Comparative analysis of the superoxide dismutase gene family in Cetartiodactyla
Comparative analysis of the superoxide dismutase gene family in Cetartiodactyla
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鲸鱼超氧化物歧化酶基因家族的比较分析
DOI：
10.1111/jeb.13792
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发表时间：
2021
影响因子：
2.1
通讯作者：
Guang Yang
中科院分区：
文献类型：
--
作者：
Ran Tian;Yuepan Geng;Han Guo;Chen Yang;Inge Seim;Guang Yang
鲸类、鲸鱼、海豚和鼠海豚组成了一个适应水生生活的哺乳动物目。它们向水生栖息地的过渡导致了对细胞损伤的特殊保护，包括氧化和渗透胁迫。在这里，我们认为超氧化物歧化酶（SOD）基因家族的结构和分子进化，在哺乳动物的抗氧化系统中编码必需的酶，在总目的鲸偶蹄类。为此，我们将鲸类和它们现存的近亲（偶蹄目）并列。我们在23个物种中鉴定了94个基因，其中70个是真正的完整基因。虽然SOD基因家族在鲸偶蹄目中是保守的，但观察到谱系特异性基因重复和缺失。系统发育分析表明，SOD 2亚家族与SOD 1和SOD 3组成的进化支不同，表明细胞质、细胞外和线粒体SODs已经开始了独立的进化。在鲸目动物中发现了可能增强ROS消除的特定氨基酸变化（例如SOD 2中的K130 N）。计算机模拟分析表明，鲸蹄SOD基因的核心转录因子库可能包括Sp1、NF-κB、Nrf 2和AHR。在鲸类SOD 1基因中发现了对缺氧有反应的假定转录因子结合位点（例如无毛抑制因子; Su（H））。我们发现了显着的证据，积极选择鲸类使用密码子模型。具有不同潜水能力的鲸类也表现出不同的SOD 1和SOD 2进化。我们对SOD基因的全基因组分析有助于澄清它们的关系和进化轨迹，并确定鲸类动物中假定的功能变化。
Cetacea, whales, dolphins and porpoises form an order of mammals adapted to aquatic life. Their transition to an aquatic habitat resulted in exceptional protection against cellular insults, including oxidative and osmotic stress. Here, we considered the structure and molecular evolution of the superoxide dismutase (SOD) gene family, which encodes essential enzymes in the mammalian antioxidant system, in the superorder Cetartiodactyla. To this end, we juxtaposed cetaceans and their closest extant relatives (order Artiodactyla). We identified 94 genes in 23 species, of which 70 are bona fide intact genes. Although the SOD gene family is conserved in Cetartiodactyla, lineage‐specific gene duplications and deletions were observed. Phylogenetic analyses show that the SOD2 subfamily diverged from a clade containing SOD1 and SOD3, suggesting that cytoplasmic, extracellular and mitochondrial SODs have started down independent evolutionary paths. Specific‐amino acid changes (e.g. K130N in SOD2) that may enhance ROS elimination were identified in cetaceans. In silico analysis suggests that the core transcription factor repertoire of cetartiodactyl SOD genes may include Sp1, NF‐κB, Nrf2 and AHR. Putative transcription factors binding sites responding to hypoxia were (e.g. Suppressor of Hairless; Su(H)) found in the cetacean SOD1 gene. We found significant evidence for positive selection in cetaceans using codon models. Cetaceans with different diving abilities also show divergent evolution of SOD1 and SOD2. Our genome‐wide analysis of SOD genes helps clarify their relationship and evolutionary trajectory and identify putative functional changes in cetaceans.