基于COⅠ基因序列的长腹剑水蚤系统进化关系

王兴霞; 徐磊; 王亮根; 陈骁; 郑媛媛; 王雪辉; 杜飞雁

doi:10.3969/j.issn.0253-4193.2018.06.009

基于COⅠ基因序列的长腹剑水蚤系统进化关系

doi: 10.3969/j.issn.0253-4193.2018.06.009

1.
中国水产科学研究院南海水产研究所, 广东广州 510300;上海海洋大学海洋科学学院, 上海 201306
2.
中国水产科学研究院南海水产研究所, 广东广州 510300;广东省渔业生态环境重点实验室, 广东广州 510300;农业部南海渔业资源开发利用重点实验室, 广东广州 510300
3.
华南农业大学海洋学院, 广东广州 510642
4.
中国水产科学研究院南海水产研究所, 广东广州 510300;汕头大学理学院, 广东汕头 515063

基金项目: 国家自然科学基金项目（41406188）；中国水产科学研究院南海水产研究所中央级公益性科研院所基本科研业务费专项资金资助（2016TS24，2017YB26）；国家科技支撑计划项目（2013BAD13B06）；农业部财政重大专项（NFZX2013）。

计量
- 文章访问数: 758
- HTML全文浏览量: 32
- PDF下载量: 711
- 被引次数: 0
出版历程
- 收稿日期: 2017-10-22
- 修回日期: 2018-01-08

Molecular Phylogenetic of Oithona based on COⅠ sequence

1.
South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China;College of Marine Sciences, Shanghai Ocean University, Shanghai 201306, China
2.
South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China;Guangdong Provincial Key Laboratory of Fishery Ecology and Environment, Guangzhou 510300, China;Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture, Guangzhou 510300, China
3.
College of Marine Sciences, South China Agricultural University, Guangzhou 510642, China
4.
South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China;Department of Biology, College of Science, Shantou University, Shantou 515063, China

摘要

摘要: 长腹剑水蚤属（Oithona）是广泛分布于海洋近岸和外海海域的中小型桡足类中最为丰富的类群之一，由于个体小且形态差异微小，通过传统的形态学分类法对其进行准确鉴定难度较大。本文对南海分布的长腹剑水蚤属内的5个种，即瘦长腹剑水蚤（O.tenuis）、羽长腹剑水蚤（O.plumifera）、刺长腹剑水蚤（O.setigera）、伪长腹剑水蚤（O.fallax）和长刺长腹剑水蚤（O.longispina）线粒体COⅠ基因序列以及DNA数据库中长腹剑水蚤属其他地区种类COⅠ基因序列进行比较分析，使用ABGD （Automatic Barcode Gap Discovery）和GMYC （Generalized Mixed Yule Coalescent）模型进行物种界定，分析种间种内遗传距离，并构建系统进化关系。结果显示ABGD和GMYC模型均可以很好地对长腹剑水蚤进行种类划分；种内遗传距离为0.0%~1.6%，种间遗传距离为17.7%~44.5%（Kimura 2-parameter双参数模型），表明种间出现较高的分化；贝叶斯系统树和最大似然树进化树结果均表明，简长腹剑水蚤（O.simplex）与其他种类相距较远，羽长腹剑水蚤和拟长腹剑水蚤（O.similis）中存在隐种的分化，分别是我国南海海域和地中海的羽长腹剑水蚤以及朝鲜海峡和北海的拟长腹剑水蚤，种间遗传距离分别为18.6%、22.9%。
- 系统进化 /
- 长腹剑水蚤 /
- COⅠ基因 /
- DNA分类
Abstract: The genus Oithona is one of small size cyclopoid copepods which widely distributed and occurs in all kinds of marine environments (estuarine, coastal and oceanic waters). However, routine identification of the species has remained challenging due to the small body size and subtle morphological differences among them. We started with a survey of species diversity in the genus Oithona in the South China Sea using a morphological approach, then obtained sequences from mitochondrial COⅠ gene from several individuals of different species, performed tests on DNA taxonomy (ABGD and GMYC) and built a phylogenetic tree with the same gene sequence data download from DNA database. The results of delimitation using ABGD and GMYC model were consistent with morphological approach. The genetic distance within species was 0.0%-1.6% while 17.7%-44.5% between species. Both Bayes and Maximum Likelihood phylogenetic tree showed that each species was clustered together as a monophyletic group. O.simplex first separated from others species indicated pioneer speciation in Oithona. Two cryptic species were found in O.similis and O.plumifera, which were from the South China Sea and Mediterranean, Korea Strait and North Sea, respectively the genetic distance reached to 18.6% and 22.9%.
- Phylogenetic /
- Oithona /
- COⅠ gene /
- DNA taxonomy

HTML全文

参考文献(47)

Ferrari F D, Huys R, Boxshall G A. Copepod evolution[J]. Journal of Crustacean Biology, 1992, 12(4):731.

