基于NCBI核酸数据库资源的黑曲霉微卫星序列的筛选  

Screening of Microsatellite DNA from Aspergillus niger Based on NCBI Nucleic Acid Database Resource

作　　者：李瑶瑶[1] 刘云国[1,2] 张亮 高新玉 王敏强[1] 刘凌霄 

机构地区：[1]烟台大学生命科学学院,山东烟台264005 [2]新疆大学生命科学与技术学院,乌鲁木齐830046 [3]青州荣美尔生物科技股份有限公司,山东青州262500 [4]山东省思威化学品安全评价中心,济南250013

出　　处：《鲁东大学学报（自然科学版）》2017年第2期152-158,共7页Journal of Ludong University:Natural Science Edition

基　　金：新疆自治区天山学者科研启动金(45030);新疆自治区高层次人才引进工程专项经费(45049)

摘　　要：为了筛选黑曲霉微卫星序列,丰富黑曲霉的基因组资料,从而为开发黑曲霉多态性高的微卫星标记提供参考,本研究利用生物信息学方法在黑曲霉基因组中查询微卫星序列,并对其基因组中微卫星数量、丰度进行了研究.利用SSRHunter 1.3在长度为2704975 bp的黑曲霉基因组中找到了171个微卫星序列.结果表明:在黑曲霉微卫星序列所有重复类型中,以两碱基重复数目最多,为92个,占重复序列总数目的 53.80%;其次是三碱基重复,为70个,占40.94%;再次是四碱基9个,占5.26%.在两碱基重复序列中,AG重复类型最多(24.56%),GC最少(1.17%).三碱基重复序列中,共发现10种重复类别,其中以ACC重复类型最多(7.01%),最少的是AAT,ATC和GCC,占1.75%.四碱基重复中,共发现8种重复类别,除GGAT重复序列为2个(1.17%)外,其他分别各有1个(0.58%).同时选取黑曲霉中二碱基的重复次数在七次以上的微卫星序列和三碱基的重复次数在六个以上的微卫星序列,利用Primer Premier5.0软件来设计引物,为后续微卫星标记的筛选奠定基础.To isolate microsatellite sequences from Aspergillus niger and enrich its genomic data, which would benefit the study of microsateIIite markers with high polymorphism of Aspergillus niger, microsatellite sequences were searched in the genome of Aspergillus niger using bioinformatics methods, and the number and abundance of these microsatellites were studied in the research. One hundred and seventy-one microsatellites were found in a 2704975 bp sequence of the Aspergillus niger genome by the software SSR Hunter 1.3. The results showed that ： in all the repeat types of microsatellite DNA from Aspergillus niger, the number of the two-base repeat type （92）, was the largest, accounting for 53.80% of the total number of repeated sequences ; followed by the three-base repeat type （70）, accounting for 40.94% and the four-base repeat type （9）, accounting for 5.26%. In the two-base repeat sequences, the AG repeat class is the most （24.56%） and GC is the least （23.92%）. We found ten repeat classes in the three-base repeat sequences, among which the types of ACC were the most, accounting for 7.01%, and the least were AAT, ATC and GCC, accounting for 1.75 %. Eight repeat classes in the four-base repeat sequences were found, in which the type of GGAT was two （1.17%） , the other types were one （0.58%） respectively. Meanwhile, the microsatellite sequences of Aspergillus niger with the number of the two-base repeat type above seven and the number of the three-base repeat type above six were selected to design primers using Primer Premier 5.0 software to lay the foundation for the subsequent screening of microsatellite markers.

关 键 词：黑曲霉 微卫星序列 生物信息学 基因组 引物 

分 类 号：Q75[生物学—分子生物学]