Journal Article

A Comprehensive Expression Analysis of the <i>Arabidopsis</i> Proline-rich Extensin-like Receptor Kinase Gene Family using Bioinformatic and Experimental Approaches

Alina Nakhamchik, Zhiying Zhao, Nicholas J. Provart, Shin-Han Shiu, Sarah K. Keatley, Robin K. Cameron and Daphne R. Goring

in Plant and Cell Physiology

Published on behalf of Japanese Society of Plant Physiologists

Volume 45, issue 12, pages 1875-1881
Published in print December 2004 | ISSN: 0032-0781
Published online December 2004 | e-ISSN: 1471-9053 | DOI: http://dx.doi.org/10.1093/pcp/pch206
A Comprehensive Expression Analysis of the Arabidopsis Proline-rich Extensin-like Receptor Kinase Gene Family using Bioinformatic and Experimental Approaches

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  • Biochemistry
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The Arabidopsis proline-rich extensin-like receptor kinase (PERK) family consists of 15 predicted receptor kinases. A comprehensive expression analysis was undertaken to identify overlapping and unique expression patterns within this family relative to their phylogeny. Three different approaches were used to study AtPERK gene family expression, and included analyses of the EST, MPSS and NASCArrays databases as well as experimental RNA blot analyses. Some of the AtPERK members were identified as tissue-specific genes while others were more broadly expressed. While in some cases there was a good association between these different expression patterns and the position of the AtPERK members in the kinase phylogeny, in other cases divergence of expression patterns was seen. The PERK expression data identified by the bioinformatics and experimental approaches were found generally to show similar trends and supported the use of data from large-scale expression studies for obtaining preliminary expression data. Thus, the bioinformatics survey for ESTs and microarrays is a powerful comprehensive approach for obtaining a genome-wide view of genes in a multigene family.

Keywords: Keywords: AtPERK gene family — Gene expression — MPSS — NASCArrays — Receptor kinases.; Abbreviations: EST, expressed sequence tag; MPSS, massively parallel signature sequencing; PERK, proline-rich, extensin-like receptor kinase; RLCK, receptor-like cytoplasmic kinase; WAK, wall-associated kinases.

Journal Article.  4648 words.  Illustrated.

Subjects: Biochemistry ; Molecular and Cell Biology ; Plant Sciences and Forestry

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