Volume 15 Issue 1
Feb.  2019
Turn off MathJax
Article Contents
Abstract
References
Related Articles
YAN Yali, ZHANG Nan, GUO Huayang, GUO Liang, ZHU Kecheng, LIU Baosuo, ZHANG Dianchang. Species identification and phylogenetic relationship in Siganidae based on DNA barcoding[J]. South China Fisheries Science, 2019, 15(1): 100-105. DOI: 10.12131/20180083
Citation: YAN Yali, ZHANG Nan, GUO Huayang, GUO Liang, ZHU Kecheng, LIU Baosuo, ZHANG Dianchang. Species identification and phylogenetic relationship in Siganidae based on DNA barcoding[J]. South China Fisheries Science, 2019, 15(1): 100-105. DOI: 10.12131/20180083
shu

Species identification and phylogenetic relationship in Siganidae based on DNA barcoding

  • 1.

    Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture and Rural Affairs; South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China

  • 2.

    College of Fisheries and Life Science, Shanghai Ocean University, Shanghai 201306, China

  • 3.

    Guangdong Provincial Engineer Technology Research Center of Marine Biological Seed Industry, Guangzhou 510300, China

More Information
  • Received Date: May 02, 2018
  • Revised Date: July 21, 2018
  • Accepted Date: October 07, 2018
  • Available Online: December 04, 2018
    Graphical Abstract
    • Abstract

  • In order to establish a rapid and convenient method for fish species identification of Siganidae, we obtained 46 COⅠ genes from 10 species and downloaded 27 COⅠ genes from 12 species from BOLD and GenBank to study the COⅠ gene's genetic composition, intraspecific and interspecific genetic distance, codon characteristics and molecular phylogenetic tree. The results show that the average base composition of 73 COⅠ genes was T: 28.9%, C: 28.7%, A: 24.6% and G: 17.8%. The content of G+C (46.5%) was lower than the content of A+T (53.5%) and the base composition showed obvious bias. The average interspecific genetic distance was 0.098, which was 49 times the length of the genetic distance within the species (average: 0.002). The phylogenetic tree reveals that Siganus unimaculatus and S. vulpinus clustered into one branch among 19 species of basket fish. The other 17 species (89.5%) clustered in monophyletic groups at genus level. It is shown that the technology of DNA barcoding can be used for fish species identification of Siganidae.

