| RRC ID |
676
|
| Author |
Nishikawa T, Vaughan DA, Kadowaki K.
|
| Title |
Phylogenetic analysis of Oryza species, based on simple sequence repeats and their flanking nucleotide sequences from the mitochondrial and chloroplast genomes.
|
| Journal |
Theor Appl Genet
|
| Abstract |
Simple sequence repeats (SSR) and their flanking regions in the mitochondrial and chloroplast genomes were sequenced in order to reveal DNA sequence variation. This information was used to gain new insights into phylogenetic relationships among species in the genus Oryza. Seven mitochondrial and five chloroplast SSR loci equal to or longer than ten mononucleotide repeats were chosen from known rice mitochondrial and chloroplast genome sequences. A total of 50 accessions of Oryza that represented six different diploid genomes and three different allopolyploid genomes of Oryza species were analyzed. Many base substitutions and deletions/insertions were identified in the SSR loci as well as their flanking regions. Of mononucleotide SSR, G (or C) repeats were more variable than A (or T) repeats. Results obtained by chloroplast and mitochondrial SSR analyses showed similar phylogenetic relationships among species, although chloroplast SSR were more informative because of their higher sequence diversity. The CC genome is suggested to be the maternal parent for the two BBCC genome species (O. punctata and O. minuta) and the CCDD species O. latifolia, based on the high level of sequence conservation between the diploid CC genome species and these allotetraploid species. This is the first report of phylogenetic analysis among plant species, based on mitochondrial and chloroplast SSR and their flanking sequences.
|
| Volume |
110(4)
|
| Pages |
696-705
|
| Published |
2005-2-1
|
| DOI |
10.1007/s00122-004-1895-2
|
| PMID |
15650813
|
| MeSH |
Base Sequence
Chloroplasts / genetics*
DNA, Mitochondrial
DNA, Plant
Genome, Plant*
Minisatellite Repeats*
Mitochondria / genetics*
Oryza / classification*
Oryza / genetics
Phylogeny
Polyploidy
|
| IF |
4.439
|
| Times Cited |
50
|
|
WOS Category
|
HORTICULTURE
AGRONOMY
PLANT SCIENCES
GENETICS & HEREDITY
|
| Resource |
| Rice |
W0120
W0157
W2078
W2099
W0652
W1421
W1499
W1650
W1625
W1635
W1169
W1183
W2199
W0002
W0614
W1213
W1337
W1525
W1514
W0015
W0043
W1564
W0048
W1181
W0018
W0613
W1480
W1639
W0001
W0604
W1220
W1228
W0067
W0022
W1345
W1620 |
