大鼠软骨生成过程表达的小分子RNA生物信息学分析  

Bioinformatic analysis of small RNA expression during chondrogenesis in rats

作　　者：邵世滨[1,2] 闵自信[1] 郭源旭[1] 王权成[1] 孙梦瑶[1] 韩燕[1] 孙健[1] 

机构地区：[1]西安交通大学医学部生物化学与分子生物学系,陕西西安710061 [2]山东医学高等专科学校生物化学教研室,山东临沂276002

出　　处：《西安交通大学学报（医学版）》2015年第4期462-466,共5页Journal of Xi’an Jiaotong University（Medical Sciences）

基　　金：国家自然科学基金资助项目(No.81371986);中国博士后基金(No.2014T70928;No.2013M530427);中央高校基本科研业务费专项交叉面上专项(No.xjj2015073)~~

摘　　要：目的：分析大鼠软骨形成过程中小分子 RNA（sRNA）表达谱变化及其基因功能,探讨软骨细胞增殖与分化的机制。方法取新生、断乳、性成熟3个时间节点的雌性 SD 大鼠股骨头软骨构建 sRNA 文库,Solexa 测序平台鉴定软骨组织全部 sRNA 序列表达,所得的全部清洁序列与 SD 大鼠基因组信息比对,并做生物信息学分析。结果3个文库筛选出与基因组序列完全匹配序列,分别对应着217921条（41.23%）、196650条（38.74%）、245436条（41.54%）unique sRNA 序列。长度为20~24 nt 的 sRNA 占比：d 0为71.94%、d 21为72.85%、d 42为86.39%；其中,长度为22 nt的 sRNA 约占清洁序列的一半。文库序列分布特征,符合高质量 sRNA 文库的特征。超过总数62%的清洁序列来自于成熟 miRNA 序列,但在3个文库中的占比却仅仅只有0.69%、0.78%和0.63%。约60%的unique sRNA 序列无法与 miRBase 20.0和 Rfam9.1匹配。结论3个 sRNA 文库的 miRNA 这种分布模式,可能暗示着有功能不同或者来源各异的 miRNA,参与了对骨骼发育和骨形成关键阶段软骨细胞增殖与分化的调控。Objective To study the profiles and function of small RNA （sRNA）gene during chondrogenesis in rats so as to clarify the mechanisms of chondrocytes proliferation and differentiation.Methods All the sRNAs were identified from the female SD rats femoral head cartilages at three time points：at birth,ablactation and maturation,and three sRNA libraries were constructed.The Solexa sequencing and the bioinformatics analysis were employed to be blasted with the genomes of SD rats.Results The perfect match reads in the three libraries were screened out,which were correspondent to the 21 7 921 （41.23%）,1 96 650 （38.74%）and 245 436 （41.54%）unique sRNA sequence,respectively.The percentages of 20-24 nt sRNA were 71.94% （d0）,72.85% （d21）,and 86.39%（d42）.Half of clean sequences were 22 nt sRNA.The distribution characteristics of the reads were in line with the high-quality sRNA.More than 62% clean reads were from mature miRNA while the ratios in the three libraries were only 0.69%,0.78% and 0.63%.About 60% of the unique sRNA could not be matched with miRBase20.0 or Rfam9.1.Conclusion The distribution model of miRNA in the three libraries indicates that the miRNAs with different functions or from different sources are involved in the regulation of chondrocytes proliferation and differentiation in bone development and formation.

关 键 词：SRNA 生物信息学 软骨生成 大鼠 Solexa测序 

分 类 号：Q78[生物学—分子生物学]