-
1
-
-
0030954893
-
Two new genomes in the Oryza complex identified on the basis of molecular divergence analysis using total genomic DNA hybridization
-
Aggarwal R.K., Brar D.S., Khush G.S. Two new genomes in the Oryza complex identified on the basis of molecular divergence analysis using total genomic DNA hybridization. Mol. Gen. Genet. 1997, 254:1-12.
-
(1997)
Mol. Gen. Genet.
, vol.254
, pp. 1-12
-
-
Aggarwal, R.K.1
Brar, D.S.2
Khush, G.S.3
-
2
-
-
0032766702
-
Phylogenetic relationships among Oryza species revealed by AFLP markers
-
Aggarwal R.K., Brar D.S., Nandi S., Huang N., Khush G.S. Phylogenetic relationships among Oryza species revealed by AFLP markers. Theor. Appl. Genet. 1999, 98:1320-1328.
-
(1999)
Theor. Appl. Genet.
, vol.98
, pp. 1320-1328
-
-
Aggarwal, R.K.1
Brar, D.S.2
Nandi, S.3
Huang, N.4
Khush, G.S.5
-
3
-
-
0004187047
-
-
Harvard University Press, London
-
Avise J.C. Phylogeography 2000, Harvard University Press, London.
-
(2000)
Phylogeography
-
-
Avise, J.C.1
-
4
-
-
0034987158
-
RAPD, RFLP and SSLP analyses of phylogenetic relationships between cultivated and wild species of rice
-
Bautista N.S., Solis R., Kamijima O., Ishii T. RAPD, RFLP and SSLP analyses of phylogenetic relationships between cultivated and wild species of rice. Genes Genet. Syst. 2001, 76:71-79.
-
(2001)
Genes Genet. Syst.
, vol.76
, pp. 71-79
-
-
Bautista, N.S.1
Solis, R.2
Kamijima, O.3
Ishii, T.4
-
5
-
-
0034879552
-
Analysis of random and specific sequences of nuclear and cytoplasmic DNA in diploid and tetraploid american wild rice species (Oryza spp.)
-
Buso G.S., Rangel P.H., Ferreira M.E. Analysis of random and specific sequences of nuclear and cytoplasmic DNA in diploid and tetraploid american wild rice species (Oryza spp.). Genome 2001, 44:476-494.
-
(2001)
Genome
, vol.44
, pp. 476-494
-
-
Buso, G.S.1
Rangel, P.H.2
Ferreira, M.E.3
-
6
-
-
0036814150
-
Evolutionary relationships among rice species with AA genome based on SINE insertion analysis
-
Cheng C., Tsuchimoto S., Ohtsubo H., Ohtsubo E. Evolutionary relationships among rice species with AA genome based on SINE insertion analysis. Genes Genet. Syst. 2002, 77:323-334.
-
(2002)
Genes Genet. Syst.
, vol.77
, pp. 323-334
-
-
Cheng, C.1
Tsuchimoto, S.2
Ohtsubo, H.3
Ohtsubo, E.4
-
7
-
-
0037225254
-
Polyphyletic origin of cultivated rice: based on the interspersion pattern of SINEs
-
Cheng C., Motohashi R., Tsuchimoto S., Fukuta Y., Ohtsubo H., Ohtsubo E. Polyphyletic origin of cultivated rice: based on the interspersion pattern of SINEs. Mol. Biol. Evol. 2003, 20:67-75.
-
(2003)
Mol. Biol. Evol.
, vol.20
, pp. 67-75
-
-
Cheng, C.1
Motohashi, R.2
Tsuchimoto, S.3
Fukuta, Y.4
Ohtsubo, H.5
Ohtsubo, E.6
-
8
-
-
0001282557
-
Chloroplast DNA diversity in wild and cultivated species of rice (genus Oryza, section Oryza) cladistic-mutation and genetic-distance analysis
-
Dally A.M., Second G. Chloroplast DNA diversity in wild and cultivated species of rice (genus Oryza, section Oryza) cladistic-mutation and genetic-distance analysis. Theor. Appl. Genet. 1990, 80:209-222.
-
(1990)
Theor. Appl. Genet.
, vol.80
, pp. 209-222
-
-
Dally, A.M.1
Second, G.2
-
9
-
-
0033799618
-
Active conservation of noncoding sequences revealed by 3-way species comparisons
-
Dubchak I., Brudno M., Loots G.G., et al. Active conservation of noncoding sequences revealed by 3-way species comparisons. Genome Res. 2000, 10:1304.
