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Current Microbiology

, Volume 66, Issue 1, pp 96–101 | Cite as

A New Vector for Identification of Prokaryotes and Their Variable-Size Genomes

  • Tao Hou
  • Fu LiuEmail author
  • Caixia X. Lin
  • Dingyuan Y. Li
Article

Abstract

A large number of prokaryotes have been produced, so how to provide a means to describe and distinguish them accurately is becoming a key issue of prokaryotic taxonomy. We proposed an efficient algorithm to filter out most genome fragments that are horizontally transferred, and extracted a new genome vector (GV). To highlight the power of GV, we applied it to identify prokaryotes and their variable-size genome fragments. The result indicated that the new vector as species tags can accurately identify genome fragments as short as 3,000 bp at species level.

Keywords

Genome Fragment Identification Accuracy Dissimilarity Index Genome Vector Gray Strip 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Notes

Acknowledgments

The research was supported by the Graduate Innovation Fund of Jilin University (20121101). We would like to thank the anonymous reviewers for their helpful comments on our work. We would also like to thank Dr. Xu, Y and Dr. Zhou F for their helpful discussions.

Supplementary material

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Supplementary material 1 (XLS 85 kb)
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Supplementary material 2 (XLS 5594 kb)
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Supplementary material 3 (XLSX 20 kb)

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Copyright information

© Springer Science+Business Media New York 2012

Authors and Affiliations

  • Tao Hou
    • 1
  • Fu Liu
    • 1
    Email author
  • Caixia X. Lin
    • 2
  • Dingyuan Y. Li
    • 1
  1. 1.College of Communications Engineering, Jilin UniversityChangchunChina
  2. 2.College of Information, Hainan UniversityHaikouChina

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