The complete mitochondrial genome of the Chinese hook snout carp Opsariichthys bidens (Actinopterygii : Cyprinifonnes) and an altemative pattem of mitogenomic evolution in vertebrate
The complete mitochondrial genome of the Chinese hook snout carp Opsariichthys bidens (Actinopterygii : Cyprinifonnes) and an altemative pattem of mitogenomic evolution in vertebrate
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中国钩吻鲤 Opsariichthys bidens (Actinopterygii : Cyprinifonnes) 的完整线粒体基因组和脊椎动物线粒体基因组进化的另一种模式
DOI：
10.1016/j.gene.2007.04.019
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发表时间：
2007-09-01
期刊：
影响因子：
3.5
通讯作者：
Mayden, Richard L.
中科院分区：
文献类型：
--
作者：
Wang, Xuzhen;Wang, Jun;Mayden, Richard L.
利用长链聚合酶链反应（pcr）新测定了中国钩鼻鱼Opsariichthys bidens线粒体全基因组序列。全长16611个核苷酸的有丝分裂基因组包含13个蛋白质编码基因、2个rRNA基因（12S、16S）、22个tRNA基因和一个非编码控制区。我们利用这些数据和来自其他多种产蛋性鱼类的同源序列数据进行系统发育评价，以验证有关bidens线粒体蛋白基因密码子使用模式的假设，并重新审视产蛋性鱼类的系统发育。白毛蛇的线粒体基因组揭示了脊椎动物线粒体进化的另一种模式。对于O. bidens的线粒体蛋白基因，最常用的密码子通常以A或C结尾，在大多数四重简并密码子家族中，C优先于A；在所有类别中，g端密码子的相对同义密码子使用率都大大提高。梭鲈线粒体蛋白基因的密码子使用模式与之前在相对密切相关的斑马鱼和大多数其他脊椎动物线粒体中发现的一般模式明显不同。第三个密码子位置的核苷酸偏倚是O. bidens线粒体蛋白基因密码子偏倚的主要原因，因为它特别偏向于C而不是a。对O. bidens和其他46个端骨类群的12个连接的线粒体蛋白序列的贝叶斯分析支持Cypriniformes和Otophysi的单系性，并对Otophysi的系统发育进行了可靠的估计。(C) 2007年Elsevier B.V.出版
The complete mitochondrial genome sequence of the Chinese hook snout carp, Opsariichthys bidens, was newly determined using the long and accurate polymerase chain reaction method. The 16,611-nucleotide mitogenome contains 13 protein-coding genes, two rRNA genes (12S, 16S) 22 tRNA genes, and a noncoding control region. We use these data and homologous sequence data from multiple other ostariophysan fishes in a phylogenetic evaluation to test hypothesis pertaining to codon usage pattern of O. bidens mitochondrial protein genes as well as to re-examine the ostariophysan phylogeny. The mitochondrial genome of O. bidens reveals an alternative pattern of vertebrate mitochondrial evolution. For the mitochondrial protein genes of O. bidens, the most frequently used codon generally ends with either A or C, with C preferred over A for most fourfold degenerate codon families; the relative synonymous codon usage of G-ending codons is greatly elevated in all categories. The codon usage pattern of O. bidens mitochondrial protein genes is remarkably different from the general pattern found previously in the relatively closely 9 related zebrafish and most other vertebrate mitochondria. Nucleotide bias at third codon positions is the main cause of codon bias in the mitochondrial protein genes of O. bidens, as it is biased particularly in favor of C over A. Bayesian analysis of 12 concatenated mitochondrial protein sequences for O. bidens and 46 other teleostean taxa supports the monophyly of Cypriniformes and Otophysi and results in a robust estimate of the otophysan phylogeny. (C) 2007 Published by Elsevier B.V.