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引用本文:柳淑芳,陈亮亮,戴芳群,庄志猛.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.海洋与湖沼,2010,41(2):223-232.
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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
柳淑芳1, 陈亮亮2, 戴芳群1, 庄志猛1
1.中国水产科学研究院黄海水产研究所 山东省渔业资源与生态环境重点实验室;2.中国科学院遗传与发育生物学研究所
摘要:
采用CO1 基因特异扩增测序及与GenBank 已有序列联配分析的方法, 进行了石首鱼科19属30 种鱼类75 个CO1 基因片段的序列比较和系统进化研究, 结果表明, 石首鱼科鱼类该片段的平均GC 含量为48.3%, 其中第2 密码子位点含量最高(51%—58.4%, 平均56.6%), 第1 密码子变化范围最大(27.6%—54.1%, 平均44.9%), 第3 密码子差别较小(41.6%—43.6%, 平均42.7%)。依据Kimura-2-parameter 模型, 30 种石首鱼科鱼类种内遗传距离平均值为0.006, 种间为0.210, 种间遗传距离是种内的35 倍; 在分子系统树上, 28 个种(93.3%)可形成单系, 18 个属(94.7%)可聚为独立的分支;与形态学分类不同的是, 由黑鳃梅童鱼(Collichthys lucidus)与棘头梅童鱼(C. niveatus)的遗传距离(0.004)推断二者遗传变异尚未达到种的分化水平, 灰鳍彭纳石首鱼(Pennahia anea)与白姑鱼(Argyrosomus argentatus)的形态学特征相似性和条形码序列同源性都提示二者可能为同种异名, 而红牙(Otolithes ruber)印度洋和南海两个地理群体间的遗传分化已经达到种的水平。本研究证明线粒体CO1 基因可作为DNA 条形码对石首鱼科鱼类进行有效的物种鉴定, 亦可用于探讨石首鱼科的属、种分类单元系统发育问题。
关键词:  石首鱼科, CO1 基因, DNA 条形码, 分子系统分类
DOI:10.11693/hyhz201002010010
分类号:
基金项目:国家自然科学基金资助项目, 40776097 号; 山东省泰山学者工程专项资助, 2009.03—2014.02
附件
APPLICACTION OF DNA BARCODING GENE CO1 FOR CLASSIFYING FAMILY SCIAENIDAE
LIU Shu-Fang1, CHEN Liang-Liang2, DAI Fang-Qun1, ZHUANG Zhi-Meng1
1.Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Key Laboratory for Fishery Resources and Eco-environment;2.Institute of Genetics and Developmental Biology, Chinese Academy of Sciences
Abstract:
A total of 75 single individuals of 30 species pertaining to 19 genera of Sciaenidae was barcoded by CO1 genes, sequenced and compared with that of other Sciaenidae species recorded in GenBank. Our results indicate that the averaged GC content accounting for 48.3%. The GC content of codon position 2 averaged 56.6% (51.0%—58.4%), that of position 1 for 44.9% (27.6%—54.1%), and that of position 3 ranged 41.6%—43.6% in average of 42.7%. The average Kimura-2-parameter (K2P) distances within-species and pairwise-species were 0.6% and 21%, respectively. The K2P distance pairwise-species was 35 times as much as that of within-species. According to the maximum parsimony and neighbour-joining trees for all 75 sequences, 28 species (93.3%) were of monophyly and 18 genera (94.7%) were in individual branch. The genetic distance between Collichthys niveatus and C. lucidus inferred that the genetic differentiation has not yet reached the level of species variation, which is different from the morphological conclusion. Both the similarity of morphological characters and the homology of barcoding sequence of Pennahia anea and Argyrosomus argentatus suggest that these two species should be a synonym of the same species. In addition, two geographical groups of Otolithes rubber might be of two different species. Consequently, the CO1 barcoding is one of the useful tools to both fish species classification and phylogeny of Family Sciaenidae.
Key words:  Sciaenidae, Cytochrome oxidase subunit I (CO1), DNA barcodes, Molecular systematics
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