-
(2000)
Genome Res.
, vol.10
, pp. 1304
-
-
Dubchak, I.1
Brudno, M.2
Loots, G.G.3
-
11
-
-
0000461280
-
Confidence limits on phylogenies: an approach using the bootstrap
-
Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985, 39:783-791.
-
(1985)
Evolution
, vol.39
, pp. 783-791
-
-
Felsenstein, J.1
-
12
-
-
0002918460
-
On the problem of discovering the most parsimonious tree
-
Fitch W.M. On the problem of discovering the most parsimonious tree. Am. Nat. 1977, 111:223-257.
-
(1977)
Am. Nat.
, vol.111
, pp. 223-257
-
-
Fitch, W.M.1
-
13
-
-
3242891068
-
VISTA: computational tools for comparative genomics
-
((Web Server issue):W273-279)
-
Frazer K.A., Pachter L., Poliakov A., Rubin E.M., Dubchak I. VISTA: computational tools for comparative genomics. Nucleic Acids Res. 2004, 1(32). ((Web Server issue):W273-279).
-
(2004)
Nucleic Acids Res.
, vol.1
, Issue.32
-
-
Frazer, K.A.1
Pachter, L.2
Poliakov, A.3
Rubin, E.M.4
Dubchak, I.5
-
14
-
-
0033452726
-
Phylogeny of rice genomes with emphasis on origins of allotetraploid species
-
Ge S., Sang T., Lu B.R., Hong D.Y. Phylogeny of rice genomes with emphasis on origins of allotetraploid species. Proc. Natl Acad. Sci. USA 1999, 96:14400-14405.
-
(1999)
Proc. Natl Acad. Sci. USA
, vol.96
, pp. 14400-14405
-
-
Ge, S.1
Sang, T.2
Lu, B.R.3
Hong, D.Y.4
-
15
-
-
0033679224
-
A biosystematic study of the Oryza meyeriana complex (Poaceae)
-
Gong Y., Borromeo T., Lu B.R. A biosystematic study of the Oryza meyeriana complex (Poaceae). Plant Syst. Evol. 2000, 224:139-151.
-
(2000)
Plant Syst. Evol.
, vol.224
, pp. 139-151
-
-
Gong, Y.1
Borromeo, T.2
Lu, B.R.3
-
16
-
-
0033059511
-
P-SINE1-like intron of the CatA catalase homologs and phylogenetic relationships among AA genome Oryza and related species
-
Iwamoto M., Nagashima H., Nagamine T., Higo H., Higo K. P-SINE1-like intron of the CatA catalase homologs and phylogenetic relationships among AA genome Oryza and related species. Theor. Appl. Genet. 1999, 98:853-861.
-
(1999)
Theor. Appl. Genet.
, vol.98
, pp. 853-861
-
-
Iwamoto, M.1
Nagashima, H.2
Nagamine, T.3
Higo, H.4
Higo, K.5
-
17
-
-
0033916763
-
Genetic diversity and phylogenetic relationship as revealed by inter simple sequence repeat (ISSR) polymorphism in the genus Oryza
-
Joshi S.P., Gupta V.S., Aggarwal R.K., Ranjeker P.K., Brar D.S. Genetic diversity and phylogenetic relationship as revealed by inter simple sequence repeat (ISSR) polymorphism in the genus Oryza. Theor. Appl. Genet. 2000, 100:1311-1320.
-
(2000)
Theor. Appl. Genet.
, vol.100
, pp. 1311-1320
-
-
Joshi, S.P.1
Gupta, V.S.2
Aggarwal, R.K.3
Ranjeker, P.K.4
Brar, D.S.5
-
18
-
-
0000732090
-
Evolution of protein molecules
-
Academic Press, New York, H.N. Munro (Ed.)
-
Jukes T.H., Cantor C.R. Evolution of protein molecules. Mammalian Protein Metabolism 1969, 21-132. Academic Press, New York. H.N. Munro (Ed.).
-
(1969)
Mammalian Protein Metabolism
, pp. 21-132
-
-
Jukes, T.H.1
Cantor, C.R.2
-
19
-
-
0031799253
-
Taxonomic status of Oryza glumaepatula Steud. I. Comparative morphological studies of New World diploids and Asian AA genome species
-
Juliano A.B., Naredo M.E.B., Jackson M.T. Taxonomic status of Oryza glumaepatula Steud. I. Comparative morphological studies of New World diploids and Asian AA genome species. Genet. Res. Crop Evol. 1998, 45:197-203.