    • FullText(HTML)
    • References (31)
  • [1]
    RANDALL J E, KULBICKI M. Siganus woodlandi, new species of rabbitfish (Siganidae) from New Caledonia[J]. Cybium, 2005, 29(2): 185-189.
    [2]
    伍汉霖, 邵广昭, 赖春福. 拉汉世界鱼类系统名典[M]. 青岛: 中国海洋大学出版社, 2017: 319-320.
    [3]
    BURHANUDDIN A I. The rabbit-fishes (Siganidae) of Tomini Bay, Gorontalo [Ikan-lkan Beronang (Siganidae) di Teluk Tomini, Gorontalo][J]. J Ikt Ind, 2017, 5(1): 1-4.
    [4]
    DEVI K, RAO D V. A field guide to the fishes of Acanthuridae (Surgeonfishes) and Siganidae (Rabbitfishes) of Andaman & Nicobar Islands[M]. Kolkata: ZSI, 2003: 1-42.
    [5]
    柳淑芳, 陈亮亮, 戴芳群, 等. 基于线粒体CO1基因的DNA条形码在石首鱼科(Sciaenidae)鱼类系统分类中的应用[J]. 海洋与湖沼, 2010, 41(2): 223-232.
    [6]
    HEBERT P N, RATNASINGHAM S. Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species[J]. P Roy Soc B-Biol Sci, 2003, 270(Suppl 1): S96-S99.
    [7]
    杨倩倩, 刘苏汶, 俞晓平. DNA条形码分析方法研究进展[J]. 应用生态学报, 2018, 29(3): 1006-1014.
    [8]
    林森杰, 王路, 郑连明, 等. 海洋生物DNA条形码研究现状与展望[J]. 海洋学报, 2014, 36(12): 1-17. doi: 10.3969/j.issn.0253-4193.2014.12.001
    [9]
    李献儒, 柳淑芳, 李达, 等. DNA条形码在鲱形目鱼类物种鉴定和系统进化分析中的应用[J]. 中国水产科学, 2015, 22(6): 1133-1141.
    [10]
    LANGILLE B L, PERRY R, KEEFE D, et al. Novel mitochondrial DNA primers for identification of population trends in longnose suckers (Catostomus catostomus) and multispecies identification[J]. Conserv Genet Resour, 2014, 6(2): 279-281. doi: 10.1007/s12686-013-0111-6
    [11]
    DE MANDAL S, CHHAKCHHUAK L, GURUSUBRAMANIAN G, et al. Mitochondrial markers for identification and phylogenetic studies in insects-A Review[J]. DNA Barcodes, 2014, 2(1): 1077-2299.
    [12]
    AMINI S, HOSSEINI R. A multiplex polymerase chain reaction based method for rapid identification of two species of the genus Scolytus Geoffroy (Col: Curculionidae: Scolytinae) in Iran[J]. J Entomol Acarol Res, 2016, 48(1): 11-15. doi: 10.4081/jear.2016.5181
    [13]
    EHSAN M, AKHTER N, BHUTTO B, et al. Prevalence and genotypic characterization of bovine Echinococcus granulosus isolates by using cytochrome oxidase 1 (Co1) gene in Hyderabad, Pakistan[J]. Vet Parasitol, 2017, 239: 80-85. doi: 10.1016/j.vetpar.2017.04.006
    [14]
    陈军, 李琪, 孔令锋, 等. 基于COⅠ序列的DNA条形码在中国沿海缀锦蛤亚科贝类中的应用分析[J]. 动物学研究, 2010, 31(4): 345-352.
    [15]
    WON S, PARK B K, KIM B J, et al. Molecular identification of Haemadipsa rjukjuana (Hirudiniformes: Haemadipsidae) in Gageo Island, Korea[J]. Korean J Parasitol, 2014, 52(2): 169-175. doi: 10.3347/kjp.2014.52.2.169
    [16]
    DHAR B, GHOSH S K. Mini-DNA barcode in identification of the ornamental fish: a case study from Northeast India[J]. Gene, 2017, 627: 248-254. doi: 10.1016/j.gene.2017.06.043
    [17]
    WONGSAWAD C, WONGSAWAD P, SUKONTASON K A, et al. Molecular phylogenetics of Centrocestus formosanus (Digenea: Heterophyidae) originated from freshwater fish from Chiang Mai Province, Thailand[J]. Korean J Parasitol, 2017, 55(1): 31-37. doi: 10.3347/kjp.2017.55.1.31
    [18]
    沈世杰, 吳高逸. 台灣魚類圖鑑[M]. 台灣: 國立海洋生物博物館, 2011: 707-710.
    [19]
    秦燕, 胡敬, 文建凡. 基因转换的生物学意义及分子机制[J]. 生命的化学, 2008, 28(4): 492-495. doi: 10.3969/j.issn.1000-1336.2008.04.031
    [20]
    黄原. 分子系统学——原理、方法及应用[M]. 北京: 中国农业出版社, 1998: 70-76.
    [21]
    KNEBELSBERGER T, LANDI M, NEUMANN H A, et al. A reliable DNA barcode reference library for the identification of the North European shelf fish fauna[J]. Mol Ecol Resour, 2014, 14(5): 1060-1071.
    [22]
    STEINKE D, deWAARD J R, GOMON M F, et al. DNA barcoding the fishes of Lizard Island (Great Barrier Reef)[J]. Biodivers Data J, 2017(5): e12049.
    [23]
    袁华荣, 陈丕茂, 秦传新, 等. 南海柘林湾鱼类群落结构季节变动的研究[J]. 南方水产科学, 2017, 13(2): 26-35. doi: 10.3969/j.issn.2095-0780.2017.02.004
    [24]
    黄小林, 李涛, 林黑着, 等. 网箱养殖黄斑篮子鱼胚胎发育观察[J]. 南方水产科学, 2018, 14(2): 96-101. doi: 10.3969/j.issn.2095-0780.2018.02.013
    [25]
    GAWEL M, WOODLAND D J. Siganus (Lo) uspi, a new species from Fiji; and a comparison with the nominal species S. vulpinus and S. unimaculatus[J]. Copeia, 1974: 855-861.
    [26]
    陈康. 影响等位基因显隐性的因素[J]. 生物学教学, 1996, 21(5): 24.
    [27]
    SHEARER T L, COFFROTH M A. Barcoding corals: limited by interspecific divergence, not intraspecific variation[J]. Mol Ecol Resour, 2008, 8(2): 247-255. doi: 10.1111/j.1471-8286.2007.01996.x
    [28]
    URIBE J E, PUILLANDRE N, ZARDOYA R. Beyond Conus: phylogenetic relationships of Conidae based on complete mitochondrial genomes[J]. Mol Phylogenet Evol, 2017, 107: 142-151. doi: 10.1016/j.ympev.2016.10.008
    [29]
    CONG Q, SHEN J H, BOREK D, et al. When COI barcodes deceive: complete genomes reveal introgression in hairstreaks[J]. P Roy Soc B, 2017, 284(1848): 1735-2016.
    [30]
    廖德杰, 曹善茂, 童金苟, 等. 扇贝核糖体ITS1和5S rDNA序列的遗传变异及亲缘关系分析[J]. 水生生物学报, 2018, 42(3): 494-502.
    [31]
    DUONG T D, TRUNG K H, THUY N T, et al. Identification of Vietnamese native Dendrobium species based on ribosomal DNA internal transcribed spacer sequence[J]. Adv Stud Biol, 2018, 10(1): 1-12. doi: 10.12988/asb.2018.7823
    • Related Articles

