-
1
-
-
0037296452
-
Selection on rapidly evolving proteins in the Arabidopsis genome
-
Barrier M, Bustamante CD, Yu J, Purugganan MD. 2003. Selection on rapidly evolving proteins in the Arabidopsis genome. Genetics. 163:723-733.
-
(2003)
Genetics
, vol.163
, pp. 723-733
-
-
Barrier, M.1
Bustamante, C.D.2
Yu, J.3
Purugganan, M.D.4
-
2
-
-
0001677717
-
Controlling the false discovery rate - a practical and powerful approach to multiple testing
-
Benjamini Y, Hochberg Y. 1995. Controlling the false discovery rate - a practical and powerful approach to multiple testing. J Roy Stat Soc B Met. 57:289-300.
-
(1995)
J Roy Stat Soc B Met
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
3
-
-
33746237567
-
Genomic insights into positive selection
-
Biswas S, Akey JM. 2006. Genomic insights into positive selection. Trends Genet. 22:437-446.
-
(2006)
Trends Genet
, vol.22
, pp. 437-446
-
-
Biswas, S.1
Akey, J.M.2
-
4
-
-
33344471384
-
Evolutionary fate of duplicate genes encoding aspartic proteinases. Nothepsin case study
-
Borrelli L, De Stasio R, Filosa S, Parisi E, Riggio M, Scudiero R, Trinchella F. 2006. Evolutionary fate of duplicate genes encoding aspartic proteinases. Nothepsin case study. Gene. 368:101-109.
-
(2006)
Gene
, vol.368
, pp. 101-109
-
-
Borrelli, L.1
De Stasio, R.2
Filosa, S.3
Parisi, E.4
Riggio, M.5
Scudiero, R.6
Trinchella, F.7
-
5
-
-
33646720488
-
CO/FT regulatory module controls timing of flowering and seasonal growth cessation in trees
-
Böhlenius H, Huang T, Charbonnel-Campaa L, Brunner AM, Jansson S, Strauss SH, Nilsson O. 2006. CO/FT regulatory module controls timing of flowering and seasonal growth cessation in trees. Science. 312:1040-1043.
-
(2006)
Science
, vol.312
, pp. 1040-1043
-
-
Böhlenius, H.1
Huang, T.2
Charbonnel-Campaa, L.3
Brunner, A.M.4
Jansson, S.5
Strauss, S.H.6
Nilsson, O.7
-
6
-
-
8144222289
-
Epistatic interaction between Arabidopsis fri and flc flowering time genes generates a latitudinal cline in a life history trait
-
Caicedo AL, Stinchcombe JR, Olsen KM, Schmitt J, Purugganan MD. 2004. Epistatic interaction between Arabidopsis fri and flc flowering time genes generates a latitudinal cline in a life history trait. Proc Natl Acad Sci USA. 101:15670-15675.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 15670-15675
-
-
Caicedo, A.L.1
Stinchcombe, J.R.2
Olsen, K.M.3
Schmitt, J.4
Purugganan, M.D.5
-
7
-
-
2942558757
-
Adaptive evolution and functional divergence of pepsin gene family
-
Carginale V, Trinchella F, Capasso C, Scudiero R, Riggio M, Parisi E. 2004. Adaptive evolution and functional divergence of pepsin gene family. Gene. 333:81-90.
-
(2004)
Gene
, vol.333
, pp. 81-90
-
-
Carginale, V.1
Trinchella, F.2
Capasso, C.3
Scudiero, R.4
Riggio, M.5
Parisi, E.6
-
8
-
-
0031007034
-
Dehydrins: A commonality in the response of plants to dehydration and low temperature
-
Close TJ. 1997. Dehydrins: a commonality in the response of plants to dehydration and low temperature. Physiol Plantarum. 100:291-296.
-
(1997)
Physiol Plantarum
, vol.100
, pp. 291-296
-
-
Close, T.J.1
-
9
-
-
0037202384
-
An algorithm for detecting directional and non-directional positive selection, neutrality and negative selection in protein coding DNA sequences
-
Creevey CJ, McInerney JO. 2002. An algorithm for detecting directional and non-directional positive selection, neutrality and negative selection in protein coding DNA sequences. Gene. 300:43-51.
