成骨细胞特异因子2基因家族的全基因组鉴定、分类及进化分析

Genome-wide identification,classification and phylogenetic analysis of Fasciclin gene family for osteoblast specific factor 2

背景:目前,Fasciclin基因家族的保守结构、蛋白特性、系统发育关系尚无系统的研究。目的:探讨成骨细胞特异因子基因家族的进化历史,对成骨细胞特异因子基因家族的保守结构、蛋白特性、系统发育关系进行系统的比较分析。方法:实验基于已公布的人、黑猩猩、斑马鱼等8个物种的基因组数据,依据HMMER软件构建成骨细胞特异因子基因家族的HMM模型,分析了其基因结构、结构域特征、生化特征、进化关系和表达特性。结果与结论:①在鱼类(斑马鱼)、两栖类(非洲爪蟾)、鸟类(鸡)、爬行类(中华鳖)、哺乳类(大鼠和小鼠)和灵长类(黑猩猩和人)等8个物种中,各检索出5,5,4,5,5,4,4,4个成骨细胞特异因子候选基因;②通过对成骨细胞特异因子基因在8个物种中的系统发育分析,发现成骨细胞特异因子基因家族整个进化树可以分为4个进化分支,其中2个进化分支的基因具有更强的保守性,可能是主要的成骨细胞特异因子;其中一个分支则可能是两栖类、哺乳类和灵长类特有的成骨细胞特异因子;另外一个分支也具有较好的保守性,但是非洲爪蟾和小鼠在该进化分支中有2个拷贝基因,这个进化分支可能对这两类物种起着重要的作用;③上述数据说明,在物种进化过程中,该家族基因并没有发生较大变化,这类基因可能是重要的生长发育相关基因,推测这类基因的缺失可能会导致个体的死亡或导致物种的灭绝。

BACKGROUND:There is no systematical report on the conserved structure,protein characteristics and phylogenetic relationship of the Fasciclin gene family.OBJECTIVE:To investigate the evolutionary history of the Fasciclin gene family,and to systematically analyze the conservative structure,protein characteristics,and phylogenetic relationships of this gene family METHODS:Based on the published genome data of eight species such as people,chimpanzee and zebrafish,HMM models were established using the HMMER software to analyze the characteristics and genetic structure,structure domain and biochemical characteristics,evolutionary relationships and expression characteristics of the Fasciclin gene family.RESULTS AND CONCLUSION:In the eight species of fish(zebrafish),amphibian(xenopus),bird(chicken),reptile(Trionyx sinensis),mammal(rat,mouse)and primate(chimpanzee,human),5,5,4,5,5,4,4,and 4 fasciclin candidate genes were retrieved respectively.Through the phylogenetic analysis of the fasciclin gene in these eight species,the evolutionary tree of fasciclin gene families can be divided into four evolution branch.The two branches of all are more conservative,likely to be the main osteoblast specific factor;the third branch may be osteoblast specific factor of amphibians,mammals and primate;and the final branch also has a good conservative,but the Xenopus and mouse in the branch has two copies of the genes,and this branch may play an important role in the evolution of these two species.Overall,in the evolution of species,the gene family has no larger changes,and such genes may be important for the growth and development.The lack of such genes may lead to the death of the individual or the extinction of species.