-
(1998)
Genet. Res. Crop Evol.
, vol.45
, pp. 197-203
-
-
Juliano, A.B.1
Naredo, M.E.B.2
Jackson, M.T.3
-
20
-
-
0001123432
-
Comparative studies of the structure of chloroplast DNA from four species of Oryza: cloning and physical maps
-
Kanno A., Hirai A. Comparative studies of the structure of chloroplast DNA from four species of Oryza: cloning and physical maps. Theor. Appl. Genet. 1992, 83:791-798.
-
(1992)
Theor. Appl. Genet.
, vol.83
, pp. 791-798
-
-
Kanno, A.1
Hirai, A.2
-
21
-
-
34249814033
-
Genetic variation in the chloroplast genome suggests multiple domestication of cultivated Asian rice (Oryza sativa L.)
-
Kawakami S., Ebana K., Nishikawa T., Sato Y., Vaughan D.A., Kadowaki K. Genetic variation in the chloroplast genome suggests multiple domestication of cultivated Asian rice (Oryza sativa L.). Genome 2007, 50:180-187.
-
(2007)
Genome
, vol.50
, pp. 180-187
-
-
Kawakami, S.1
Ebana, K.2
Nishikawa, T.3
Sato, Y.4
Vaughan, D.A.5
Kadowaki, K.6
-
22
-
-
0031239092
-
Origin, dispersal, cultivation and variation of rice
-
Khush G.S. Origin, dispersal, cultivation and variation of rice. Plant Mol. Biol. 1997, 35:25-34.
-
(1997)
Plant Mol. Biol.
, vol.35
, pp. 25-34
-
-
Khush, G.S.1
-
23
-
-
0011816170
-
-
Elsevier, Amsterdam, S. Tsunoda, N. Takahashi (Eds.)
-
Li H.W., Chen C.C., Wu H.K., Lu K.C.L. Rice Genetics and Cytogenetics 1964, 118-131. Elsevier, Amsterdam. S. Tsunoda, N. Takahashi (Eds.).
-
(1964)
Rice Genetics and Cytogenetics
, pp. 118-131
-
-
Li, H.W.1
Chen, C.C.2
Wu, H.K.3
Lu, K.C.L.4
-
24
-
-
33745439823
-
Phylogeography of Asian wild rice, Oryza rufipogon, reveals multiple independent domestications of cultivated rice, Oryza sativa
-
Londo J.P., Chiang Y.C., Hung K.H., Chiang T.Y., Schaal B.A. Phylogeography of Asian wild rice, Oryza rufipogon, reveals multiple independent domestications of cultivated rice, Oryza sativa. Proc. Natl. Acad. Sci. U.S.A. 2006, 103:9578-9583.
-
(2006)
Proc. Natl. Acad. Sci. U.S.A.
, vol.103
, pp. 9578-9583
-
-
Londo, J.P.1
Chiang, Y.C.2
Hung, K.H.3
Chiang, T.Y.4
Schaal, B.A.5
-
25
-
-
77954143039
-
The complete sequence of the rice (Oryza sativa L.) mitochondrial genome: frequent DNA sequence acquisition and loss during the evolution of flowering plants
-
Masood S.M., Nishikawa T., Fukuoka S., Njenga K.P., Tsudzuki T., Kadowaki K. The complete sequence of the rice (Oryza sativa L.) mitochondrial genome: frequent DNA sequence acquisition and loss during the evolution of flowering plants. Gene 2004, 340:133-139.
-
(2004)
Gene
, vol.340
, pp. 133-139
-
-
Masood, S.M.1
Nishikawa, T.2
Fukuoka, S.3
Njenga, K.P.4
Tsudzuki, T.5
Kadowaki, K.6
-
26
-
-
0034518158
-
VISTA: visualizing Global DNA sequence alignments of arbitrary length
-
Mayor C., Brudno M., Schwartz J.R., et al. VISTA: visualizing Global DNA sequence alignments of arbitrary length. Bioinformatics 2000, 16:1046.
-
(2000)
Bioinformatics
, vol.16
, pp. 1046
-
-
Mayor, C.1
Brudno, M.2
Schwartz, J.R.3
-
27
-
-
0027368062
-
Classification and relationships of rice strains with AA genome by identification of transposable elements at nine loci
-
Mochizuki K., Ohtsubo H., Hirano H., Sano Y., Ohtsubo E. Classification and relationships of rice strains with AA genome by identification of transposable elements at nine loci. Jap. Jour. Genet. 1993, 68:205-217.
