禾本科V-ATPase基因家族与全基因组加倍关联的适应性进化分析
发布时间:2019-05-07 23:48
【摘要】:V-ATPase在植物适应逆境中起着非常重要的作用,本研究以重要模式植物拟南芥V-ATPase相关基因为目标序列,通过在6个禾本科植物(水稻,大麦,玉米,高粱,谷子和二穗短柄草)基因组中进行比较分析,揭示该基因家族扩增机制和适应性进化进行研究。分析发现,七个不同的植物基因组虽然经历了不同全基因组加倍,其中谷子与玉米加倍关联的基因数量最多,但V-ATPase基因数量在每个基因组非常相近,尤其是禾本科中玉米相对其它物种多一次单独的特异性加倍,然而这一基因家族数量并未增加,这表明全基因组加倍虽然在一定程度上使得家族基因扩增,但是基因丢失可能也维持了该基因组的剂量;对七个基因组中的161个V-ATPase基因进行motif分类确定,不同物种基因组中的motif结构不同,拟南芥和水稻中c-亚基相关的基因数量最多;系统发育分析发现,拟南芥基因和水稻基因进化相对较快,并且在拟南芥中这一基因家族有3个基因簇,它们与基因的串联重复加倍有关联;适应性进化分析揭示B-亚基相关的基因在进化过程中受正选择压力影响进化。
[Abstract]:V-ATPase plays a very important role in plant adaptation to stress. In this study, V-ATPase-related genes of Arabidopsis thaliana were used as target sequences in six gramineous plants (rice, barley, maize, sorghum). Comparative analysis was carried out in the genomes of millet and Spartina mongolicum to reveal the amplification mechanism and adaptive evolution of the gene family. The analysis showed that although seven different plant genomes experienced different whole genome doubling, the number of genes associated with millet and maize doubling was the largest, but the number of V-ATPase genes was very similar in each genome. In particular, maize in Gramineae has one more single specific doubling relative to other species, but the number of this gene family has not increased, indicating that genome-wide doubling, although to a certain extent, leads to the amplification of family genes. But gene loss may also maintain the genome's dose; The motif classification of 161 V-ATPase genes in seven genomes showed that the structure of motif in different species was different, and the number of genes related to c-subunit in Arabidopsis and rice was the most. Phylogenetic analysis showed that Arabidopsis gene and rice gene evolved relatively quickly, and there were three gene clusters in Arabidopsis thaliana gene family, which were associated with tandem repeat doubling. Adaptive evolution analysis revealed that B-subunit related genes were influenced by positive selection pressure during evolution.
【作者单位】: 华北理工大学生命科学学院基因组学与计算生物学研究中心;
【基金】:河北省自然科学基金(C2014209201;C2014209134) 华北理工大学大学生创新项目(X2015174)共同资助
【分类号】:Q943.2
本文编号:2471458
[Abstract]:V-ATPase plays a very important role in plant adaptation to stress. In this study, V-ATPase-related genes of Arabidopsis thaliana were used as target sequences in six gramineous plants (rice, barley, maize, sorghum). Comparative analysis was carried out in the genomes of millet and Spartina mongolicum to reveal the amplification mechanism and adaptive evolution of the gene family. The analysis showed that although seven different plant genomes experienced different whole genome doubling, the number of genes associated with millet and maize doubling was the largest, but the number of V-ATPase genes was very similar in each genome. In particular, maize in Gramineae has one more single specific doubling relative to other species, but the number of this gene family has not increased, indicating that genome-wide doubling, although to a certain extent, leads to the amplification of family genes. But gene loss may also maintain the genome's dose; The motif classification of 161 V-ATPase genes in seven genomes showed that the structure of motif in different species was different, and the number of genes related to c-subunit in Arabidopsis and rice was the most. Phylogenetic analysis showed that Arabidopsis gene and rice gene evolved relatively quickly, and there were three gene clusters in Arabidopsis thaliana gene family, which were associated with tandem repeat doubling. Adaptive evolution analysis revealed that B-subunit related genes were influenced by positive selection pressure during evolution.
【作者单位】: 华北理工大学生命科学学院基因组学与计算生物学研究中心;
【基金】:河北省自然科学基金(C2014209201;C2014209134) 华北理工大学大学生创新项目(X2015174)共同资助
【分类号】:Q943.2
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