徐兆礼. 中国海洋浮游动物研究的新进展[J]. 厦门大学学报:自然科学版, 2006, 45(S2):16-23. Xu Zhaoli. Advance and future of our study on marine zooplankton[J]. Journal of Xiamen University:Natural Science, 2006, 45(S2):16-23.

张武昌, 张翠霞, 肖天. 海洋浮游生态系统中小型浮游动物的生态功能[J]. 地球科学进展, 2009, 24(11):1195-1201. Zhang Wuchang, Zhang Cuixia, Xiao Tian. Role of microzooplankton in marine planktonic ecosystem[J]. Advances in Earth Science, 2009, 24(11):1195-1201.

王荣, 张鸿雁, 王克, 等. 小型桡足类在海洋生态系统中的功能作用[J]. 海洋与湖沼, 2002, 33(5):453-460. Wang Rong, Zhang Hongyan, Wang Ke, et al. Function performed by small copepods in marine ecosystem[J]. Oceanologia et Limnologia Sinica, 2002, 33(5):453-460.

张武昌,张翠霞,肖天. 海洋浮游生态系统中小型浮游动物的生态功能[J]. 地球科学进展, 2009, 24(11):1197-1201. Zhang Wuchang, Zhang Cuixia, Xiao Tian. Role of microzooplankton in marine planktonic ecosystem[J]. Advances in Earth Science, 2009, 24(11):1197-1201.

刘光兴, 林坚. 遗传标记技术在海洋桡足类生物多样性和系统发生研究中的应用[J]. 中国海洋大学学报, 2007, 37(1):33-37. Liu Guangxing, Lin Jian. Application of genetic marker technique to the study of systematics, biodiversity and phylogenetics for marine copepods[J]. Periodical of Ocean University of China, 2007, 37(1):33-37.

Bucklin A, Frost B W. Morphological and molecular phylogenetic analysis of evolutionary lineages within Clausocalanus (Copepoda:Calanoida)[J]. Journal of Crustacean Biology, 2009, 29(1):111-120.

Gallienne C P, Robins D B. Is Oithona the most important copepod in the world's oceans?[J]. Journal of Plankton Research, 2001, 23(12):1421-1432.

Lischka S, Hagen W. Seasonal lipid dynamics of the copepods Pseudocalanus minutus, (Calanoida) and Oithona similis, (Cyclopoida) in the Arctic Kongsfjorden (Svalbard)[J]. Marine Biology, 2007, 150(3):443-454.

杨关铭, 何德华, 王春生, 等. 台湾以北海域浮游桡足类生物海洋学特征的研究Ⅲ. 指示性种类[J]. 海洋学报, 2000, 22(1):93-101. Yang Guanming, He Dehua, Wang Chunsheng, et al. Study on the biological oceanographic characteristics of planktonic copepods in the waters north of Taiwan Province Ⅲ. Indicator species[J]. Hiayang Xuebao, 2000, 22(1):93-101.

Ueda H, Yamaguchi A, Saitoh S I, et al. Speciation of two salinity-associated size forms of Oithona dissimilis (Copepoda:Cyclopoida) in estuaries[J]. Journal of Natural History, 2011, 45(33/34):2069-2079.

Jungbluth M J, Lenz P H. Copepod diversity in a subtropical bay based on a fragment of the mitochondrial COⅠ gene[J]. Journal of Plankton Research, 2013, 35(3):630-643.

Cornils A, Wend-Heckmann B, Held C. Global phylogeography of Oithona similis, s. l. (Crustacea, Copepoda, Oithonidae)-A cosmopolitan plankton species or a complex of cryptic lineages?[J]. Molecular Phylogenetics and Evolution, 2017, 107:473-485.