-
(2002)
Gene
, vol.300
, pp. 43-51
-
-
Creevey, C.J.1
McInerney, J.O.2
-
10
-
-
0141626870
-
Crann: Detecting adaptive evolution in protein-coding DNA sequences
-
Creevey CJ, McInerney JO. 2003. Crann: detecting adaptive evolution in protein-coding DNA sequences. Bioinformatics. 19:1726.
-
(2003)
Bioinformatics
, vol.19
, pp. 1726
-
-
Creevey, C.J.1
McInerney, J.O.2
-
11
-
-
17744394753
-
Phylogenomics and the reconstruction of the tree of life
-
Delsuc F, Brinkmann H, Philippe H. 2005. Phylogenomics and the reconstruction of the tree of life. Nat Rev Genet. 6:361-375.
-
(2005)
Nat Rev Genet
, vol.6
, pp. 361-375
-
-
Delsuc, F.1
Brinkmann, H.2
Philippe, H.3
-
12
-
-
47149117454
-
-
Evolution of genes and genomes on the Drosophila phylogeny. Nature. 450:203-218.
-
Evolution of genes and genomes on the Drosophila phylogeny. Nature. 450:203-218.
-
-
-
-
13
-
-
26444621352
-
Why highly expressed proteins evolve slowly
-
Drummond DA, Bloom JD, Adami C, Wilke CO, Arnold FH. 2005. Why highly expressed proteins evolve slowly. Proc Natl Acad Sci USA. 102:14338-14343.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 14338-14343
-
-
Drummond, D.A.1
Bloom, J.D.2
Adami, C.3
Wilke, C.O.4
Arnold, F.H.5
-
14
-
-
33745128401
-
Phylogeny, historical biogeography, and patterns of diversification for Pinus (Pinaceae): Phylogenetic tests of fossil-based hypotheses
-
Eckert AJ, Hall BD. 2006. Phylogeny, historical biogeography, and patterns of diversification for Pinus (Pinaceae): phylogenetic tests of fossil-based hypotheses. Mol Phylogenet Evol. 40:166-182.
-
(2006)
Mol Phylogenet Evol
, vol.40
, pp. 166-182
-
-
Eckert, A.J.1
Hall, B.D.2
-
15
-
-
38949167127
-
-
Eveno E, Collada C, Guevara MA, et al. (11 co-authors). 2008. Contrasting patterns of selection at Pinus pinaster Ait. Drought stress candidate genes as revealed by genetic differentiation analyses. Mol Biol Evol. 25:417-437.
-
Eveno E, Collada C, Guevara MA, et al. (11 co-authors). 2008. Contrasting patterns of selection at Pinus pinaster Ait. Drought stress candidate genes as revealed by genetic differentiation analyses. Mol Biol Evol. 25:417-437.
-
-
-
-
16
-
-
62349129404
-
-
Felsenstein J. 2004. PHYLIP (phylogeny inference package) version 3.6 Distributed by the author. Seattle, USA: Department of Genome Sciences, University of Washington
-
Felsenstein J. 2004. PHYLIP (phylogeny inference package) version 3.6 Distributed by the author. Seattle, USA: Department of Genome Sciences, University of Washington.
-
-
-
-
17
-
-
42949142666
-
Amino acid polymorphisms in Arabidopsis phytochrome B cause differential responses to light
-
Filiault DL, Wessinger CA, Dinneny JR, Lutes J, Borevitz JO, Weigel D, Chory J, Maloof JN. 2008. Amino acid polymorphisms in Arabidopsis phytochrome B cause differential responses to light. Proc Natl Acad Sci USA. 105:3157-3162.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 3157-3162
-
-
Filiault, D.L.1
Wessinger, C.A.2
Dinneny, J.R.3
Lutes, J.4
Borevitz, J.O.5
Weigel, D.6
Chory, J.7
Maloof, J.N.8
-
18
-
-
0042785584
-
Perspective: Detecting adaptive molecular polymorphism: lessons from the MHC
-
Garrigan D, Hedrick PW. 2003. Perspective: detecting adaptive molecular polymorphism: lessons from the MHC. Evolution. 57:1707-1722.