-
(1993)
Jap. Jour. Genet.
, vol.68
, pp. 205-217
-
-
Mochizuki, K.1
Ohtsubo, H.2
Hirano, H.3
Sano, Y.4
Ohtsubo, E.5
-
28
-
-
0001979202
-
-
Elsevier, Amsterdam, S. Tsunoda, N. Takahashi (Eds.)
-
Morinaga T. Rice Genetics and Cytogenetics 1964, 91-102. Elsevier, Amsterdam. S. Tsunoda, N. Takahashi (Eds.).
-
(1964)
Rice Genetics and Cytogenetics
, pp. 91-102
-
-
Morinaga, T.1
-
29
-
-
0036944979
-
Sequence variation in the gene encoding the 10-kDa prolamin in Oryza (Poaceae). I. Phylogenetic implications
-
Mullins I.M., Hilu K.W. Sequence variation in the gene encoding the 10-kDa prolamin in Oryza (Poaceae). I. Phylogenetic implications. Theor. Appl. Genet. 2002, 105:841-846.
-
(2002)
Theor. Appl. Genet.
, vol.105
, pp. 841-846
-
-
Mullins, I.M.1
Hilu, K.W.2
-
30
-
-
15244354761
-
Phylogenetic analysis of Oryza species, based on simple sequence repeats and their flanking nucleotide sequences from the mitochondrial and chloroplast genomes
-
Nishikawa T., Vaughan A.D., Kadowaki K. Phylogenetic analysis of Oryza species, based on simple sequence repeats and their flanking nucleotide sequences from the mitochondrial and chloroplast genomes. Theor. Appl. Genet. 2005, 110:696-705.
-
(2005)
Theor. Appl. Genet.
, vol.110
, pp. 696-705
-
-
Nishikawa, T.1
Vaughan, A.D.2
Kadowaki, K.3
-
31
-
-
0042208126
-
Genetic variations of AA genome Oryza species measured by MITE-AFLP
-
Park K.C., Kim N.H., Kim N.S. Genetic variations of AA genome Oryza species measured by MITE-AFLP. Theor. Appl. Genet. 2003, 107:203-209.
-
(2003)
Theor. Appl. Genet.
, vol.107
, pp. 203-209
-
-
Park, K.C.1
Kim, N.H.2
Kim, N.S.3
-
32
-
-
0346038786
-
A comparative study of genetic relationships among the AA-genome Oryza species using RAPD and SSR markers
-
Ren F.G., Lu B.R., Li S.Q., Huang J.Y., Zhu Y.G. A comparative study of genetic relationships among the AA-genome Oryza species using RAPD and SSR markers. Theor. Appl. Genet. 2003, 108:113-120.
-
(2003)
Theor. Appl. Genet.
, vol.108
, pp. 113-120
-
-
Ren, F.G.1
Lu, B.R.2
Li, S.Q.3
Huang, J.Y.4
Zhu, Y.G.5
-
33
-
-
0347513220
-
DnaSP DNA polymorphism analyses by the coalescent and other methods
-
Rozas J., Sanchez-DelBarrio J.C., Messeguer X., Rozas R. DnaSP DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 2003, 19:2496-2497.
-
(2003)
Bioinformatics
, vol.19
, pp. 2496-2497
-
-
Rozas, J.1
Sanchez-DelBarrio, J.C.2
Messeguer, X.3
Rozas, R.4
-
34
-
-
0023375195
-
The neighbor-joining method: a new method for reconstructing phylogenetic trees
-
Saitou N., Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 1987, 4:406-425.
-
(1987)
Mol. Biol. Evol.
, vol.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
35
-
-
85004247016
-
Origin of the genetic diversity of cultivated rice (Oryza spp.): study of the polymorphism scored at 40 isozyme loci
-
Second G. Origin of the genetic diversity of cultivated rice (Oryza spp.): study of the polymorphism scored at 40 isozyme loci. Jap. Jour. Genet. 1982, 57:25-57.
-
(1982)
Jap. Jour. Genet.
, vol.57
, pp. 25-57
-
-
Second, G.1
-
37
-
-
0024313579
-
Statistical methods to test for nucleotide mutation hypothesis by DNA polymorphism
-
Tajima F. Statistical methods to test for nucleotide mutation hypothesis by DNA polymorphism. Genetics 1989, 123:585-595.
