四川麻鸭mtDNA 全序列的克隆和生物信息学分析

doi:10.11843/j.issn.0366-6964.2017.03.006

畜牧兽医学报 ›› 2017, Vol. 48 ›› Issue (3): 436-445.doi: 10.11843/j.issn.0366-6964.2017.03.006

四川麻鸭mtDNA 全序列的克隆和生物信息学分析

谢艾轩，吴启超，李思德，罗俊，张涛，刘贺贺^*，张军，何桦

（四川农业大学动物科技学院，成都 611130）

收稿日期:2016-09-26 出版日期:2017-03-23 发布日期:2017-03-23
通讯作者: 刘贺贺，副研究员，博士，主要从事水禽遗传育种研究，E-mail:liuee1985@sicau.edu.cn
作者简介:谢艾轩(1996-)，女，四川绵阳人，本科生，主要从事水禽遗传育种研究，E-mail:sunnyxax@163.com
基金资助:
四川省科技厅应用基础项目（2015JY0110）；大学生创新性试验项目（1510626046）

Complete Sequence Cloning and Bioinformatics Analysis of Sichuan Sheldrake Duck Mitochondrial Genome

XIE Ai-xuan,WU Qi-chao, LI Si-de, LUO Jun, ZHANG Tao, LIU He-he^*, ZHANG Jun, HE Hua

(College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China)

Received:2016-09-26 Online:2017-03-23 Published:2017-03-23

摘要/Abstract

摘要：

本研究旨在获得四川麻鸭线粒体DNA基因组全序列（mtDNA），为该遗传资源的保护与利用提供参考。研究参照近缘物种线粒体基因组序列，用Primer 6.0设计引物16对，采用PCR克隆测序技术获得四川麻鸭mtDNA基因组序列。结果表明，四川麻鸭mtDNA基因组全长16 604 bp，碱基组成为A（29.19%）、C（32.82%）、G（15.79%）、T（22.20%），包含22个tRNA基因、2个rRNA基因、13个蛋白质编码基因和1个非编码控制区（D-loop区）。使用在线软件tRNAscan-SE1.21和RNA structure5.6分析发现，22个tRNA基因是标准的4个恒定臂的三叶草二级结构。对四川麻鸭mtDNA基因组D-loop区序列分析发现含有Poly(c)、TAS、E-box、F-box、D-box、Bird-similarity box及CXB1保守框。用MEGA6.0，采用N-J法基于线粒体D-loop区和全序列做进化树，发现四川麻鸭与隆盛鸭血缘关系最近。

Abstract:

The objective of this study was to obtain the complete mitochondrial DNA (mtDNA) sequence of Sichuan Sheldrake duck, and to provide reference data for protection and utilization of this genetic resources of duck. Sixteen pairs of primers were designed by Primer 6.0 according to the mitochondrial genome sequences of duck homologous species. The genomic sequence of Sichuan Sheldrake duck’s mtDNA were then amplified by PCR and sequencing technology. The results showed that the length of Sichuan Sheldrake duck’s mtDNA genome was 16 604 bp, which composed of A (29.19%), C (32.82%), G (15.79%) and T (22.20%). The whole genome contained 22 tRNA genes, 2 rRNA genes, 13 protein-encoding genes and a non-encoding control area (D-loop area). The analysis by online software of tRNAscan-SE 1.21 and RNA structure 5.6 found that 22 tRNA genes were the standard secondary structures with 4 constant arms which like a clover. The D-loop region of Sichuan Sheldrake duck’s mtDNA genome contained Poly (c), TAS, E-box, F-box, D-box, Bird-similarity box and CXB1 conserved box. The neighbor joint (NJ) phylogenetic tree was established by MEGA6.0 basing on the D-loop region and the complete mtDNA sequence, respectively, and the results showed that the Longsheng duck was more closer to Sichuan Sheldrake duck.

中图分类号:

S834.83
S813

谢艾轩，吴启超，李思德，罗俊，张涛，刘贺贺，张军，何桦. 四川麻鸭mtDNA 全序列的克隆和生物信息学分析[J]. 畜牧兽医学报, 2017, 48(3): 436-445.

XIE Ai-xuan,WU Qi-chao, LI Si-de, LUO Jun, ZHANG Tao, LIU He-he, ZHANG Jun, HE Hua. Complete Sequence Cloning and Bioinformatics Analysis of Sichuan Sheldrake Duck Mitochondrial Genome[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2017, 48(3): 436-445.

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四川麻鸭mtDNA 全序列的克隆和生物信息学分析

Complete Sequence Cloning and Bioinformatics Analysis of Sichuan Sheldrake Duck Mitochondrial Genome

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