多样性作为生物多样性的重要组成部分, 了解其对不同水文连通强度的响应具有重要意义。本研究基于环境DNA宏条形码技术(eDNA metabarcoding)检测黄河三角洲典型潮沟系统鱼类多样性, 分析鱼类物种分布对不同水文连通强度潮沟生境差异的响应特征。利用12S rRNA经典鱼类引物对采集自三级潮沟系统的水样进行高通量测序, 共检测出鱼类55种, 其中本地鱼类27种、非本地鱼类28种, 物种组成以鲈形目为主。各样点序列丰度均较高的鱼类有矛尾刺虾虎鱼(Acanthogobius hasta)、鮻(Planiliza haematocheilus)、长体刺虾虎鱼(Acanthogobius elongatus)等。鱼类多样性在不同水文连通性潮沟间差异明显, 其中, 二级潮沟群落多样性水平、丰富度指数、物种种类及各种鱼类类群中的个体均匀程度等都明显高于其他两级潮沟。RDA分析显示有6种环境因子与鱼类群落结构显著相关(P < 0.05), 分别为: 硅酸盐(SiO₃^2--Si)、硝酸盐(NO₃^--N)、酸碱度(pH值)、盐度(SAL)、铵盐(NH₄⁺-N)、溶解氧(DO)。其中, 优势种矛尾刺虾虎鱼的序列丰度与硅酸盐呈正相关, 鮻的序列丰度与盐度呈负相关。本研究通过与传统采样数据进行比较, 证实了环境DNA宏条形码技术用于监测黄河口典型潮沟水体中鱼类多样性的可行性, 表明潮沟系统水文连通性对鱼类群落结构及多样性均具有明显的影响, 研究结果有助于进一步了解滨海湿地水文连通对生物群落的影响机制。

关键词: 环境DNA宏条形码, 鱼类多样性, 水文连通, 黄河三角洲, 潮沟系统

Abstract

Aims: Hydrological connectivity is essential for maintaining biodiversity in coastal wetlands, and it is important to understand the response of fish diversity, as a major component of biodiversity, to different hydrological connectivity intensities. This study aimed to investigate the response of fish diversity to hydrological connectivity in the typical tidal creek system and verify the applicability of eDNA metabarcoding for monitoring and conserving fish diversity in the Yellow River Delta.

Methods: Water samples were collected from six sites in a typical tidal creek system in the Yellow River Delta in September 2022. Fish diversity was analyzed by using eDNA metabarcoding, in which, eDNA extracted from the water samples source were amplified by PCR using the 12S rRNA classical fish primers MiFish-E and high-throughput sequencing was performed by Illumina Miseq. The OTU representative sequences were aligned to the NCBI nucleotide sequence database to obtain species taxonomic annotation information. Thirteen environmental physicochemical indicators were measured in the water column. The relationship between fish communities and environmental factors was explored based on redundancy analysis.

Results: A total of 55 fish species were detected, including 27 native and 28 non-native fish species, and Perciformes dominated the fish composition. The fishes with high sequence abundance at each sample site included Acanthogobius hasta, Planiliza haematocheilu, Acanthogobius elongatus, etc. Fish diversity of the tidal creeks with different hydrological connectivity was different. Significantly higher community diversity and richness index, the highest number of species and a more even distribution of the number of individual species were found in the secondary tidal creek than in the other two tidal creeks. SiO₃^2--Si, NO₃^--N, pH, salinity, NH₄⁺-N, and dissolved oxygen were significantly correlated (P < 0.05) with fish community structure shown by RDA analysis. Acanthogobius hasta with higher sequence abundance was positively correlated with silicate, and the sequence abundance of Planiliza haematocheilus was negatively correlated with salinity.

Conclusion: This study confirmed the feasibility of using environmental DNA metabarcoding to monitor fish diversity of typical tidal water bodies in the Yellow River estuary by comparing it with previous traditional sampling data and indicated that hydrological connectivity of tidal creek systems has a significant impact on fish community structure and diversity. The results of this study are helpful to further understand the influence mechanism of coastal wetland hydrological connectivity on biological communities.

Key words: environmental DNA metabarcoding, fish diversity, hydrological connectivity, the Yellow River Delta, tidal creek system

董志远, 陈琳琳, 张乃鹏, 陈莉, 孙德斌, 倪艳梅, 李宝泉 (2023) 基于环境DNA宏条形码技术研究黄河三角洲典型潮沟系统鱼类多样性及其对水文连通性的响应. 生物多样性, 31, 23073. DOI: 10.17520/biods.2023073.

Zhiyuan Dong, Linlin Chen, Naipeng Zhang, Li Chen, Debin Sun, Yanmei Ni, Baoquan Li (2023) Response of fish diversity to hydrological connectivity of typical tidal creek system in the Yellow River Delta based on environmental DNA metabarcoding. Biodiversity Science, 31, 23073. DOI: 10.17520/biods.2023073.

