遗传 ›› 2010, Vol. 32 ›› Issue (11): 1195-1202.doi: 10.3724/SP.J.1005.2010.01195

• 研究报告 • 上一篇    

构巢曲霉与30种丝状子囊菌的基因组比较

曾昭清1, 赵福永1, Tom Hsiang2, 余知和1   

  1. 1. 长江大学生命科学学院, 荆州 434025; 2. Guelph大学环境生物学系, 加拿大
  • 收稿日期:2010-01-06 修回日期:2010-03-05 出版日期:2010-11-20 发布日期:2010-11-25
  • 通讯作者: 余知和 E-mail:zhiheyu@hotmail.com
  • 基金资助:

    湖北省自然科学基金项目(编号:2009CDB362)和湖北省国际交流合作项目(编号:2009BFA014)资助

Comparison of genomes between Aspergillus nidulans and 30 filamentous ascomycetes

ZENG Zhao-Qing1, ZHAO Fu-Yong1, HSIANG Tom2, YU Zhi-He1   

  1. 1. College of Life Science, Yangtze University, Jingzhou 434025, China; 2. Department of Environmental Biology, University of Guelph, Guelph N1G 2W1, Canada
  • Received:2010-01-06 Revised:2010-03-05 Online:2010-11-20 Published:2010-11-25
  • Contact: YU Zhi-He1 E-mail:zhiheyu@hotmail.com

摘要: 为探讨丝状子囊菌的序列同源性, 文章利用公开发表的真菌基因组序列构建本地基因组数据库, 设置E 值统计阈值为0.1, 将构巢曲霉(Aspergillus nidulans)基因组的10 560个注释基因分别与30种丝状子囊菌基因组比较。结果表明, 同源匹配基因数量的多少可反映子囊菌之间的进化关系。构巢曲霉基因组的924个基因与这 30种子囊菌基因组同时存在匹配序列, 其中E值在10-5~0.1、10-30 ~10-5、10-100 ~10-30、0~10-100范围内都存在匹配序列的基因分别为6个、3个、6个和6个。ClustalX多序列比对分析显示, E值10-5~0.1的6组序列和E值10-30~10-5的3组序列均显示变异性过大而E值0~10-100的6组序列过于保守, E值介于10-100 ~10-30之间的6组同源序列可用于本研究的31种子囊菌系统学分析。

关键词: E值, 真菌基因组, 同源性, Standalone Blast

Abstract: To investigate the conserved homologs of filamentous ascomycetes genomes, the local fungal genome database used in this analysis was established, which consisted of 31 latest and complete genome data publicly available on the Internet. An expectation value cutoff of 0.1 was used to identify significant hits. Each complete gene set of the query genome Aspergillus nidulans genome with 10 560 annotated genes was splitted into individual FASTA files with Seqverter and then compared separately against each filamentous ascomycete genome using Standalone BLASTN. The result indicated that the number of matches reflected the evolutional relationships of the filamentous ascomycetes analysed. Of 10 560 genes in Aspergillus nidulans genome, 924 had match sequences with other 30 filamentous ascomycetes ones. The number of homology sequences were 6, 3, 6, and 6 at E-values in the range of 10-5 to 0.1, 10-30 to 10-5, 10-100 to 10-5 and 0 to 10-100, respecively. Six homologs at E-values ranging from 10-5 to 0.1 and 3 at E-values ranging from 10-30 to 10-5 were variable, while the 6 at E-values ranging from 0 to 10-100 were highly conserved based on the alignments using ClustalX. Six homologs were relatively conserved at E-values in the range of 10-100 to 10-30, which can be used in phylogeny of these filamentous ascomycetes in this study.

Key words: Standalone Blast, Expect value, fungal genomes, homology