人胃癌中差异甲基化基因组片段的分离与生物信息学分析
Isolation and bioinformatics analysis of differentially methylated genomic fragments in human gastric cancer.
作者信息
Liao Ai-Jun, Su Qi, Wang Xun, Zeng Bin, Shi Wei
机构信息
Cancer Research Institute, Nanhua University, The First Affiliated Hospital, Hengyang 421001, Hunan Province, China.
出版信息
World J Gastroenterol. 2008 Mar 7;14(9):1333-8. doi: 10.3748/wjg.14.1333.
AIM
To isolate and analyze the DNA sequences which are methylated differentially between gastric cancer and normal gastric mucosa.
METHODS
The differentially methylated DNA sequences between gastric cancer and normal gastric mucosa were isolated by methylation-sensitive representational difference analysis (MS-RDA). Similarities between the separated fragments and the human genomic DNA were analyzed with Basic Local Alignment Search Tool (BLAST).
RESULTS
Three differentially methylated DNA sequences were obtained, two of which have been accepted by GenBank. The accession numbers are AY887106 and AY887107. AY887107 was highly similar to the 11th exon of LOC440683 (98%), 3' end of LOC440887 (99%), and promoter and exon regions of DRD5 (94%). AY887106 was consistent (98%) with a CpG island in ribosomal RNA isolated from colorectal cancer by Minoru Toyota in 1999.
CONCLUSION
The methylation degree is different between gastric cancer and normal gastric mucosa. The differentially methylated DNA sequences can be isolated effectively by MS-RDA.
目的
分离并分析胃癌与正常胃黏膜之间存在差异甲基化的DNA序列。
方法
采用甲基化敏感的代表性差异分析（MS-RDA）法分离胃癌与正常胃黏膜之间差异甲基化的DNA序列。利用基本局部比对搜索工具（BLAST）分析分离片段与人类基因组DNA之间的相似性。
结果
获得了3个差异甲基化的DNA序列，其中2个已被GenBank收录。登录号分别为AY887106和AY887107。AY887107与LOC440683的第11外显子高度相似（98%），与LOC440887的3'端高度相似（99%），与DRD5的启动子和外显子区域高度相似（94%）。AY887106与1999年丰田实从结直肠癌中分离出的核糖体RNA中的一个CpG岛一致性为98%。
结论
胃癌与正常胃黏膜的甲基化程度不同。采用MS-RDA法可有效分离差异甲基化的DNA序列。
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