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链接本文: https://www.biodiversity-science.net/CN/10.17520/biods.2023073

https://www.biodiversity-science.net/CN/Y2023/V31/I7/23073

图/表 9

参考文献 63

[1]	Balasingham KD, Walter RP, Mandrak NE, Heath DD (2018) Environmental DNA detection of rare and invasive fish species in two Great Lakes tributaries. Molecular Ecology, 27, 112-127. DOI PMID
[2]	Chen WF, Zhou WZ, Shi YX (2003) Crisis of wetlands in the Yellow River Delta and its protection. Journal of Agro-Environmental Science, 22, 499-502. (in Chinese with English abstract)
	[陈为峰, 周维芝, 史衍玺 (2003) 黄河三角洲湿地面临的问题及其保护. 农业环境科学学报, 22, 499-502.]
[3]	Connell JH (1978) High diversity of trees and corals is maintained only in a nonequilibrium state. Science, 199, 1302-1310. DOI PMID
[4]	Creer S, Deiner K, Frey S, Porazinska D, Taberlet P, Thomas WK, Potter C, Bik HM (2016) The ecologist's field guide to sequence-based identification of biodiversity. Methods in Ecology and Evolution, 7, 1008-1018. DOI URL
[5]	Cui BS, Cai YZ, Xie T, Ning ZH, Hua YY (2016) Ecological effects of wetland hydrological connectivity: Problems and prospects. Journal of Beijing Normal University (Natural Science), 52, 738-746. (in Chinese with English abstract)
	[崔保山, 蔡燕子, 谢湉, 宁中华, 华妍妍 (2016) 湿地水文连通的生态效应研究进展及发展趋势. 北京师范大学学报(自然科学版), 52, 738-746.]
[6]	Deiner K, Bik HM, Mächler E, Seymour M, Lacoursière- Roussel A, Altermatt F, Creer S, Bista I, Lodge DM, de Vere N, Pfrender ME, Bernatchez L (2017) Environmental DNA metabarcoding: Transforming how we survey animal and plant communities. Molecular Ecology, 26, 5872-5895. DOI PMID
[7]	Dong R, Wang YY, Lü C, Lei GC, Xue BL, Chen QK (2020) Effects of hydrological connectivity on the community structure of macrobenthos in West Dongting Lake. Acta Ecologica Sinica, 40, 8336-8346. (in Chinese with English abstract)
	[董芮, 王玉玉, 吕偲, 雷光春, 薛彬林, 陈乾阔 (2020) 水文连通性对西洞庭湖大型底栖动物群落结构的影响. 生态学报, 40, 8336-8346.]
[8]	Evangelisti M, D'Amelia D, Di Lallo GD, Thaller MC, Migliore L (2013) The relationship between salinity and bacterioplankton in three relic coastal ponds (Macchiatonda Wetland, Italy). Journal of Water Resource and Protection, 5, 859-866. DOI URL
[9]	Evans NT, Olds BP, Renshaw MA, Turner CR, Li YY, Jerde CL, Mahon AR, Pfrender ME, Lamberti GA, Lodge DM (2016) Quantification of mesocosm fish and amphibian species diversity via environmental DNA metabarcoding. Molecular Ecology Resources, 16, 29-41. DOI PMID
[10]	Fan HY, Ji YP, Zhang SH, Yuan CT, Gao TX (2005) Research of fishery biology of the neritic fish Synechogobius ommaturus in the area of the Huanghe Delta. Periodical of Ocean University of China (Natural Science), 35, 733-736. (in Chinese with English abstract)
	[范海洋, 纪毓鹏, 张士华, 苑春亭, 高天翔 (2005) 黄河三角洲斑尾复虾虎鱼渔业生物学的研究. 中国海洋大学学报(自然科学版), 35, 733-736.]
[11]	Freeman MC, Pringle CM, Jackson CR (2007) Hydrologic connectivity and the contribution of stream headwaters to ecological integrity at regional scales. Journal of the American Water Resources Association, 43, 5-14. DOI URL
[12]	Gao XC, Jiang W (2021) The construction and application of BLAST database of DNA barcode for common fish in the Three Gorges Reservoir. Genomics and Applied Biology, 40, 1952-1960. (in Chinese with English abstract)
	[郜星辰, 姜伟 (2021) 三峡库区常见鱼类DNA条形码本地BLAST数据库的构建和应用. 基因组学与应用生物学, 40, 1952-1960.]
[13]	Garwood JA, Allen DM, Kimball ME, Boswell KM (2019) Site fidelity and habitat use by young-of-the-year transient fishes in salt marsh intertidal creeks. Estuaries and Coasts, 42, 1387-1396. DOI
[14]	Jardine TD, Pettit NE, Warfe DM, Pusey BJ, Ward DP, Douglas MM, Davies PM, Bunn SE (2012) Consumer-resource coupling in wet-dry tropical rivers. Journal of Animal Ecology, 81, 310-322. DOI PMID
[15]	Ji FF, Han DY, Yan L, Yan SH, Zha JM, Shen JZ (2022) Assessment of benthic invertebrate diversity and river ecological status along an urbanized gradient using environmental DNA metabarcoding and a traditional survey method. Science of the Total Environment, 806, 150587. DOI URL
[16]	Jiang PW, Li M, Zhang S, Chen ZZ, Xu SN (2022) Investigating the fish diversity in Pearl River Estuary based on environmental DNA metabarcoding and bottom trawling. Acta Hydrobiologica Sinica, 46, 1701-1711. (in Chinese with English abstract)
	[蒋佩文, 李敏, 张帅, 陈作志, 徐姗楠 (2022) 基于环境DNA宏条码和底拖网的珠江河口鱼类多样性. 水生生物学报, 46, 1701-1711.]
[17]	Jiang WZ, Sui KG (2015) Study on ecological pond aquaculture technology of Tachysurus fulvidraco in saline-alkali land. Hebei Fisheries, (11), 32-33. (in Chinese)
	[蒋万钊, 隋凯港 (2015) 盐碱地黄颡鱼池塘生态养殖技术研究. 河北渔业, (11), 32-33.]
[18]	Jo TS (2023) Correlation between the number of eDNA particles and species abundance is strengthened by warm temperature: Simulation and meta-analysis. Hydrobiologia, 850, 39-50. DOI
[19]	Knight R, Vrbanac A, Taylor BC, Aksenov A, Callewaert C, Debelius J, Gonzalez A, Kosciolek T, McCall LI, McDonald D, Melnik AV, Morton JT, Navas J, Quinn RA, Sanders JG, Swafford AD, Thompson LR, Tripathi A, Xu ZZJ, Zaneveld JR, Zhu QY, Caporaso JG, Dorrestein PC (2018) Best practices for analysing microbiomes. Nature Reviews Microbiology, 16, 410-422. DOI PMID
[20]	Kume M, Lavergne E, Ahn H, Terashima Y, Kadowaki K, Ye F, Kameyama S, Kai Y, Henmi YM, Yamashita Y, Kasai A (2021) Factors structuring estuarine and coastal fish communities across Japan using environmental DNA metabarcoding. Ecological Indicators, 121, 107216. DOI URL
[21]	Lamb PD, Fonseca VG, Maxwell DL, Nnanatu CC (2022) Systematic review and meta-analysis: Water type and temperature affect environmental DNA decay. Molecular Ecology Resources, 22, 2494-2505. DOI PMID
[22]	Li DX, Li YQ, Zhang KH, Ma X, Zhang SY, Liu WH, Che CG, Cui BS (2020) Characteristics of carbon and nitrogen distribution in typical tidal creeks of the Yellow River Delta. Journal of Natural Resources, 35, 460-471. (in Chinese with English abstract) DOI URL