  • Related Articles

    [1]WEI Zhengkun, DONG Hongbiao, ZHAO Wen, CHEN Fei, ZHANG Chuanxiang, CHEN Jian, GONG Baohua, ZHU Changbo, ZHANG Jiasong. Anesthetic effect and tissue oxidative injury for Litopenaeus vannamei by two anesthetics[J]. South China Fisheries Science, 2023, 19(1): 136-146. DOI: 10.12131/20220070
    [2]ZHAO Xiaoyu, SU Haochang, XU Yu, XU Wujie, HU Xiaojuan, WEN Guoliang, CAO Yucheng, YU Zhaolong. Removal of sulphonamide resistance sul1 gene in water source and pond water by fishery oxidants in aquaculture[J]. South China Fisheries Science, 2021, 17(3): 46-53. DOI: 10.12131/20200231
    [3]ZHANG Linbao, CHEN Haigang, TIAN Fei, SUN Wei, ZHANG Zhe, CAI Wengui. Gender differences in neurotoxicity and oxidative damage of triazophos on Perna viridis[J]. South China Fisheries Science, 2020, 16(6): 75-80. DOI: 10.12131/20200097
    [4]WANG Haifeng, CHENG Yongxu, LI Jinghao, XI Yewen, LI Jiayao. Effects of desiccation and resubmersion on oxidative stress response of crayfish (Procambarus clarkii)[J]. South China Fisheries Science, 2019, 15(5): 69-76. DOI: 10.12131/20190059
    [5]ZHANG Bo, MENG Zihao, LIU Baosuo, LI Haimei, SU Jiaqi, HUANG Guiju, WU Kaichang, YU Dahui. Effect of nucleus-inserting surgery damage on anti-oxidation and immunity of pearl oyster (Pinctada fucata)[J]. South China Fisheries Science, 2017, 13(5): 72-77. DOI: 10.3969/j.issn.2095-0780.2017.05.010
    [6]OU Youjun, CHEN Shixi, WANG Pengfei, LI Jia'er, WEN Jiufu, WANG Wen, XIE Mujiao. Study on oxidative stress response and physiological metabolism related indices of Trachinotus ovatus under hyp-oxia stress[J]. South China Fisheries Science, 2017, 13(3): 120-124. DOI: 10.3969/j.issn.2095-0780.2017.03.016
    [7]LIU Xujia, HUANG Guoqiang, PENG Yinhui. Effect of different dissolved oxygen levels on growth, energy metabolism and oxidative stress of Mugil cephalus[J]. South China Fisheries Science, 2015, 11(4): 88-94. DOI: 10.3969/j.issn.2095-0780.2015.04.013
    [8]DOU Yong, QIAO Xiuting, CHEN Limei, ZHOU Wenli. Study on oxidative stress and damage of Cyclina sinensis exposed to naphthalene[J]. South China Fisheries Science, 2014, 10(4): 39-44. DOI: 10.3969/j.issn.2095-0780.2014.04.007
    [9]ZHANG Ting, LUO Yuliang. Effect of Fenpropathrin on Na+-K+-ATPase and histomorphology of Cyprinus carpio gills[J]. South China Fisheries Science, 2013, 9(6): 41-46. DOI: 10.3969/j.issn.2095-0780.2013.06.007
    [10]YANG Tao, CHEN Haigang, CAI Wengui, QIN Jiefang, JIA Xiaoping. Oxidative stress and damage of Perna viridis by exposure to phenanthrene and benzo (b) fluoranthene[J]. South China Fisheries Science, 2011, 7(4): 24-29. DOI: 10.3969/j.issn.2095-0780.2011.04.004

