Title

Genome-wide expression analysis of genetic networks in Neurospora crassa

Authors

David A. Logan¹, Allison L. Koch², Wubei Dong², James Griffith^{2, 4}, Roger Nilsen², Mary E. Case², Heinz-Bernd Schüttler ³ and Jonathan Arnold^2*

Affiliation

¹Department of Biological Sciences, Clark Atlanta University, Atlanta, GA - 30314; ²Department of Genetics, University of Georgia, Athens, GA -30602; ³Department of Physics and Astronomy, University of Georgia, Athens, GA - 30602; ⁴College of Agricultural and Environmental Sciences, University of Georgia, Athens, GA - 30602

Email

arnold@uga.edu

Phone

+706 542 1449

Fax

+706 542 3910; * Corresponding author

Article Type

Prediction Model

Date

      received December 09, 2006; accepted January 20, 2007; published online April 10, 2007

Abstract

The products of five structural genes and two regulatory genes of the qa gene cluster of Neurospora crassa control the metabolism of quinic acid (QA) as a carbon source. A detailed genetic network model of this metabolic process has been reported.  This investigation is designed to expand the current model of the QA reaction network.  The ensemble method of network identification was used to model RNA profiling data on the qa gene cluster. Through microarray and cluster analysis, genome-wide identification of RNA transcripts associated with quinic acid metabolism in N. crassa is described and suggests a connection to other metabolic circuits.  More than 100 genes whose products include carbon metabolism, protein degradation and modification, amino acid metabolism and ribosome synthesis appear to be connected to quinic acid metabolism.  The core of the qa gene cluster network is validated with respect to RNA profiling data obtained from microarrays. 

Keywords

genetic networks; quinic acid; qa gene cluster; genome; microarray

Citation

Logan et al., Bioinformation 1(10): 390-395 (2007)

Edited by

Susmita Datta

ISSN

0973-2063

Publisher

Biomedical Informatics

License

This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.