	[李冬雪, 李雨芩, 张珂豪, 马旭, 张树岩, 刘伟华, 车纯广, 崔保山 (2020) 黄河口典型潮沟土壤碳氮分布特征规律. 自然资源学报, 35, 460-471.] DOI
[23]	Li F, Lü ZB, Wei ZH, Wang TT, Xu BQ, Wang ZQ (2013) Seasonal changes in the community structure of the demersal fishery in Laizhou Bay. Journal of Fishery Sciences of China, 20, 137-147. (in Chinese with English abstract) DOI URL
	[李凡, 吕振波, 魏振华, 王田田, 徐炳庆, 王忠全 (2013) 2010年莱州湾底层渔业生物群落结构及季节变化. 中国水产科学, 20, 137-147.]
[24]	Li F, Xu BQ, Lü ZB, Wang TT (2018) Ecological niche of dominant species of fish assemblages in Laizhou Bay, China. Acta Ecologica Sinica, 38, 5195-5205. (in Chinese with English abstract)
	[李凡, 徐炳庆, 吕振波, 王田田 (2018) 莱州湾鱼类群落优势种生态位. 生态学报, 38, 5195-5205.]
[25]	Li HT, Zou KS, Zhang S, Cao YT, Lu ZC, Chen ZZ, Li M (2022) Species composition of fishes in the Pearl River Estuary based on environmental DNA metabarcoding. Journal of Shanghai Ocean University, 31, 1423-1433. (in Chinese with English abstract)
	[李红婷, 邹柯姝, 张帅, 曹漪婷, 卢芷程, 陈作志, 李敏 (2022) 基于环境DNA宏条形码的珠江河口鱼类种类组成. 上海海洋大学学报, 31, 1423-1433.]
[26]	Li MD, Wang XL, Lü X (1997) Mullet. China Ocean Press, Beijing. (in Chinese)
	[李明德, 王秀玲, 吕宪 (1997) 梭鱼. 海洋出版社, 北京.]
[27]	Li W, Cui LJ, Zhao XS, Zhang MY, Ma MY, Kang XM, Wang YF (2014) An overview of Chinese coastal wetland and their ecosystem services. Forest Inventory and Planning, 39(4), 24-30. (in Chinese with English abstract)
	[李伟, 崔丽娟, 赵欣胜, 张曼胤, 马牧源, 康晓明, 王义飞 (2014) 中国滨海湿地及其生态系统服务功能研究概述. 林业调查规划, 39(4), 24-30.]
[28]	Liu J, Chen YX, Ma L (2015) Fishes of the Bohai Sea and Yellow Sea. Science Press, Beijing. (in Chinese)
	[刘静, 陈咏霞, 马琳 (2015) 黄渤海鱼类图志. 科学出版社, 北京.]
[29]	Luo M, Wang Q, Qiu DD, Shi W, Ning ZH, Cai YZ, Song ZF, Cui BS (2018) Hydrological connectivity characteristics and ecological effects of a typical tidal channel system in the Yellow River Delta. Journal of Beijing Normal University (Natural Science), 54, 17-24. (in Chinese with English abstract)
	[骆梦, 王青, 邱冬冬, 施伟, 宁中华, 蔡燕子, 宋振峰, 崔保山 (2018) 黄河三角洲典型潮沟系统水文连通特征及其生态效应. 北京师范大学学报(自然科学版), 54, 17-24.]
[30]	Ma QZ, Zhang TT, Zhao F, Zhang T, Yang G, Wang SK (2023) Effects of tidal creek connectivity on fish communities in the Yangtze estuary wetlands. Chinese Journal of Ecology, http://kns.cnki.net/kcms/detail/21.1148.Q.20230311.1446.006.html. (in Chinese with English abstract)
	[马巧珍, 张婷婷, 赵峰, 张涛, 杨刚, 王思凯 (2023) 长江口湿地潮沟连通程度对鱼类群落的影响. 生态学杂志, http://kns.cnki.net/kcms/detail/21.1148.Q.20230311.1446.006.html.]
[31]	Miya M, Gotoh RO, Sado T (2020) MiFish metabarcoding: A high-throughput approach for simultaneous detection of multiple fish species from environmental DNA and other samples. Fisheries Science, 86, 939-970. DOI
[32]	Miya M, Nishida M (2000) Use of mitogenomic information in teleostean molecular phylogenetics: A tree-based exploration under the maximum-parsimony optimality criterion. Molecular Phylogenetics and Evolution, 17, 437-455. PMID
[33]	Miya M, Sato Y, Fukunaga T, Sado T, Poulsen JY, Sato K, Minamoto T, Yamamoto S, Yamanaka H, Araki H, Kondoh M, Iwasaki W (2015) MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: Detection of more than 230 subtropical marine species. Royal Society Open Science, 2, 150088.
[34]	Murakami H, Yoon S, Kasai A, Minamoto T, Yamamoto S, Sakata MK, Horiuchi T, Sawada H, Kondoh M, Yamashita Y, Masuda R (2019) Dispersion and degradation of environmental DNA from caged fish in a marine environment. Fisheries Science, 85, 327-337. DOI
[35]	Nakagawa H, Yamamoto S, Sato Y, Sado T, Minamoto T, Miya M (2018) Comparing local- and regional-scale estimations of the diversity of stream fish using eDNA metabarcoding and conventional observation methods. Freshwater Biology, 63, 569-580. DOI URL
[36]	O'Donnell JL, Kelly RP, Shelton AO, Samhouri JF, Lowell NC, Williams GD (2017) Spatial distribution of environmental DNA in a nearshore marine habitat. PeerJ, 5, e3044.
[37]	Qu JY, Yang GMM, Fang Z, Chen XJ (2021) A review of research advancement on fisheries biology of Japanese Spanish Mackerel Scomberomorus niphonius. Fisheries Science, 40, 643-650. (in Chinese with English abstract)
	[瞿俊跃, 杨光明媚, 方舟, 陈新军 (2021) 蓝点马鲛渔业生物学研究进展. 水产科学, 40, 643-650.]
[38]	Sales NG, Wangensteen OS, Carvalho DC, Deiner K, Præbel K, Coscia I, McDevitt AD, Mariani S (2021) Space-time dynamics in monitoring neotropical fish communities using eDNA metabarcoding. Science of the Total Environment, 754, 142096. DOI URL
[39]	Sard NM, Herbst SJ, Nathan L, Uhrig G, Kanefsky J, Robinson JD, Scribner KT (2019) Comparison of fish detections, community diversity, and relative abundance using environmental DNA metabarcoding and traditional gears. Environmental DNA, 1, 368-384. DOI URL
[40]	Schofield KA, Alexander LC, Ridley CE, Vanderhoof MK, Fritz KM, Autrey BC, DeMeester JE, Kepner WG, Lane CR, Leibowitz SG, Pollard AI (2018) Biota connect aquatic habitats throughout freshwater ecosystem mosaics. Journal of the American Water Resources Association, 54, 372-399. DOI PMID
[41]	Shaw JLA, Clarke LJ, Wedderburn SD, Barnes TC, Weyrich LS, Cooper A (2016) Comparison of environmental DNA metabarcoding and conventional fish survey methods in a river system. Biological Conservation, 197, 131-138. DOI URL
[42]	Shen M, Guo NN, Luo ZL, Guo XC, Sun G, Xiao NW (2022) Explore the distribution and influencing factors of fish in major rivers in Beijing with eDNA metabarcoding technology. Biodiversity Science, 30, 22240. (in Chinese with English abstract) DOI
	[沈梅, 郭宁宁, 罗遵兰, 郭晓晨, 孙光, 肖能文 (2022) 基于eDNA metabarcoding探究北京市主要河流鱼类分布及影响因素. 生物多样性, 30, 22240.] DOI
[43]	Sousa WP (1979) Disturbance in marine intertidal boulder fields: The nonequilibrium maintenance of species diversity. Ecology, 60, 1225-1239. DOI URL