-
(1989)
Genetics
, vol.123
, pp. 585-595
-
-
Tajima, F.1
-
38
-
-
3342920601
-
Prospects for inferring very large phylogenies by using the neighbor-joining method
-
Tamura K., Nei M., Kumar S. Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc. Natl. Acad. Sci. U.S.A. 2004, 101:11030-11035.
-
(2004)
Proc. Natl. Acad. Sci. U.S.A.
, vol.101
, pp. 11030-11035
-
-
Tamura, K.1
Nei, M.2
Kumar, S.3
-
39
-
-
34547781750
-
MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
-
Tamura K., Dudley J., Nei M., Kumar S. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 2007, 24:1596-1599.
-
(2007)
Mol. Biol. Evol.
, vol.24
, pp. 1596-1599
-
-
Tamura, K.1
Dudley, J.2
Nei, M.3
Kumar, S.4
-
40
-
-
2442645495
-
A comparison of rice chloroplast genomes
-
Tang J., Xia H., Cao M., et al. A comparison of rice chloroplast genomes. Plant Physiol. 2004, 135:412-420.
-
(2004)
Plant Physiol.
, vol.135
, pp. 412-420
-
-
Tang, J.1
Xia, H.2
Cao, M.3
-
41
-
-
33646850768
-
The rice mitochondrial genomes and their variations
-
Tian X., Zheng J., Hu S., Yu J. The rice mitochondrial genomes and their variations. Plant Physiol. 2006, 140:401-410.
-
(2006)
Plant Physiol.
, vol.140
, pp. 401-410
-
-
Tian, X.1
Zheng, J.2
Hu, S.3
Yu, J.4
-
45
-
-
34249840289
-
Polymorphism and phylogenetic relationships among species in the genus Oryza as determined by analysis of nuclear RFLPs
-
Wang Z.Y., Second G., Tankslev S.D. Polymorphism and phylogenetic relationships among species in the genus Oryza as determined by analysis of nuclear RFLPs. Theor. Appl. Genet. 1992, 83:565-581.
-
(1992)
Theor. Appl. Genet.
, vol.83
, pp. 565-581
-
-
Wang, Z.Y.1
Second, G.2
Tankslev, S.D.3
-
46
-
-
70350767303
-
Polyploid evolution in Oryza officinalis complex of the genus Oryza
-
Wang B., Ding Z., Liu W., et al. Polyploid evolution in Oryza officinalis complex of the genus Oryza. BMC Evol. Biol. 2009, 9:250.
-
(2009)
BMC Evol. Biol.
, vol.9
, pp. 250
-
-
Wang, B.1
Ding, Z.2
Liu, W.3
-
47
-
-
0344155086
-
Dual origin of the cultivated rice based on molecular markers of newly collected annual and perennial accessions of wild rice species, Oryza nivara and O. rufipogon
-
Yamanaka S., Nakamura I., Nakai H., Sato Y. Dual origin of the cultivated rice based on molecular markers of newly collected annual and perennial accessions of wild rice species, Oryza nivara and O. rufipogon. Genet. Res. Crop Evol. 2003, 50:529-538.
-
(2003)
Genet. Res. Crop Evol.
, vol.50
, pp. 529-538
-
-
Yamanaka, S.1
Nakamura, I.2
Nakai, H.3
Sato, Y.4
-
48
-
-
21244501403
-
Phylogenetic relationships among A-genome species of the genus Oryza revealed by intron sequences of four nuclear genes
-
Zhu Q., Ge S. Phylogenetic relationships among A-genome species of the genus Oryza revealed by intron sequences of four nuclear genes. New Phytol. 2005, 167:249-265.
-
(2005)
New Phytol.
, vol.167
, pp. 249-265
-
-
Zhu, Q.1
Ge, S.2
-
49
-
-
45549084713
-
Analysis of 142 genes resolves the rapid diversification of the rice genus
-
(R49 Electronic publication 2008 Mar 3)
-
Zou X.H., Zhang F.M., Zhang J.G., et al. Analysis of 142 genes resolves the rapid diversification of the rice genus. Genome Biol. 2008, 9(3). (R49 Electronic publication 2008 Mar 3).
-
(2008)
Genome Biol.
, vol.9
, Issue.3
-
-
Zou, X.H.1
Zhang, F.M.2
Zhang, J.G.3
|