RRC ID 6978
Author Kumagai M, Wang L, Ueda S.
Title Genetic diversity and evolutionary relationships in genus Oryza revealed by using highly variable regions of chloroplast DNA.
Journal Gene
Abstract We studied the phylogeny of the genus Oryza using chloroplast DNA sequences. To identify regions containing sufficient variation for elucidating the relationship of closely related species with fine resolution and high reliability, we first compared the complete chloroplast sequences of Oryza sativa japonica, O. sativa indica, and O. nivara, and identified regions containing many variant sites. Nucleotide sequences of the variant regions were newly determined in 19 Oryza species including 58 cultivated and wild strains. An in silico pre-analysis of the whole chloroplast genome and subsequent nucleotide sequencing of the regions with the greatest number of variant sites, which were disclosed to be hot spots by the in silico pre-analysis, enabled us to examine genetic diversity in the genus Oryza with excellent resolution. Based on phylogenetic trees constructed using highly diverged regions in the chloroplast genome, we discuss the maternal relationships among Oryza species.
Volume 462(1-2)
Pages 44-51
Published 2010-8-15
DOI 10.1016/j.gene.2010.04.013
PII S0378-1119(10)00174-5
PMID 20450965
MeSH Base Sequence Biological Evolution Chloroplasts / genetics* DNA, Chloroplast / genetics* Genetic Variation* Genome, Chloroplast Oryza / classification Oryza / genetics* Phylogeny*
IF 2.638
Times Cited 19
Rice W2003 W2145 W0643 W0652 W1625 W1514 W1628