[44]	Strickler KM, Fremier AK, Goldberg CS (2015) Quantifying effects of UV-B, temperature, and pH on eDNA degradation in aquatic microcosms. Biological Conservation, 183, 85-92. DOI URL
[45]	Sun JF, Liu QZ (2010) Research on comprehensive development and utilization of geothermal resources in Dongying. Journal of Hebei Agricultural Sciences, 14(2), 91-93, 96. (in Chinese with English abstract)
	[孙金凤, 刘清志 (2010) 东营市地热资源综合开发与利用研究. 河北农业科学, 14(2), 91-93, 96.]
[46]	Sun PF, Shan XJ, Wu Q, Chen YL, Jin XS (2014) Seasonal variations in fish community structure in the Laizhou Bay and the Yellow River Estuary. Acta Ecologica Sinica, 34, 367-376. (in Chinese with English abstract)
	[孙鹏飞, 单秀娟, 吴强, 陈云龙, 金显仕 (2014) 莱州湾及黄河口水域鱼类群落结构的季节变化. 生态学报, 34, 367-376.]
[47]	Sun ZG, Mou XJ, Chen XB, Wang LL, Song HL, Jiang HH (2011) Actualities, problems and suggestions of wetland protection and restoration in the Yellow River Delta. Wetland Science, 9, 107-115. (in Chinese with English abstract)
	[孙志高, 牟晓杰, 陈小兵, 王玲玲, 宋红丽, 姜欢欢 (2011) 黄河三角洲湿地保护与恢复的现状、问题与建议. 湿地科学, 9, 107-115.]
[48]	Thomsen PF, Kielgast J, Iversen LL, Møller PR, Rasmussen M, Willerslev E (2012a) Detection of a diverse marine fish fauna using environmental DNA from seawater samples. PLoS ONE, 7, e41732.
[49]	Thomsen PF, Kielgast J, Iversen LL, Wiuf C, Rasmussen M, Gilbert MTP, Orlando L, Willerslev E (2012b) Monitoring endangered freshwater biodiversity using environmental DNA. Molecular Ecology, 21, 2565-2573. DOI URL
[50]	Tsuji S, Takahara T, Doi H, Shibata N, Yamanaka H,(2019) The detection of aquatic macroorganisms using environmental DNA analysis—A review of methods for collection, extraction, and detection. Environmental DNA, 1, 99-108. DOI URL
[51]	Valentini A, Taberlet P, Miaud C, Civade R, Herder J, Thomsen PF, Bellemain E, Besnard A, Coissac E, Boyer F, Gaboriaud C, Jean P, Poulet N, Roset N, Copp GH, Geniez P, Pont D, Argillier C, Baudoin JM, Peroux T, Crivelli AJ, Olivier A, Acqueberge M, Le Brun M, Møller PR, Willerslev E, Dejean T (2016) Next-generation monitoring of aquatic biodiversity using environmental DNA metabarcoding. Molecular Ecology, 25, 929-942. DOI PMID
[52]	Wang P, Jiao Y, Ren YP, Zhong CJ, Yu H (1999) Investigation of biodiversity from spring catch in coastal waters of Laizhou Bay and Huanghe Estuary. Transaction of Oceanology and Limnology, (1), 40-44. (in Chinese with English abstract)
	[王平, 焦燕, 任一平, 仲崇俊, 于浩 (1999) 莱州湾、黄河口水域春季近岸渔获生物多样性特征的调查研究. 海洋湖沼通报, (1), 40-44.]
[53]	Wang RX, Yang G, Geng Z, Zhao F, Feng XS, Zhang T (2023) Application of environmental DNA technology in fish diversity analysis in the Yangtze River estuary. Acta Hydrobiologica Sinica, 47, 365-375. (in Chinese with English abstract)
	[王汝贤, 杨刚, 耿智, 赵峰, 冯雪松张涛 (2023) 环境DNA技术在长江口鱼类多样性分析中的应用. 水生生物学报, 47, 365-375.]
[54]	Wang XY, Yan JG, Bai JH, Cui BS (2019) Influence of hydrological connectivity of coastal wetland on the biological connectivity of macrobenthos in the Yellow River Estuary. Journal of Natural Resources, 34, 2544-2553. (in Chinese with English abstract) DOI URL
	[王新艳, 闫家国, 白军红, 崔保山 (2019) 黄河口滨海湿地水文连通对大型底栖动物生物连通的影响. 自然资源学报, 34, 2544-2553.] DOI
[55]	Yamamoto S, Masuda R, Sato Y, Sado T, Araki H, Kondoh M, Minamoto T, Miya M (2017) Environmental DNA metabarcoding reveals local fish communities in a species-rich coastal sea. Scientific Reports, 7, 40368. DOI PMID
[56]	Yamamoto S, Minami K, Fukaya K, Takahashi K, Sawada H, Murakami H, Tsuji S, Hashizume H, Kubonaga S, Horiuchi T, Hongo M, Nishida J, Okugawa Y, Fujiwara A, Fukuda M, Hidaka S, Suzuki KW, Miya M, Araki H, Yamanaka H, Maruyama A, Miyashita K, Masuda R, Minamoto T, Kondoh M (2016) Environmental DNA as a ‘snapshot' of fish distribution: A case study of Japanese Jack Mackerel in Maizuru Bay, Sea of Japan. PLoS ONE, 11, e0149786.
[57]	Yin S, Bai JH, Wang X, Wang XY, Zhang GL, Jia J, Li XW, Liu XH (2020) Hydrological connectivity and herbivores control the autochthonous producers of coastal salt marshes. Marine Pollution Bulletin, 160, 111638. DOI URL
[58]	Yuan J, Cohen MJ, Kaplan DA, Acharya S, Larsen LG, Nungesser MK (2015) Linking metrics of landscape pattern to hydrological process in a lotic wetland. Landscape Ecology, 30, 1893-1912. DOI URL
[59]	Zhan AB, Hulák M, Sylvester F, Huang XT, Adebayo AA, Abbott CL, Adamowicz SJ, Heath DD, Cristescu ME, MacIsaac HJ (2013) High sensitivity of 454 pyrosequencing for detection of rare species in aquatic communities. Methods in Ecology and Evolution, 4, 558-565. DOI URL
[60]	Zhang DY, Chai XJ, Ruan ZC, Zhang Y, Wang YB (2020) Effects of long time low salinity on the growth and physiology in the juvenile of Liza haematocheila. Journal of Zhejiang Ocean University (Natural Science), 39, 296-302. (in Chinese with English abstract)
	[张鼎元, 柴学军, 阮泽超, 张燕, 王跃斌 (2020) 长期低盐胁迫对梭鱼生长及生理的影响. 浙江海洋大学学报(自然科学版), 39, 296-302.]
[61]	Zhang XX, Yao QZ, Chen HT, Mi TZ, Tan JQ, Yu ZG (2010) Seasonal variation and fluxes of nutrients in the lower reaches of the Yellow River. Periodical of Ocean University of China, 40(7), 82-88. (in Chinese with English abstract)
	[张晓晓, 姚庆祯, 陈洪涛, 米铁柱, 谭加强, 于志刚 (2010) 黄河下游营养盐浓度季节变化及其入海通量研究. 中国海洋大学学报(自然科学版), 40(7), 82-88.]
[62]	Zhao XY, Li X, Yu M, Yu JB, Wang XH (2019) Actualities of wetland hydrological connectivity blocked in the Yellow River Delta. Regional Governance, (49), 78-81. (in Chinese)
	[赵心怡, 李晓, 于淼, 于君宝, 王雪宏 (2019) 黄河三角洲湿地水文连通受阻现状. 区域治理, (49), 78-81.]
[63]	Zou KS, Chen JW, Ruan HT, Li ZH, Guo WJ, Li M, Liu L (2020) eDNA metabarcoding as a promising conservation tool for monitoring fish diversity in a coastal wetland of the Pearl River Estuary compared to bottom trawling. Science of the Total Environment, 702, 134704. DOI URL

