Genome-wide analysis of the AP2/ERF gene family in Populus trichocarpa

Biochem Biophys Res Commun. 2008 Jul 4;371(3):468-74. doi: 10.1016/j.bbrc.2008.04.087. Epub 2008 Apr 28.

Abstract

Populus is a model system for investigating the wood development, crown formation, and disease resistance in perennial plants. AR2/ERF is a large family of transcription factors in plant, encoding transcriptional regulators with a variety of functions involved in the developmental and physiological processes. Here, starting from database of Populus genome, we identified 200 AP2/ERF genes by in silico cloning method using the AP2/ERF conserved domain amino acid sequence of Arabidopsis thaliana as probe. Based on the number of AP2/ERF domains and the function of the genes, those AP2/ERF genes from Populus were classified into four subfamilies named the AP2, DREB, ERF, RAV, and a soloist. Among these genes, the number genes of total AP2/ERF family genes, DREB subfamily, and ERF subfamily from Populus trichocarpa were about 1.4-1.6-fold than those from A. thaliana. The rates were very similar for the putative homologs between Populus and Arabidopsis.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Arabidopsis / genetics
  • Cloning, Molecular
  • Computational Biology
  • Conserved Sequence
  • Gene Expression Regulation, Plant
  • Genome, Plant*
  • Phylogeny
  • Plant Proteins / chemistry
  • Plant Proteins / classification*
  • Plant Proteins / genetics*
  • Populus / genetics*
  • Protein Folding
  • Sequence Analysis, Protein
  • Transcription Factors / chemistry
  • Transcription Factors / classification*
  • Transcription Factors / genetics*

Substances

  • Plant Proteins
  • Transcription Factors