张武昌, 赵楠, 陶振铖. 中国海浮游桡足类图谱[M]. 北京:科学出版社, 2010. Zhang Wuchang, Zhao Nan, Tao Zhencheng. Marine Planktonic Copepods in China Seas[M]. Beijing:Science Press, 2010.

Fransz H G, Gonzalez S R. The production of Oithona similis (Copepoda:Cyclopoida) in the Southern Ocean[J]. ICES Journal of Marine Science, 1995, 52(3/4):549-555.

孙松, 周克, 杨波, 等. 胶州湾浮游动物生态学研究Ⅰ. 种类组成[J]. 海洋与湖沼, 2008, 39(1):1-7. Sun Song, Zhou Ke, Yang Bo, et al. Ecology of zooplankton in the Jiaozhou Bay I. species composition[J]. Oceanologia et Limnologia Sinica, 2008, 39(1):1-7.

毕洪生, 孙松, 高尚武, 等. 渤海浮游动物群落生态特点Ⅰ. 种类组成与群落结构[J]. 生态学报, 2000, 20(5):715-721. Bi Hongsheng, Sun Song, Gao Shangwu, et al. The ecological charicteristics of the zooplankton community in the Bohai Sea I. species composition and community structure[J]. Acta Ecologica Sinica, 2000, 20(5):715-721.

方文东, 方国洪. 南海南部海洋环流研究的新进展[J]. 地球科学进展, 1998, 13(2):166-172. Fang Wendong, Fang Guohong. The recent progress in the study of the southern South China Sea circulation[J]. Advance in Earth Sciences, 1998, 13(2):166-172.

陈柏云. 南海浮游桡足类的分布[J]. 海洋通报, 1985, 4(4):47-52. Chen Boyun. The distribution of planktonic copepods in the South China Sea[J]. Marine Science Bulletin, 1985, 4(4):47-52.

杜飞雁, 王亮根, 王雪辉, 等. 南沙群岛海域长腹剑水蚤(Oithona spp.)的种类组成、数量分布及其与环境因子的关系[J]. 海洋与湖沼, 2016, 47(6):1176-1184. Du Feiyan, Wang Lianggen, Wang Huehui, et al. Assemblage and abundance of Oithona and environmental factors in NanSha islands waters, South China Sea[J]. Oceanologia et Limnologia Sinica, 2016, 47(6):1176-1184.

孙柔鑫, 王彦国, 连光山, 等. 海南岛西北沿岸海域浮游桡足类的分布及群落特征[J]. 生物多样性, 2014, 22(3):320-328. Sun Rouxin, Wang Yanguo, Lian Guangshan, et al. Distribution and community characteristics of planktonic copepods in the northwest coastal waters off Hainan island[J]. Biodiversity Science, 2014, 22(3):320-328.

李纯厚, 贾晓平, 蔡文贵. 南海北部浮游动物多样性研究[J]. 中国水产科学, 2004, 11(2):139-146. Li Chunhou, Jia Xiaoping, Cai Wengui. Diversity of marine zooplankton in the north of South China Sea[J]. Journal of Fishery Sciences of China, 2004, 11(2):139-146.

Wang Lianggen, Du Feiyan, Wang Xuehui, et al. Distribution and role of the genus Oithona, (Copepoda:Cyclopoida) in the South China Sea[J]. Oceanologia, 2017, 59(3):300-310.

Machida R J, Miya M U, Nishida M, et al. Large-scale gene rearrangements in the mitochondrial genomes of two calanoid copepods Eucalanus bungii and Neocalanus cristatus (Crustacea), with notes on new versatile primers for the srRNA and COI genes[J]. Gene, 2004, 332(22):71-78.

Fujisawa T, Barraclough T G. Delimiting species using single-locus data and the Generalized Mixed Yule Coalescent approach:a revised method and evaluation on simulated data sets[J]. Systematic Biology, 2013, 62(5):707-724.

Puillandre N, Lambert A, Brouillet S, et al. ABGD, Automatic Barcode gap discovery for primary species delimitation[J]. Molecular Ecology, 2012, 21(8):1864-1877.

Drummond A J, Suchard M A, Xie D, et al. Bayesian phylogenetics with BEAUti and the BEAST 1. 7[J]. Molecular Biology and Evolution, 2012, 29(8):1969-1973.

Huelsenbeck J P, Ronquist F, Nielsen R, et al. Bayesian inference of phylogeny and its impact on evolutionary biology[J]. Science, 2001, 294(5550):2310-2314.