变量 Variable	潮沟级别 Tidal creek level
变量 Variable	一级潮沟 The first-class tidal creek (S1)	二级潮沟 The second-class tidal creek (S2)	三级潮沟 The third-class tidal creek (S3)
总氮 TN (μg/L)	351.893 ± 4.857^b	361.896 ± 11.934^ab	389.191 ± 19.168^a
总磷 TP (μg/L)	15.116 ± 1.175^a	12.586 ± 0.580^b	14.975 ± 0.715^a
磷酸盐 PO₄^3--P (mg/L)	0.033 ± 0.029^a	0.008 ± 0.002^ab	0.004 ± 0.001^b
铵盐 NH₄⁺-N (mg/L)	0.039 ± 0.012^a	0.036 ± 0.004^a	0.170 ± 0.121^b
亚硝酸盐 NO₂^--N (mg/L)	0.019 ± 0.003^b	0.024 ± 0.004^ab	0.027 ± 0.004^a
硅酸盐 SiO₃^2--Si (mg/L)	0.675 ± 0.052^b	0.690 ± 0.107^ab	0.964 ± 0.222^a
硝酸盐 NO₃^--N (mg/L)	0.265 ± 0.041^a	0.238 ± 0.018^a	0.193 ± 0.017^b
温度 T (℃)	21.800 ± 1.595^b	21.450 ± 0.321^b	26.233 ± 2.850^a
溶解氧 DO (mg/L)	7.998 ± 0.804^a	6.692 ± 0.315^b	6.067 ± 1.143^b
电导率 SPC (ms/cm)	26.412 ± 0.245^b	32.538 ± 1.752^ab	36.300 ± 1.715^a
盐度 SAL	16.185 ± 0.170^b	20.362 ± 1.202^ab	22.903 ± 1.121^a
酸碱度 pH	8.408 ± 0.012^a	8.385 ± 0.021^ab	8.248 ± 0.026^b
氧化还原电位 Eh	-71.950 ± 1.104^a	-70.583 ± 1.087^a	-64.033 ± 1.219^b