-
(2003)
Evolution
, vol.57
, pp. 1707-1722
-
-
Garrigan, D.1
Hedrick, P.W.2
-
20
-
-
0028168856
-
A codon-based model of nucleotide substitution for protein-coding DNA sequences
-
Goldman N, Yang Z. 1994. A codon-based model of nucleotide substitution for protein-coding DNA sequences. Mol Biol Evol. 11:725-736.
-
(1994)
Mol Biol Evol
, vol.11
, pp. 725-736
-
-
Goldman, N.1
Yang, Z.2
-
21
-
-
33645219360
-
DNA sequence variation and selection of tag single-nucleotide polymorphisms at candidate genes for drought-stress response in Pinus taeda L
-
Gonzalez-Martinez SC, Ersoz E, Brown GR, Wheeler NC, Neale DB. 2006. DNA sequence variation and selection of tag single-nucleotide polymorphisms at candidate genes for drought-stress response in Pinus taeda L. Genetics. 172:1915-1926.
-
(2006)
Genetics
, vol.172
, pp. 1915-1926
-
-
Gonzalez-Martinez, S.C.1
Ersoz, E.2
Brown, G.R.3
Wheeler, N.C.4
Neale, D.B.5
-
22
-
-
4344631970
-
Evolution of genome size in pines (Pinus) and its life-history correlates: Supertree analyses
-
Grotkopp E, Rejmanek M, Sanderson M, Rost T. 2004. Evolution of genome size in pines (Pinus) and its life-history correlates: supertree analyses. Evolution. 58:1705-1729.
-
(2004)
Evolution
, vol.58
, pp. 1705-1729
-
-
Grotkopp, E.1
Rejmanek, M.2
Sanderson, M.3
Rost, T.4
-
23
-
-
8444239707
-
The evolutionary implications of knox-I gene duplications in conifers: Correlated evidence from phylogeny, gene mapping, and analysis of functional divergence
-
Guillet-Claude C, Isabel N, Pelgas B, Bousquet J. 2004. The evolutionary implications of knox-I gene duplications in conifers: correlated evidence from phylogeny, gene mapping, and analysis of functional divergence. Mol Biol Evol. 21:2232-2245.
-
(2004)
Mol Biol Evol
, vol.21
, pp. 2232-2245
-
-
Guillet-Claude, C.1
Isabel, N.2
Pelgas, B.3
Bousquet, J.4
-
24
-
-
34250640192
-
A Norway spruce FLOWERING LOCUS T homolog is implicated in control of growth rhythm in conifers
-
Gyllenstrand N, Clapham D, Källman T, Lagercrantz U. 2007. A Norway spruce FLOWERING LOCUS T homolog is implicated in control of growth rhythm in conifers. Plant Physiol. 144:248-257.
-
(2007)
Plant Physiol
, vol.144
, pp. 248-257
-
-
Gyllenstrand, N.1
Clapham, D.2
Källman, T.3
Lagercrantz, U.4
-
25
-
-
1842454636
-
Using avida to test the effects of natural selection on phylogenetic reconstruction methods
-
Hagstrom GI, Hang DH, Ofria C, Torng E. 2004. Using avida to test the effects of natural selection on phylogenetic reconstruction methods. Artif Life. 10:156-166.
-
(2004)
Artif Life
, vol.10
, pp. 156-166
-
-
Hagstrom, G.I.1
Hang, D.H.2
Ofria, C.3
Torng, E.4
-
26
-
-
62349085071
-
-
Hall T. 1999. Bioedit: a user-friendly biological sequence alignment editor and analysis program for windows 95/98/nt. Nucleic Acids Symp Ser. 41:95-98.
