| 摘要: |
| 分别采用 BlastX 和 Blast2go 软件对 453 条非冗余的长心卡帕藻 EST 序列进行匹配分析和GO 注释。结果表明, 有 281 条序列与蛋白数据库中序列匹配, 有 132 条序列被归属为 3 个子本体: 分子功能、生物学过程和细胞组成。同时筛选到 24 个与逆境适应相关的基因, 包括应对胁迫反应和抗氧化反应的基因。采用 GCUA 软件, 进行长心卡帕藻基因密码子偏倚性的研究。结果表明其密码子偏倚性与其它红藻差别较大, 平均 G+C 含量和密码子的第三位的 G+C 含量均较其它藻类偏低。上述工作为进一步研究长心卡帕藻基因及其功能奠定了基础。 |
| 关键词: 长心卡帕藻, 表达序列标记分析, 抗逆基因, 密码子使用频率 |
| DOI：10.11693/hyhz201106009009 |
| 分类号: |
| 基金项目:国家海洋公益项目, 2012418039 号、200705010 号; 国家海洋局基本科研业务经费项目, 2008G19 号 |
附件 |
|
| ANALYSIS OF KAPPAPHYCUS ALVAREZII EXPRESSED SEQUENCE TAGS |
|
LIU Chen-Lin1, HUANG Xiao-Hang1, LIU Jian-Guo2
|
|
1.Research Center for Marine Ecology, the First Institute of Oceanography, State Oceanic Administration;2.Institute of Oceanology, Chinese Academy of Sciences
|
| Abstract: |
| There were 281 sequences found significantly similar to the known proteins using the protein database BlastX aligning of 453 Kappaphycus alvarezii TUGs. GO annotation was conducted on 453 TUGs using Blast2go, 132 sequences were assigned to have molecular function, biological process and/or cellular component sub-ontology. According to the results of GO annotation, 24 genes were found associated with stress adaptation, including genes respond to stimulus and genes involve in antioxidant activity. Codon usage of K. alvarezii was also analyzed based on the 23251 codons from these 132 known genes. The codon usage bias was found quite different to the other red algae. The average GC content in codons and the GC usage in the third codon position were lower than the other algae. These data have laid a foundation for further study on gene functions of K. alvarezii. |
| Key words: Kappaphycus alvarezii, Expressed sequence tag analysis, Stress resistance correlated gene, Coden usage |