变量 Variable	潮沟级别 Tidal creek level
变量 Variable	一级潮沟 The first-class tidal creek (S1)	二级潮沟 The second-class tidal creek (S2)	三级潮沟 The third-class tidal creek (S3)
总氮 TN (μg/L)	351.893 ± 4.857^b	361.896 ± 11.934^ab	389.191 ± 19.168^a
总磷 TP (μg/L)	15.116 ± 1.175^a	12.586 ± 0.580^b	14.975 ± 0.715^a
磷酸盐 PO₄^3--P (mg/L)	0.033 ± 0.029^a	0.008 ± 0.002^ab	0.004 ± 0.001^b
铵盐 NH₄⁺-N (mg/L)	0.039 ± 0.012^a	0.036 ± 0.004^a	0.170 ± 0.121^b
亚硝酸盐 NO₂^--N (mg/L)	0.019 ± 0.003^b	0.024 ± 0.004^ab	0.027 ± 0.004^a
硅酸盐 SiO₃^2--Si (mg/L)	0.675 ± 0.052^b	0.690 ± 0.107^ab	0.964 ± 0.222^a
硝酸盐 NO₃^--N (mg/L)	0.265 ± 0.041^a	0.238 ± 0.018^a	0.193 ± 0.017^b
温度 T (℃)	21.800 ± 1.595^b	21.450 ± 0.321^b	26.233 ± 2.850^a
溶解氧 DO (mg/L)	7.998 ± 0.804^a	6.692 ± 0.315^b	6.067 ± 1.143^b
电导率 SPC (ms/cm)	26.412 ± 0.245^b	32.538 ± 1.752^ab	36.300 ± 1.715^a
盐度 SAL	16.185 ± 0.170^b	20.362 ± 1.202^ab	22.903 ± 1.121^a
酸碱度 pH	8.408 ± 0.012^a	8.385 ± 0.021^ab	8.248 ± 0.026^b
氧化还原电位 Eh	-71.950 ± 1.104^a	-70.583 ± 1.087^a	-64.033 ± 1.219^b

