Complete mitochondrial DNA sequence of the endangered frog Odorrana ishikawae (family Ranidae) and unexpected diversity of mt gene arrangements in ranids
Complete mitochondrial DNA sequence of the endangered frog Odorrana ishikawae (family Ranidae) and unexpected diversity of mt gene arrangements in ranids
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DOI：
10.1016/j.ympev.2010.01.022
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发表时间：
2010-08-01
影响因子：
4.1
通讯作者：
Sumida, Masayuki
中科院分区：
文献类型：
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作者：
Kurabayashi, Atsushi;Yoshikawa, Natsuhiko;Sumida, Masayuki
我们确定了一种濒危的日本青蛙，石川臭蛙（蛙科）的线粒体（mt）基因组的完整核苷酸序列。我们还对其他三种臭蛙和六种蛙的部分mt基因组进行了测序，以调查基因组组织的多样性，并阐明该蛙家族中存在的系统发育问题。手术Ishikawae的mt基因组包含37个mt基因和一个典型的脊椎动物mtDNA控制区（CR），但其轻链复制起始区（OL）是三重的。4个蛋白质编码基因（atp 6，nd 2，nd 3和nd 5）被发现具有较高的序列差异，可用于该濒危物种的群体遗传学研究。在所调查的蛙类中，只有两种（蛙和石蛙）表现出典型的neobatrachian型mt基因排列。相比之下，相对较大的基因重排，发现在湍蛙属，Babina和Staurois物种和易位的单个tRNA基因（trns）中观察到腺蛙和臭蛙物种。虽然属间和种间关系的蛙类类群仍有待阐明的基础上，12 S和16 S rrn序列数据，一些派生的mt基因的订单被发现有突触形态的功能，用于解决问题的蛙类spectogenies。串联重复和随机丢失（TDRL）模型，mt基因重排的传统模型，未能很容易地解释几个mt基因重排观察到这里。事实上，最近基于重组的基因重排模型似乎更适合于这一目的。高频率的基因易位涉及一个特定的trn块（trnH-trnS 1）和几个单一的tRNA基因表明，可能有一个在蛙类mt基因组的逆易位。(C)2010年爱思唯尔公司All rights reserved.
We determined the complete nucleotide sequence of the mitochondrial (mt) genome of an endangered Japanese frog, Odorrana ishikawae (family Ranidae). We also sequenced partial mt genomes of three other Odorrana and six ranid species to survey the diversity of genomic organizations and elucidate the phylogenetic problems remaining in this frog family. The O. ishikawae mt genome contained the 37 mt genes and single control region (CR) typically found in vertebrate mtDNAs, but the region of Light-strand replication origin (OL) was triplicated in this species. Four protein-encoding genes (atp6, nd2, nd3, and nd5) were found to have high sequence divergence and to be usable for population genetics studies on this endangered species. Among the surveyed ranids, only two species (Rana and Lithobates) manifested the typical neobatrachian-type mt gene arrangement. In contrast, relatively large gene rearrangements were found in Amolops, Babina, and Staurois species; and translocations of single tRNA genes (trns) were observed in Glandirana and Odorrana species. Though the inter-generic and interspecific relationships of ranid taxa remain to be elucidated based on 12S and 16S rrn sequence data, some of the derived mt gene orders were found to have synapomorphic features useful for solving problematic ranid phylogenies. The tandem duplication and random loss (TDRL) model, the traditional model for mt gene rearrangement, failed to easily explain several of the mt gene rearrangements observed here. Indeed, the recent recombination-based gene rearrangement models seemed to be more suitable for this purpose. The high frequency of gene translocations involving a specific trn block (trnH-trnS1) and several single tRNA genes suggest that there may be a retrotranslocation in ranid mt genomes. (C) 2010 Elsevier Inc. All rights reserved.