  • Cited by

    Periodical cited type(9)

    1. 张潇潇，杨少森，邹翠云，张勇，黄锦雄，甘松永，秦真东，黄玮坪，陈永南，吴锦辉，林蠡. 蓝圆鲹的胚胎及胚后发育特征观察. 水产学报. 2025(01): 105-115 .
    2. 杨瑞兰，刘彦斌，赵红雪，刘凯，杨立强，肖伟，赛清云，田永华，赖章龙，阮超岭，柳婷，刘哲，连总强. 大鼻吻鮈胚胎发育特征和初孵仔鱼形态观察. 甘肃农业大学学报. 2024(01): 49-58 .
    3. 王岳松，徐林，杨洋，程睿，王崇，何大江，黎国樑，马海涛，毕建启，陈锋，万正平，张志明. 长鳍光唇鱼(Acrossocheilus longipinnis)人工繁殖和早期发育研究. 南方水产科学. 2024(02): 63-72 . 本站查看
    4. 李文康，骆小年，段友健，李姣，吴晨. 鸭绿沙塘鳢仔稚鱼发育观察及饥饿不可逆点的确定. 大连海洋大学学报. 2023(01): 32-42 .
    5. 石叶忠，朱双全，潘月，申屠琰，冯彬彬，程鑫，张克鑫，朱卫东，夏荣兴，张玉明，竺俊全. 宽鳍鱲仔稚鱼发育. 浙江海洋大学学报(自然科学版). 2023(02): 136-142 .
    6. 王新月，訾方泽，葛建民，陈生熬，姚娜，肖青，艾尼瓦尔·依布拉音. 盐碱胁迫下扁吻鱼幼鱼耐受性分析. 新疆农业科学. 2023(06): 1540-1547 .
    7. 陈思奇，朱永久，吴兴兵，杨德国，李晓莉. 大鳍鳠胚胎及仔稚鱼发育观察. 南方水产科学. 2023(06): 60-70 . 本站查看
    8. 邢雨忻，骆小年，李姣，段友健，季辰跃，常建太. 马口鱼仔稚鱼发育观察及饥饿不可逆点的确定. 大连海洋大学学报. 2023(06): 972-979 .
    9. 王程欣，陈生熬，王新月，訾方泽，林旭元，魏齐. 新疆特克斯河斑重唇鱼胚胎发育和胚后发育观察. 动物学杂志. 2022(05): 668-677 .

    Other cited types(4)

Catalog

    Get Citation
    PDF
    XML
    Article views PDF downloads Cited by(13)
    Related

    Supported by: Beijing Renhe Information Technology Co., Ltd.  

    /

    DownLoad:  Full-Size Img  PowerPoint
    Return
    Return