DNA条形码在篮子鱼科鱼类种类鉴定和系统进化分析中的应用

闫亚利; 张楠; 郭华阳; 郭梁; 朱克诚; 刘宝锁; 张殿昌

doi:10.12131/20180083

DNA条形码在篮子鱼科鱼类种类鉴定和系统进化分析中的应用

doi: 10.12131/20180083

闫亚利^{1, 2,},
张楠¹,
郭华阳¹,
郭梁^{1, 3},
朱克诚¹,
刘宝锁¹,
张殿昌^{1, 3, ,}

1.
中国水产科学研究院南海水产研究所，农业农村部南海渔业资源开发利用重点实验室，广东广州 510300
2.
上海海洋大学水产与生命学院，上海 201306
3.
广东省海洋生物种业工程技术研究中心，广东广州 510300

基金项目: 中国水产科学研究院基本科研业务费专项资金 (2014A11)；农业农村部财政专项（NFZX2013）；国家科技基础性工作专项 (2013FY110700)

详细信息

作者简介:
闫亚利(1992—)，女，硕士研究生，从事水产生物技术研究。E-mail: 2541733416@qq.com

通讯作者:
张殿昌(1977 — )，男，博士，研究员，从事水产种质资源与遗传育种研究。E-mail: zhangdch@scsfri.ac.cn

中图分类号: Q 959
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- 被引次数: 0
出版历程
- 收稿日期: 2018-05-03
- 修回日期: 2018-07-22
- 网络出版日期: 2018-12-05
- 刊出日期: 2019-02-05

Species identification and phylogenetic relationship in Siganidae based on DNA barcoding

Yali YAN^{1, 2
,},
Nan ZHANG¹,
Huayang GUO¹,
Liang GUO^{1, 3},
Kecheng ZHU¹,
Baosuo LIU¹,
Dianchang ZHANG^{1, 3
, ,}

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

摘要

摘要: 为建立篮子鱼科鱼类物种快速鉴定方法，该研究扩增获得了篮子鱼科10种鱼类的46条线粒体COⅠ基因序列，结合从BOLD和GenBank上筛选出的12种27条篮子鱼科COⅠ基因序列，分析篮子鱼科鱼类的COⅠ基因片段序列特征、种间和种内遗传距离及分子系统进化关系。结果表明，19种73条篮子鱼科COⅠ基因序列的平均碱基组成为T：28.9%、C：28.7%、A：24.6%、G：17.8%。G+C的含量(46.5%)低于A+T的含量(53.5%)，碱基组成表现出明显的偏倚性；篮子鱼科鱼类的种间平均遗传距离为0.098，是种内平均遗传距离(0.002)的49倍；基于19种篮子鱼科鱼类的COⅠ序列的系统进化分析结果显示，19种篮子鱼中仅单斑篮子鱼(Siganus unimaculatus)和狐篮子鱼(S. vulpinus)聚类在一起，形成1个分支，剩余17种(89.5%)篮子鱼相同种内个体各自聚为一支，形成17个独立的分支。结果表明基于COⅠ基因的DNA条形码技术可应用于篮子鱼科物种鉴定。
- 篮子鱼科 /
- COⅠ基因 /
- DNA条形码
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.
- Siganidae /
- COⅠ gene /
- DNA barcoding

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图 1 NJ 法构建的篮子鱼科鱼类系统进化树

节点上数字显示1 000次重复的bootstrap验证分析中大于50%的支持率；标尺代表遗传距离单位为0.02·百万年^–1

Figure 1. NJ tree resulting from analysis of COⅠ gene for 19 Siganidae species

Values higher than 50% bootstrap in 1 000 replications are shown on branches. The scale represents the genetic distance of 0.02 per million years.

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图 2 长鳍篮子鱼 (全长179 mm) (a) 和褐篮子鱼 (全长267 mm) (b)

Figure 2. S. canaliculatus (total length=179 mm) (a) and S. fuscessens (total length=267 mm) (b)

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图 3 单斑篮子鱼 (全长162 mm) (a) 和狐篮子鱼 (全长121 mm) (b)

Figure 3. S. unimaculatus (total length=162 mm) (a) and S. vulpinus (total length=121 mm) (b)

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表 1 本研究篮子鱼科19种鱼类COⅠ基本信息

Table 1. Information of COⅠ genes from 19 Siganidae species

序号 No.	物种 species	拉丁名 Latin name	样品数目 number of samples	Genbank序列号 GenBank accession No.
Gp1	银篮子鱼	Siganus argenteus	2	JQ350365, JQ350364
Gp2	长鳍篮子鱼	Siganus canaliculatus	12	MH469588~MH469599
Gp3	凹吻篮子鱼	Siganus corallinus	2	KP194212, KP194871
Gp4	大瓮篮子鱼	Siganus doliatus	3	KP194691, KF930440, RESIC044-11
Gp5	褐篮子鱼	Siganus fuscescens	3	KY372164, MH469600, MH469601
Gp6	星斑篮子鱼	Siganus guttatus	6	MH469574~MH469579
Gp7	爪哇篮子鱼	Siganus javus	2	KU692888, EU752210
Gp8	截尾篮子鱼	Siganus luridus	3	BIM342-13, BIM364-13, MF409629
Gp9	眼带篮子鱼	Siganus puellus	3	FJ584108, MH469572, MH469573
Gp10	暗体篮子鱼	Siganus punctatissimus	1	KP194669
Gp11	斑篮子鱼	Siganus punctatus	2	MH469570, MH469571
Gp12	金带篮子鱼	Siganus rivulatus	3	KM538561, KM538560, BIM363-13
Gp13	刺篮子鱼	Siganus spinus	5	KJ968266, KP193962, KF930443, MH469602, MH469603
Gp14	白点篮子鱼	Siganus sutor	3	MF409513, MF409582, MF409508
Gp15	单斑篮子鱼	Siganus unimaculatus	3	MH469558, MH469560, MH469561
Gp16	蓝带篮子鱼	Siganus virgatus	8	MH469580~MH469587
Gp17	狐篮子鱼	Siganus vulpinus	5	MH469562~MH469565, MH469557
Gp18	蠕纹篮子鱼	Siganus vermiculatus	3	KF715016.1, KF715017.1, KF715018.1
Gp19	大篮子鱼	Siganus magnificus	4	MH469566~MH469569
注：本研究基因序列为MH469557~MH469558、MH469560~MH469603 　Note: The GenBank accession No. are MH469557−MH469558 and MH469560−MH469603 in this study.

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表 2 种间/种内遗传距离小于“10×”的物种对

Table 2. Species of interspecific/intraspecific distance ratio less than “10×”

物种1 (种内遗传距离) Species 1 (intraspecific distance)	物种2 (种内遗传距离) Species 2 (intraspecific distance)	种间距离 interspecific distance	种间/种内遗传距离比 intraspecific/intraspecific distance
凹吻篮子鱼 S. corallinus (0.000)	大瓮篮子鱼 S. doliatus (0.004)	0.016	4.00
大瓮篮子鱼 S. doliatus (0.004)	蓝带篮子鱼 S. virgatus (0.001)	0.008	2.00
单斑篮子鱼 S. unimaculatus (0.002)	狐篮子鱼 S. vulpinus (0.003)	0.002	0.67
单斑篮子鱼 S. unimaculatus (0.002)	大篮子鱼 S. magnificus (0.000)	0.010	5.00
狐篮子鱼 S. vulpinus (0.003)	大篮子鱼 S. magnificus (0.000)	0.010	3.33

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