Biochemical Genetics

, Volume 45, Issue 1, pp 113–129

Phylogenetic Analysis of AA-genome Oryza Species (Poaceae) Based on Chloroplast, Mitochondrial, and Nuclear DNA Sequences

  • Shihua Duan
  • Baorong Lu
  • Zhong Li
  • Jiping Tong
  • Jin Kong
  • Wen Yao
  • Shaoqing Li
  • Yingguo Zhu
OriginalArticle

DOI: 10.1007/s10528-006-9062-x

Cite this article as:
Duan, S., Lu, B., Li, Z. et al. Biochem Genet (2007) 45: 113. doi:10.1007/s10528-006-9062-x

Species in the genus Oryza (Poaceae) contain 10 genomic types and are distributed in pan-tropics of the world. To explore phylogenetic relationships of Oryza species having the AA-genome, DNA sequences of the chloroplast trnL intron and trnL-trnF spacer, mitochondrial nad1 intron 2, and nuclear internal transcribed spacer were analyzed, based on materials from 6 cultivated (O. sativa and O. glaberrima) and 13 wild accessions, in addition to a CC-genome species (O. officinalis) that was used as an outgroup. Analyses of the combined sequence data set from different sources provide a much better resolution of the AA-genome species than the individual data set, indicating the limitation of a single gene in phylogenetic reconstruction. The phylogeny based on the combined data set demonstrated an apparent grouping of the AA-genome Oryza species that was well associated with their geographic origin, although the Australian O. meridionalis showed its affinity with the African species. The geographic pattern of the phylogenetic relationship was probably attributed to the frequent genetic exchange and introgression among the AA-genome species from the same continents. In addition, Asian cultivated rice O. sativa showed its close relation to O. rufipogon and O. nivara, whereas African cultivated rice O. glaberrima was closely linked to O. barthii and O. longistaminata, indicating the independent domestication of the two cultivated species in different geographic locations.

KEY WORDS

Oryza rice phylogenetic relationship AA genome DNA sequences 

Copyright information

© Springer Science+Business Media, LLC 2007

Authors and Affiliations

  • Shihua Duan
    • 1
    • 3
  • Baorong Lu
    • 2
  • Zhong Li
    • 1
  • Jiping Tong
    • 1
  • Jin Kong
    • 1
  • Wen Yao
    • 1
  • Shaoqing Li
    • 1
  • Yingguo Zhu
    • 1
  1. 1.Ministry of Education Key Laboratory for Plant Developmental Biology, College of Life ScienceWuhan UniversityWuhanP.R. China
  2. 2.Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity ScienceFudan UniversityShanghaiP.R. China
  3. 3.College of Life ScienceJinggangshan UniversityJi’anP.R. China