-
Hall T. 1999. Bioedit: a user-friendly biological sequence alignment editor and analysis program for windows 95/98/nt. Nucleic Acids Symp Ser. 41:95-98.
-
-
-
-
28
-
-
33845746244
-
Multilocus patterns of nucleotide diversity, linkage disequilibrium and demographic history of Norway spruce [Picea abies (L.) Karst]
-
Heuertz M, De Paoli E, Källman T, Larsson H, Jurman I, Morgante M, Lascoux M, Gyllenstrand N. 2006. Multilocus patterns of nucleotide diversity, linkage disequilibrium and demographic history of Norway spruce [Picea abies (L.) Karst]. Genetics. 174:2095-2105.
-
(2006)
Genetics
, vol.174
, pp. 2095-2105
-
-
Heuertz, M.1
De Paoli, E.2
Källman, T.3
Larsson, H.4
Jurman, I.5
Morgante, M.6
Lascoux, M.7
Gyllenstrand, N.8
-
29
-
-
2942656772
-
Bayesian estimation of positively selected sites
-
Huelsenbeck JP, Dyer KA. 2004. Bayesian estimation of positively selected sites. J Mol Evol. 58:661-672.
-
(2004)
J Mol Evol
, vol.58
, pp. 661-672
-
-
Huelsenbeck, J.P.1
Dyer, K.A.2
-
30
-
-
0034849408
-
Mrbayes: Bayesian inference of phylogenetic trees
-
Huelsenbeck JP, Ronquist F. 2001. Mrbayes: bayesian inference of phylogenetic trees. Bioinformatics. 17:754-755.
-
(2001)
Bioinformatics
, vol.17
, pp. 754-755
-
-
Huelsenbeck, J.P.1
Ronquist, F.2
-
31
-
-
0030822740
-
Climatic adaptation of bud set and frost hardiness in Scots pine (Pinus sylvestris)
-
Hurme P, Repo T, Savolainen O, Pääkkönen T. 1997. Climatic adaptation of bud set and frost hardiness in Scots pine (Pinus sylvestris). Can J For Res. 27:716-723.
-
(1997)
Can J For Res
, vol.27
, pp. 716-723
-
-
Hurme, P.1
Repo, T.2
Savolainen, O.3
Pääkkönen, T.4
-
32
-
-
45849093336
-
Nucleotide polymorphism and phenotypic associations within and around the phytochrome B2 locus in European aspen (Populus tremula, Salicaceae)
-
Ingvarsson PK, Garcia MV, Luquez V, Hall D, Jansson S. 2008. Nucleotide polymorphism and phenotypic associations within and around the phytochrome B2 locus in European aspen (Populus tremula, Salicaceae). Genetics. 178:2217-2226.
-
(2008)
Genetics
, vol.178
, pp. 2217-2226
-
-
Ingvarsson, P.K.1
Garcia, M.V.2
Luquez, V.3
Hall, D.4
Jansson, S.5
-
34
-
-
33747382812
-
Deacclimation and reacclimation of cold-hardy plants: Current understanding and emerging concepts
-
Kalberer SR, Wisniewski M, Arora R. 2006. Deacclimation and reacclimation of cold-hardy plants: current understanding and emerging concepts. Plant Sci. 171:3-16.
-
(2006)
Plant Sci
, vol.171
, pp. 3-16
-
-
Kalberer, S.R.1
Wisniewski, M.2
Arora, R.3
-
36
-
-
0001525977
-
The average number of generations until fixation of a mutant gene in a finite population
-
Kimura M, Ohta T. 1969. The average number of generations until fixation of a mutant gene in a finite population. Genetics. 61:763-771.
-
(1969)
Genetics
, vol.61
, pp. 763-771
-
-
Kimura, M.1
Ohta, T.2
-
37
-
-
0030773907
-
Complex gene families in pine genomes
-
Kinlaw CS, Neale DB. 1997. Complex gene families in pine genomes. Trends Plant Sci. 2:356-359.