样品名称 Sample name	序列条数 Sequences	碱基数 Bases (bp)	平均读长 Average length (bp)
S1S	500,311	85,254,665	170.40
S1X	500,256	84,418,677	168.75
S2S	471,672	80,731,476	171.16
S2X	479,424	81,634,922	170.28
S3S	556,415	93,868,748	168.70
S3X	614,037	103,314,806	168.26

样品名称 Sample name	序列条数 Sequences	碱基数 Bases (bp)	平均读长 Average length (bp)
S1S	500,311	85,254,665	170.40
S1X	500,256	84,418,677	168.75
S2S	471,672	80,731,476	171.16
S2X	479,424	81,634,922	170.28
S3S	556,415	93,868,748	168.70
S3X	614,037	103,314,806	168.26

	目 Order	科 Family	种 Species
本地鱼类物种	鲽形目 Pleuronectiformes	舌鳎科 Cynoglossidae	短吻红舌鳎 Cynoglossus joyneri
Native fish species	鲱形目 Clupeiformes	鲱科 Dorosomatidae	青鳞小沙丁鱼 Sardinella zunasi
			斑鰶 Konosirus punctatus
		鳀科 Engraulidae	赤鼻棱鳀 Thryssa kammalensis
			鳀 Engraulis japonicus
			凤鲚 Coilia mystus
	颌针鱼目 Beloniforme	鱵科 Hemiramphidae	间下鱵 Hyporhamphus intermedius
	胡瓜鱼目 Osmeriformes	胡瓜鱼科 Osmeridae	西太公鱼 Hypomesus nipponensis
	鲈形目 Perciformes	花鲈科 Lateolabracidae	花鲈 Lateolabrax japonicus
		蓝子鱼科 Siganidae	褐蓝子鱼 Siganus fuscescens
		鲹科 Carangidae	吉打副叶鲹 Alepes djedaba
		石首鱼科 Sciaenidae	小黄鱼 Larimichthys polyactis
		鱚科 Sillaginidae	少鳞鱚 Sillago japonica
		虾虎鱼科 Gobiidae	矛尾刺虾虎鱼 Acanthogobius hasta
			长体刺虾虎鱼 Acanthogobius elongatus
			矛尾虾虎鱼 Chaeturichthys stigmatias
			七棘裸身虾虎鱼 Gymnogobius heptacanthus
			普氏细棘虾虎鱼 Acentrogobius pflaumii
			六丝钝尾虾虎鱼 Amblychaeturichthys hexanema
			棕刺虾虎鱼 Acanthogobius luridus
			拉氏狼牙虾虎鱼 Odontamblyopus lacepedii
	鳗鲡目 Anguilliformes	康吉鳗科 Congridae	星康吉鳗 Conger myriaster
	鳐形目 Rajiformes	鳐科 Rajidae	斑鳐 Okamejei kenojei
	鲉形目 Scorpaeniformes	六线鱼科 Hexagrammidae	大泷六线鱼 Hexagrammos otakii
		鲬科 Platycephalidae	鲬 Platycephalus indicus
	鲻形目 Mugiliformes	鲻科 Mugilidae	鮻 Planiliza haematocheilus
			鲻 Mugil cephalus
非本地鱼类物种	鲱形目 Clupeiformes	鲱科 Clupeidae	隆背小沙丁鱼 Sardinella gibbosa
Non-native fish species			花点鲥 Hilsa kelee
	鳉形目 Cyprinodontiformes	青鳉科 Oryziatidae	青鳉 Oryzias latipes
	鲤形目 Cypriniformes	鲤科 Cyprinidae	鲫 Carassius auratus
			似鳊 Pseudobrama simoni
			尖棘鱲 Zacco acutipinnis
			鲤 Cyprinus carpio
			温州光唇鱼 Acrossocheilus wenchowensis
			三角鲂 Megalobrama terminalis
			长鳍马口鱼 Opsariichthys evolans
			刺鲃 Spinibarbus caldwelli
			贝氏? Hemiculter bleekeri
		爬鳅科 Balitoridae	梅花山拟腹吸鳅 Pseudogastromyzon meihuashanensis
			原缨口鳅 Vanmanenia stenosoma
	鲈形目 Perciformes	金线鱼科 Nemipteridae	日本金线鱼 Nemipterus thosaporni
		丽鱼科 Cichlidae	齐氏非鲫 Coptodon zillii
			非鲫 Oreochromis mossambicus
			加利略帚齿非鲫 Sarotherodon galilaeus
			尼罗非鲫 Oreochromis niloticus
		雀鲷科 Pomacentridae	白带金翅雀鲷 Chrysiptera brownriggii
		塘鳢科 Eleotridae	刺盖塘鳢 Eleotris acanthopomus
		虾虎鱼科 Gobiidae	波氏吻虾虎鱼 Rhinogobius cliffordpopei
			雀斑吻虾虎鱼 Rhinogobius lentiginis
			名古屋吻虾虎鱼 Rhinogobius nagoyae
			武义吻虾虎鱼 Rhinogobius wuyiensis
	鲇形目 Siluriformes	鲿科 Bagridae	黄颡鱼 Tachysurus fulvidraco
		鲇科 Siluridae	怀头鲇 Silurus soldatovi
		甲鲇科 Loricariidae	豹纹脂身鲇 Pterygoplichthys pardalis