Irestedt M, Fjeldså J, Nylander J A A, et al. Phylogenetic relationships of typical antbirds (Thamnophilidae) and test of incongruence based on Bayes factors[J]. BMC Evolutionary Biology, 2004, 4(1):23.

Akaike H. A new look at the statistical model identification[J]. IEEE Transactions on Automatic Control, 1974, 19(6):716-723.

Akaike H. Factor analysis and AIC[J]. Psychometrika, 1987, 52(3):317-332.

Posada D, Crandall K A. Selecting the best-fit model of nucleotide substitution[J]. Systematic Biology, 2001, 50(4):580-601.

Huelsenbeck J P, Ronquist F. MRBAYES:Bayesian inference of phylogenetic trees[J]. Bioinformatics, 2001, 17(8):754-755.

Guindon S, Dufayard J F, Lefort V, et al. New algorithms and methods to estimate Maximum-Likelihood phylogenies:Assessing the Performance of PhyML 3.0[J] Systematic Biology, 2010, 59(3):307-321.

Lanave C, Preparata G, Saccone C, et al. A new method for calculating evolutionary substitution rates[J]. Journal of Molecular Evolution, 1984, 20(1):86-93.

Hebert P D N, Cywinska A, Ball S L, et al. Biological identification through DNA barcodes[J]. Proceedings of the Royal Society Biological Sciences, 2003, 270(1512):313-321.

孙栋, 王春生. 深远海浮游动物生态学研究进展[J]. 生态学报, 2017, 37(10):3219-3231. Sun Dong, Wang Chunsheng. A review of open ocean zooplankton ecology[J]. Acta Ecologica Sinica, 2017, 37(10):3219-3231.

Bucklin A, Frost B, Bradford-Grieve J, et al. Molecular systematic and phylogenetic assessment of 34 calanoid copepod species of the Calanidae and Clausocalanidae[J]. Marine Biology, 2003, 142(2):333-343.

Hebert P D N, Ratnasingham S, De Waard J R. Barcoding animal life:cytochrome c oxidase subunit 1 divergences among closely related species[J]. Proceedings of the Royal Society B:Biological Sciences, 2003, 270(S1):96-99.

Costa F O, DeWaard J R, Boutillier J, et al. Biological identifications through DNA barcodes:the case of the Crustacea[J]. Canadian Journal of Fisheries and Aquatic Sciences, 2007, 64(2):272-295.

Baek S Y, Jang K H, Choi E H, et al. DNA Barcoding of Metazoan Zooplankton Copepods from South Korea[J]. PLoS One, 2016, 11(7):e0157307.

Ferrari F D, Orsi J. Oithona davisae, new species, and limnoithona sinensis (burckhardt, 1912) (copepoda:oithonidae) from the sacramento-san joaquin estuary, california[J]. Journal of Crustacean Biology, 1984, 4(1):106-126.

刘镇盛, 杜明敏, 章菁. 国际海洋浮游动物研究进展[J]. 海洋学报, 2013, 35(4):1-10. Liu Zhensheng, Du Mingmin, Zhang Jing. International research advances in marine zooplankton[J]. Haiyang Xuebao, 2013, 35(4):1-10.

王敏晓. 分子标记在中国近海浮游桡足类研究中的应用[D]. 北京:中国科学院海洋研究所, 2010. Wang Minxiao. Application of molecular markers to the researches on pelagic Copepods in the Chinese coastal regions[D]. Beijing:Institute of Oceanology, China Academy of Sciences, 2010.

Bucklin A, Wiebe P H, Smolenack S B, et al. DNA barcodes for species identification of euphausiids (Euphausiacea, Crustacea)[J]. Journal of Plankton Research, 2007, 29(6):483-493.

中国科学院南海海洋研究所. 海洋科学集刊[M]. 北京:科学出版社, 1984. South China Sea Institute of Oceanology, Chinese Academy of Sciences. Studia Marina Sinica[M]. Beijing:Science Press, 1984.

Cepeda G D, Blanco-Bercial L, Bucklin A, et al. Molecular systematic of three species of Oithona (Copepoda, Cyclopoida) from the Atlantic Ocean:comparative analysis using 28S rDNA[J]. PLoS One, 2012, 7(4):e35861.

施引文献

资源附件(0)

访问统计