-
(1997)
Trends Plant Sci
, vol.2
, pp. 356-359
-
-
Kinlaw, C.S.1
Neale, D.B.2
-
38
-
-
33846077591
-
Gene, phenotype and function: Glabrous1 and resistance to herbivory in natural populations of Arabidopsis lyrata
-
Kivimäki M, Kärkkäinen K, Gaudeul M, Loe G, Ågren J. 2007. Gene, phenotype and function: glabrous1 and resistance to herbivory in natural populations of Arabidopsis lyrata. Mol Ecol. 16:453-462.
-
(2007)
Mol Ecol
, vol.16
, pp. 453-462
-
-
Kivimäki, M.1
Kärkkäinen, K.2
Gaudeul, M.3
Loe, G.4
Ågren, J.5
-
39
-
-
3242810318
-
Mega3: Integrated software for molecular evolutionary genetics analysis and sequence alignment
-
Kumar S, Tamura K, Nei M. 2004. Mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform. 5:150-163.
-
(2004)
Brief Bioinform
, vol.5
, pp. 150-163
-
-
Kumar, S.1
Tamura, K.2
Nei, M.3
-
40
-
-
0036094963
-
Molecular evolution of nuclear genes in Cupressacea, a group of conifer trees
-
Kusumi J, Tsumura Y, Yoshimaru H, Tachida H. 2002. Molecular evolution of nuclear genes in Cupressacea, a group of conifer trees. Mol Biol Evol. 19:736-747.
-
(2002)
Mol Biol Evol
, vol.19
, pp. 736-747
-
-
Kusumi, J.1
Tsumura, Y.2
Yoshimaru, H.3
Tachida, H.4
-
41
-
-
0036667687
-
DNA polymorphism at the frigida gene in Arabidopsis thaliana: Extensive non-synonymous variation is consistent with local selection for flowering time
-
Le Corre V, Roux F, Reboud X. 2002. DNA polymorphism at the frigida gene in Arabidopsis thaliana: extensive non-synonymous variation is consistent with local selection for flowering time. Mol Biol Evol. 19:1261-1271.
-
(2002)
Mol Biol Evol
, vol.19
, pp. 1261-1271
-
-
Le Corre, V.1
Roux, F.2
Reboud, X.3
-
42
-
-
32144457291
-
Molecular phylogeny of Pinaceae and Pinus
-
Liston A, Gernandt DS, Vining TF, Campbell CS, Piñero D. 2003. Molecular phylogeny of Pinaceae and Pinus. Acta Hort. 615:107-114.
-
(2003)
Acta Hort
, vol.615
, pp. 107-114
-
-
Liston, A.1
Gernandt, D.S.2
Vining, T.F.3
Campbell, C.S.4
Piñero, D.5
-
43
-
-
0033073029
-
Phylogenetics of Pinus (Pinaceae) based on nuclear ribosomal DNA internal transcribed spacer region sequences
-
Liston A, Robinson WA, Pinero D, Alvarez-Buylla ER. 1999. Phylogenetics of Pinus (Pinaceae) based on nuclear ribosomal DNA internal transcribed spacer region sequences. Mol Phylogenet Evol. 11:95-109.
-
(1999)
Mol Phylogenet Evol
, vol.11
, pp. 95-109
-
-
Liston, A.1
Robinson, W.A.2
Pinero, D.3
Alvarez-Buylla, E.R.4
-
44
-
-
38349074112
-
Molecular evolution of the MLO gene family in Oryza sativa and their functional divergence
-
Liu Q, Zhu H. 2008. Molecular evolution of the MLO gene family in Oryza sativa and their functional divergence. Gene. 409:1-10.
-
(2008)
Gene
, vol.409
, pp. 1-10
-
-
Liu, Q.1
Zhu, H.2
-
45
-
-
0036721569
-
Phylogenetic relationships of diploxylon pines (subgenus Pinus) based on plastid sequence data
-
López GG, Kamiya K, Harada K. 2002. Phylogenetic relationships of diploxylon pines (subgenus Pinus) based on plastid sequence data. Int J Plant Sci. 163:737-747.