基于环境DNA宏条形码技术研究黄河三角洲典型潮沟系统鱼类多样性及其对水文连通性的响应

Response of fish diversity to hydrological connectivity of typical tidal creek system in the Yellow River Delta based on environmental DNA metabarcoding

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采样站点 Sampling station	观察物种数 Observed species	ACE指数 ACE index	Chao 1指数 Chao 1 index	Shannon指数 Shannon index	Simpson指数 Simpson index	测序深度指数 Good's coverage
S1S	325	328.28	328.11	3.95	0.84	0.999977
S1X	327	329.57	328.62	3.14	0.62	0.999980
S2S	324	335.00	350.25	4.44	0.87	0.999958
S2X	316	325.00	323.50	3.25	0.73	0.999958
S3S	325	337.51	335.69	3.60	0.78	0.999946
S3X	288	302.85	302.88	3.64	0.81	0.999935

	排序轴 Axes
	1	2	3	4
特征值 Eigenvalues	0.62	0.251	0.046	0.028
相关系数 Species-environment correlations	0.969	0.992	0.986	0.947
物种数据累积百分比方差 Cumulative percentage variance of species data (%)	62	87.2	91.8	94.7
物种-环境关系累积百分比方差 Cumulative percentage variance of species-environment relation (%)	65.3	91.7	96.6	99.6
总特征值 Sum of all eigenvalues	1
总特征值 Sum of all eigenvalues	1	总典范特征值 Sum of all canonical eigenvalues	0.951

[1]	倪艳梅, 陈莉, 董志远, 孙德斌, 李宝泉, 王绪敏, 陈琳琳. 黄河三角洲湿地生态修复区大型底栖动物群落结构与生态健康评价[J]. 生物多样性, 2024, 32(3): 23303-.
[2]	高欣, 赵亚辉, 田菲, 王晓爱, 黎明政, 林鹏程, 常涛, 俞丹, 刘焕章. 中国内陆水体鱼类多样性监测专项网的监测和研究进展[J]. 生物多样性, 2023, 31(12): 23427-.
[3]	李宝泉, 姜少玉, 吕卷章, 陈琳琳, 闫朗, 刘春云, 李晓静, 宋博, 李新正. 黄河三角洲潮间带及近岸浅海大型底栖动物物种组成及长周期变化[J]. 生物多样性, 2020, 28(12): 1511-1522.
[4]	周伟, 李明会, 李有兰. 滇西南四个自然保护区鱼类多样性及评价指标探究[J]. 生物多样性, 2016, 24(3): 313-320.
[5]	曹铭昌, 刘高焕, 单凯, 侯银蓄, 王明春, 李东来, 申文明. 基于多尺度的丹顶鹤生境适宜性评价——以黄河三角洲自然保护区为例[J]. 生物多样性, 2010, 18(3): 283-291.
[6]	田家怡, 潘怀剑, 傅荣恕. 黄河三角洲土壤动物多样性初步调查研究[J]. 生物多样性, 2001, 09(3): 228-236.
[7]	杨君兴, 陈银瑞, 何远辉. 滇中高原湖泊鱼类多样性的研究*[J]. 生物多样性, 1994, 02(4): 204-209.