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

Abstract

Auxin/Indole-3-Acetic Acid (Aux/IAA) and Auxin Response Factor (ARF) transcription factors are key regulators of auxin responses in plants. A total of 35 Aux/IAA and 39 ARF genes were identified in the Populus genome. Comparative phylogenetic analysis revealed that the subgroups PoptrARF2, 6, 9 and 16 and PoptrIAA3, 16, 27 and 29 have differentially expanded in Populus relative to Arabidopsis. Activator ARFs were found to be two fold-overrepresented in the Populus genome. 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. 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.

Authors:
 [1];  [2];  [3];  [1]
  1. ORNL
  2. West Virginia University
  3. Virginia Polytechnic Institute and State University (Virginia Tech)
Publication Date:
Research Org.:
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Sponsoring Org.:
USDOE Office of Science (SC)
OSTI Identifier:
932017
DOE Contract Number:
DE-AC05-00OR22725
Resource Type:
Journal Article
Resource Relation:
Journal Name: BMC Plant Biology; Journal Volume: 7; Journal Issue: 59
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; 60 APPLIED LIFE SCIENCES; ARABIDOPSIS; AUXINS; FUNCTIONALS; GENES; TRANSCRIPTION FACTORS; Auxin; Aux/IAA; ARF; Populus; Phylogenetic Analysis; Comparative Genomics

Citation Formats

Kalluri, Udaya C, DiFazio, Stephen P, Brunner, A., and Tuskan, Gerald A. Genome-wide analysis of Aux/IAA and ARF gene families in Populus trichocarpa. United States: N. p., 2007. Web. doi:10.1186/1471-2229-7-59.
Kalluri, Udaya C, DiFazio, Stephen P, Brunner, A., & Tuskan, Gerald A. Genome-wide analysis of Aux/IAA and ARF gene families in Populus trichocarpa. United States. doi:10.1186/1471-2229-7-59.
Kalluri, Udaya C, DiFazio, Stephen P, Brunner, A., and Tuskan, Gerald A. Mon . "Genome-wide analysis of Aux/IAA and ARF gene families in Populus trichocarpa". United States. doi:10.1186/1471-2229-7-59.
@article{osti_932017,
title = {Genome-wide analysis of Aux/IAA and ARF gene families in Populus trichocarpa},
author = {Kalluri, Udaya C and DiFazio, Stephen P and Brunner, A. and Tuskan, Gerald A},
abstractNote = {Auxin/Indole-3-Acetic Acid (Aux/IAA) and Auxin Response Factor (ARF) transcription factors are key regulators of auxin responses in plants. A total of 35 Aux/IAA and 39 ARF genes were identified in the Populus genome. Comparative phylogenetic analysis revealed that the subgroups PoptrARF2, 6, 9 and 16 and PoptrIAA3, 16, 27 and 29 have differentially expanded in Populus relative to Arabidopsis. Activator ARFs were found to be two fold-overrepresented in the Populus genome. 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. 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.},
doi = {10.1186/1471-2229-7-59},
journal = {BMC Plant Biology},
number = 59,
volume = 7,
place = {United States},
year = {Mon Jan 01 00:00:00 EST 2007},
month = {Mon Jan 01 00:00:00 EST 2007}
}