Genome-wide analysis of Aux/IAA and ARF gene families in Populus trichocarpa

Authors

Udaya C. Kalluri, Oak Ridge National Laboratory
Stephen P. DiFazio, West Virginia University
Amy M. Brunner, Virginia Polytechnic Institute and State University
Gerald A. Tuskan, Oak Ridge National Laboratory

Author ORCID Identifier

https://orcid.org/0000-0002-5963-8370

https://orcid.org/0000-0003-4077-1590

https://orcid.org/0000-0003-4362-5687

https://orcid.org/0000-0003-0106-1289

Document Type

Article

Publication Date

2008

College/Unit

Eberly College of Arts and Sciences

Department/Program/Center

Biology

Abstract

Background

Auxin/Indole-3-Acetic Acid (Aux/IAA) and Auxin Response Factor (ARF) transcription factors are key regulators of auxin responses in plants. We identified the suites of genes in the two gene families in Populus and performed comparative genomic analysis with Arabidopsis and rice.

Results

A total of 35 Aux/IAA and 39 ARF genes were identified in the Populus genome. Comparative phylogenetic analysis revealed that several Aux/IAA and ARF subgroups have differentially expanded or contracted between the two dicotyledonous plants. Activator ARF genes were found to be two fold-overrepresented in the Populusgenome. PoptrIAA and PoptrARF gene families appear to have expanded due to high segmental and low tandem duplication events. Furthermore, expression studies showed that genes in the expanded PoptrIAA3 subgroup display differential expression.

Conclusion

The present study examines the extent of conservation and divergence in the structure and evolution of Populus Aux/IAA and ARF gene families with respect to Arabidopsisand rice. The gene-family analysis reported here will be useful in conducting future functional genomics studies to understand how the molecular roles of these large gene families translate into a diversity of biologically meaningful auxin effects.

Digital Commons Citation

Kalluri, Udaya C.; DiFazio, Stephen P.; Brunner, Amy M.; and Tuskan, Gerald A., "Genome-wide analysis of Aux/IAA and ARF gene families in Populus trichocarpa" (2008). Faculty & Staff Scholarship. 2847.
https://researchrepository.wvu.edu/faculty_publications/2847

Source Citation

Kalluri, U.C., DiFazio, S.P., Brunner, A.M. et al. Genome-wide analysis of Aux/IAA and ARF gene families in Populus trichocarpa. BMC Plant Biol 7, 59 (2007). https://doi.org/10.1186/1471-2229-7-59

Comments

© 2007 Kalluri et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.