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Biologia Plantarum

, Volume 56, Issue 4, pp 667–674 | Cite as

Phylogenetic, structure and expression analysis of ABC1Ps gene family in rice

  • S. G. Yang
  • T. Li
  • M. Liu
  • S. J. Gao
  • S. Y. Yang
  • L. Li
  • C. W. Yang
Article

Abstract

The ABC1 protein family (ABC1P), a new family of putative kinases, widely existed in procaryote and eucaryote. A comprehensive genome-wide analysis was carried out in this study to find all ABC1Ps in rice (Oryza sativa subsp. japonica). We identified 15 ABC1P genes in rice. All the ABC1Ps contained an ABC1 domain of about 120 conserved amino acid residues and conserved kinase motifs-VAIK (VAVK, VAMK) and DFG (DEG). The phylogenetic analysis showed that all the ABC1Ps were grouped into three subgroups, and formed a total of 12 sister pairs. Conserved motifs analysed by MEME program indicated that almost all ABC1Ps contains motifs 1, 3, 7, 8 and 9. Predictably, the ABC1Ps were localized in mitochondria or chloroplasts, which implied that the ABC1Ps might be involved in energy metabolism in plants. RT-PCR assays demonstrated that all 15 ABC1P genes were active, and some of them were affected by abiotic stresses (NaCl, high temperature, methyl viologen, abscisic acid and cadmium).

Additional keywords

abiotic stress kinases Oryza sativa phylogenetic analysis 

Abbreviations

ABA

abscisic acid

CDD

conserved domain database

KOME

knowledge-based Oryza molecular biological encyclopedia

MV

methyl viologen

NCBI

National Centre for Biotechnology Information

RiceGE

the rice functional genomic express database

RT-PCR

reverse transcription polymerase chain reaction

TIGR

the Institute for Genomic Research database

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Copyright information

© Springer Science+Business Media B.V. 2012

Authors and Affiliations

  • S. G. Yang
    • 1
    • 2
  • T. Li
    • 1
  • M. Liu
    • 1
  • S. J. Gao
    • 3
  • S. Y. Yang
    • 1
  • L. Li
    • 1
  • C. W. Yang
    • 1
  1. 1.College of Life ScienceSouth China Normal UniversityGuangzhouP.R. China
  2. 2.South China Botanical GardenChinese Academy of ScienceGuangzhouP.R. China
  3. 3.Zhongkai University of Agiculture and EngineeringGuangzhouP.R.China

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