African Journal of
Biotechnology

  • Abbreviation: Afr. J. Biotechnol.
  • Language: English
  • ISSN: 1684-5315
  • DOI: 10.5897/AJB
  • Start Year: 2002
  • Published Articles: 12488

Full Length Research Paper

Identification of proteins similar to AvrE type III effector proteins from Arabidopsidis thaliana genome with partial least squares

Stephen O. Opiyo1* and David Mackey2
1Molecular and Cellular Imaging Center-Columbus, Ohio Agricultural Research and Development Center, Columbus, OH 43210, U. S. A. 2Department of Horticulture and Crop Science, Ohio State University, Columbus, OH 43210.
Email: [email protected]

  •  Accepted: 02 August 2013
  •  Published: 25 September 2013

Abstract

Type III effector proteins are injected into host cells through type III secretion systems. Some effectors are similar to host proteins to promote pathogenicity, while others lead to the activation of disease resistance. We used partial least squares alignment-free bioinformatics methods to identify proteins similar to AvrE proteins from Arabidopsidisthaliana genome and identified 61 protein candidates. Using information from Genevestigator, Arabidopsidis GEB, KEGG, (GEO: accession number GSE22274), and AraCyc databases, we highlighted 16 protein candidates from Arabidopsidisgenome for further investigation.

 

Key words: Partial least squares, Type III effectors, AvrE, and Arabidopsis.

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This article is published under the terms of the Creative Commons Attribution License 4.0

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