Genome-wide survey and expression analysis of amino acid transporter gene family in rice (Oryza sativa L.)

PLoS One. 2012;7(11):e49210. doi: 10.1371/journal.pone.0049210. Epub 2012 Nov 15.


Background: Amino acid transporters (AATs) that transport amino acids across cellular membranes are essential for plant growth and development. To date, a genome-wide overview of the AAT gene family in rice is not yet available.

Methodology/principal findings: In this study, a total of 85 AAT genes were identified in rice genome and were classified into eleven distinct subfamilies based upon their sequence composition and phylogenetic relationship. A large number of OsAAT genes were expanded via gene duplication, 23 and 24 OsAAT genes were tandemly and segmentally duplicated, respectively. Comprehensive analyses were performed to investigate the expression profiles of OsAAT genes in various stages of vegetative and reproductive development by using data from EST, Microarrays, MPSS and Real-time PCR. Many OsAAT genes exhibited abundant and tissue-specific expression patterns. Moreover, 21 OsAAT genes were found to be differentially expressed under the treatments of abiotic stresses. Comparative analysis indicates that 26 AAT genes with close evolutionary relationships between rice and Arabidopsis exhibited similar expression patterns.

Conclusions/significance: This study will facilitate further studies on OsAAT family and provide useful clues for functional validation of OsAATs.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Amino Acid Transport Systems / genetics*
  • Amino Acid Transport Systems / metabolism*
  • Arabidopsis / genetics
  • Arabidopsis / metabolism
  • Chromosome Mapping
  • Computational Biology
  • Gene Expression Profiling
  • Gene Expression Regulation, Plant / physiology*
  • Genes, Duplicate / genetics
  • Genomics
  • Microarray Analysis
  • Molecular Sequence Data
  • Multigene Family / genetics*
  • Oryza / genetics*
  • Phylogeny*
  • Real-Time Polymerase Chain Reaction
  • Sequence Alignment
  • Species Specificity
  • Stress, Physiological / genetics


  • Amino Acid Transport Systems

Grant support

This work was supported by National Basic Research Program of China (973 Program) (2012CB944801,, the Special Doctorial Program Funds of the Ministry of Education of China (20090141110035,, and the National Natural Science Foundation of China (31170171, The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.