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

  • Stephen O Opiyo
  • David Mackey

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 Arabidopsidis thaliana 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 Arabidopsidis genome for further investigation.

Keywords: Partial least squares, Type III effectors, AvrE, and Arabidopsis

African Journal of Biotechnology Vol. 12(39), pp. 5804-5808

Author Biographies

Stephen O Opiyo
Molecular and Cellular Imaging Center-Columbus, Ohio Agricultural Research and Development Center, Columbus, OH 43210, U. S. A
David Mackey
Department of Horticulture and Crop Science, Ohio State University, Columbus, OH 43210
Published
2016-05-16
Section
Articles

Journal Identifiers


eISSN: 1684-5315