基于 13 个线粒体编码基因比较圈养和野生大熊猫的遗传特征。
Comparison of genetic characteristics between captive and wild giant pandas based on 13 mitochondrial coding genes.
机构信息
State Key Laboratory of Agricultural Genomics, BGI-Shenzhen, Shenzhen, 518083, China.
College of Life Sciences, University of Chinese Academy of Sciences, Beijing, 100049, China.
出版信息
Mol Biol Rep. 2022 Jun;49(6):4901-4908. doi: 10.1007/s11033-022-07350-z. Epub 2022 May 10.
BACKGROUND
Research on genetic diversity based on mitochondrial DNA of giant pandas mainly focused on a single marker or a few genes.
OBJECTIVE
To provide a more comprehensive assessment of the genetic diversity on giant pandas based on 13 mitochondrial protein coding genes.
METHODS
We assembled 13 protein coding genes in the mitochondrial genome of the giant panda based on the whole genome sequencing data, including ND1, ND2, COX1, COX2, ATP8, ATP6, COX3, ND3, ND4L, ND4, ND5, ND6 and Cyt b.
RESULTS
We successfully obtained long sequence of 11,416 base pairs with all 13 genes for 110 giant panda individual, accounting for 67.93% in length of the mitochondrial reference genome. Haplotype diversity was 0.9518 ± 0.009 and nucleotide diversity (π) was 0.00157 ± 0.00014. We detected three new haplotypes, including GPC10 and GPC21 for the CR sequence and GPB12 for the Cyt b gene.
CONCLUSION
These multi-gene sequences provided more genetic variable information to compare captive and wild giant panda population.
背景
基于大熊猫线粒体 DNA 的遗传多样性研究主要集中在单个标记或少数几个基因上。
目的
通过对大熊猫线粒体基因组中的 13 个蛋白编码基因进行分析，为大熊猫的遗传多样性提供更全面的评估。
方法
我们基于全基因组测序数据，组装了大熊猫线粒体基因组中的 13 个蛋白编码基因，包括 ND1、ND2、COX1、COX2、ATP8、ATP6、COX3、ND3、ND4L、ND4、ND5、ND6 和 Cyt b。
结果
我们成功获得了 110 只大熊猫个体的 13 个基因的全长序列，长度为 11416 个碱基，占线粒体参考基因组的 67.93%。单倍型多样性为 0.9518±0.009，核苷酸多样性（π）为 0.00157±0.00014。我们检测到了三个新的单倍型，包括 CR 序列中的 GPC10 和 GPC21 以及 Cyt b 基因中的 GPB12。
结论
这些多基因序列为比较圈养和野生大熊猫种群提供了更多的遗传变异信息。
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