文章摘要
四种鲇鱼基因组中Tc1/Mariner转座子的鉴定与演化分析
Identification and evolutionary analysis of Tc1/Mariner transposons in four catfish genomes
投稿时间:2019-01-07  修订日期:2019-06-13
DOI:
中文关键词: 基因组  转座子  Tc1/Mariner  鲇鱼  演化分析
英文关键词: genome  transposon  Tc1/Mariner  catfish  evolutionary analysis
基金项目:国家自然科学基金
作者单位E-mail
赵连鹏 西南大学生命科学学院 xndxscc_zlp@163.com 
邵峰 西南大学生命科学学院  
胡竞文 西南大学生命科学学院  
张耀光 西南大学生命科学学院  
彭作刚 西南大学生命科学学院 pzg@swu.edu.cn 
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中文摘要:
      为了探讨Tc1/Mariner转座子在四种鲇鱼(沟鲇Ictalurus punctatus、黑斑原鮡Glyptosternum maculatum、鲇Silurus asotus和南方鲇Silurus meridionalis)中的特征及在演化过程中的作用,本研究使用de novo预测和同源预测两种方法鉴定了四种鲇鱼基因组中的Tc1/Mariner转座子并进行演化分析。通过对所获得序列的统计及分类,结果显示四种鲇鱼基因组中Tc1/Mariner转座子的含量分别是9.46%、2.70%、7.83%和8.54%,并且分别被分为38、20、43和55个家族。基于转座酶催化区域的结构和系统发育分析的结果,我们发现四种鲇鱼的Tc1/Mariner转座子总共可以分为5个不同的亚类群: DD34E(Tc1)、DD35E、DD36E、DD37E和DD35D(pogo)。系统发育分析表明多数支系中鲇和南方鲇的转座子聚为姐妹群。插入时间分析表明Tc1/Mariner转座子的插入时间主要分布在0-5百万年前。大多数Tc1/Mariner转座子在0-1百万年前或2-3百万年前有一个突然的扩增。另外,四种鲇鱼的Tc1/Mariner转座子大部分插入到基因的内含子中。总之,本研究通过对四种鲇鱼中Tc1/Mariner转座子的鉴定、比较与演化分析,为Tc1/Mariner转座子的深入研究奠定了基础。
英文摘要:
      To investigate the characteristics of Tc1/Mariner transposons in four catfish genomes (Ictalurus punctatus, Glyptosternum maculatum, Silurus asotus and Silurus meridionalis) and their role in the evolution, we used de novo and homology methods to predict Tc1/Mariner transposons and explored the role in the evolution of those four catfishes. The results showed that the contents of Tc1/Mariner transposons in the four catfishes were 9.46%, 2.70%, 7.83% and 8.54%, respectively. All the Tc1/Mariner transposons in the four catfishes were classified into 38, 20, 43 and 55 families, respectively. Based on the structural and phylogenetic analysis of the catalytic region of the transposase, the Tc1/Mariner transposons in the four catfishes can be classified into five different subgroups: Tc1 (DD34E), DD35E, DD36E, DD37E and pogo (DD35D). Phylogenetic analysis indicated that the transposons of most of the branches for S. asotus and S. meridionalis were clustered into sister groups. The results indicated that the insertion time of the majority Tc1/Mariner transposons mainly ranges between 0-5 Mya. Many Tc1/Mariner transposons have a burst expansion between 0-1 Mya or 1-2 Mya. In addition, most of the Tc1/Mariner transposons in the four catfishes were inserted into the intron of the gene. In summary, this study provides new insights into the evolution of Tc1/Mariner transposons in the fish genomes.
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