东北大学学报:自然科学版 ›› 2016, Vol. 37 ›› Issue (10): 1465-1468.DOI: 10.12068/j.issn.1005-3026.2016.10.021

• 资源与土木工程 • 上一篇    下一篇

Paenibacillus Shenyangensis的DNA序列拼接与组装

付丽丽1,2, 姜彬慧1, 胡筱敏1   

  1. (1. 东北大学 资源与土木工程学院, 辽宁 沈阳110819; 2. 辽宁石油化工大学 石油天然气工程学院, 辽宁 抚顺113001)
  • 收稿日期:2015-10-27 修回日期:2015-10-27 出版日期:2016-10-15 发布日期:2016-10-14
  • 通讯作者: 付丽丽
  • 作者简介:付丽丽(1982 -),女,辽宁沈阳人,东北大学博士研究生; 胡筱敏(1958-),男,江西婺源人,东北大学教授,博士生导师.
  • 基金资助:
    国家科技重大专项(2013ZX07202-010); 国家自然科学基金资助项目(51278090).

DNA Sequence Assembly of Paenibacillus Shenyangensis

FU Li-li1,2, JIANG Bin-hui1, HU Xiao-min1   

  1. 1. School of Resources & Civil Engineering, Northeastern University, Shenyang 110819, China; 2. College of Petroleum Engineering, Liaoning Shihua University, Fushun 113001, China.
  • Received:2015-10-27 Revised:2015-10-27 Online:2016-10-15 Published:2016-10-14
  • Contact: HU Xiao-min
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摘要: 在已有测序数据基础上,利用三种常见的序列组装软件对Paenibacillus Shenyangensis全基因组测序结果进行拼接组装,分析比较了不同软件在各自最优参数条件下DNA序列的组装数据,并与NCBI数据库中类芽孢杆菌属其他近缘种进行基因比对与预测.结果表明,SOAPdenovo的组装结果最优,在k-mer为23时,组装基因组总长和N50分别为5501467和293864bp,预测的4800个基因中有4393个与NCBI-Nr数据库比对并注释成功.

关键词: 序列拼接, 基因组, 絮凝菌, 高通量测序, 类芽孢杆菌

Abstract: On the basis of existing sequencing data, three sequence assembling programs were utilized to assemble the genome sequence of Paenibacillus Shenyangensis. The assembly data of DNA sequence were analyzed and compared with different software in their optimal parameters, and were compared with genes of the other species of the Paenibacillus in the NCBI database.The results showed that SOAPdenovo is the most appropriate assemble software. When k-mer is 23, the total genome length and N50 are 5501467 and 293864bp, respectively. 4393 of the total 4800 genes are successfully matched and annotated.

Key words: sequence assembly, genome, flocculants bacteria, high-throughput sequencing, Paenibacillus

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