-
(2002)
Int J Plant Sci
, vol.163
, pp. 737-747
-
-
López, G.G.1
Kamiya, K.2
Harada, K.3
-
46
-
-
24644519796
-
Angiosperm divergence times: The effect of genes, codon positions, and time constraints
-
Magallon SA, Sanderson MJ. 2005. Angiosperm divergence times: the effect of genes, codon positions, and time constraints. Evolution. 59:1653-1670.
-
(2005)
Evolution
, vol.59
, pp. 1653-1670
-
-
Magallon, S.A.1
Sanderson, M.J.2
-
47
-
-
14744301007
-
Variable selection pressures across lineages in Trichodesmium and related cyanobacteria based on the heterocyst differentiation protein gene hetR
-
Mes THM, Stal LJ. 2005. Variable selection pressures across lineages in Trichodesmium and related cyanobacteria based on the heterocyst differentiation protein gene hetR. Gene. 346:163-171.
-
(2005)
Gene
, vol.346
, pp. 163-171
-
-
Mes, T.H.M.1
Stal, L.J.2
-
48
-
-
0020413830
-
Bud-set phenology as an indicator of climatic adaptation of Scots pine in Finland
-
Mikola J. 1982. Bud-set phenology as an indicator of climatic adaptation of Scots pine in Finland. Silva Fenn. 16:221-228.
-
(1982)
Silva Fenn
, vol.16
, pp. 221-228
-
-
Mikola, J.1
-
49
-
-
0002379269
-
Early evolution of pines
-
Richardson DM, editor, Cambridge: Cambridge University Press. p
-
Millar CI. 1998. Early evolution of pines. In: Richardson DM, editor. Ecology and biogeography of Pinus. Cambridge: Cambridge University Press. p. 69-91.
-
(1998)
Ecology and biogeography of Pinus
, pp. 69-91
-
-
Millar, C.I.1
-
53
-
-
0031972161
-
Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene
-
Nielsen R, Yang Z. 1998. Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene. Genetics. 148:929-936.
-
(1998)
Genetics
, vol.148
, pp. 929-936
-
-
Nielsen, R.1
Yang, Z.2
-
54
-
-
33846462244
-
MrModeltest 2.2. Program distributed by the author
-
Uppsala University
-
Nylander JAA. 2004. MrModeltest 2.2. Program distributed by the author. Evolutionary Biology Center, Uppsala University.
-
(2004)
Evolutionary Biology Center
-
-
Nylander, J.A.A.1
-
55
-
-
0012088802
-
Population size and rate of evolution
-
Ohta T. 1972. Population size and rate of evolution. J Mol Evol. 1:305-413.
-
(1972)
J Mol Evol
, vol.1
, pp. 305-413
-
-
Ohta, T.1
-
56
-
-
56449109597
-
Patterns of divergence among conifer ESTs and polymorphism in Pinus sylvestris identify putative selective sweeps
-
Palmé AE, Wright M, Savolainen O. 2008. Patterns of divergence among conifer ESTs and polymorphism in Pinus sylvestris identify putative selective sweeps. Mol Biol Evol. 25:2567-2577.
-
(2008)
Mol Biol Evol
, vol.25
, pp. 2567-2577
-
-
Palmé, A.E.1
Wright, M.2
Savolainen, O.3
-
57
-
-
0033576614
-
Multigene analyses identify the three earliest lineages of extant flowering plants
-
Parkinson CL, Adams KL, Palmer JD. 1999. Multigene analyses identify the three earliest lineages of extant flowering plants. Curr Biol. 9:1485-1491.
-
(1999)
Curr Biol
, vol.9
, pp. 1485-1491
-
-
Parkinson, C.L.1
Adams, K.L.2
Palmer, J.D.3
-
58
-
-
33645242016
-
Evolutionary rates and expression level in Chlamydomonas
-
Popescu CE, Borza T, Bielawski JP, Lee RW. 2006. Evolutionary rates and expression level in Chlamydomonas. Genetics. 172:1567-1576.
-
(2006)
Genetics
, vol.172
, pp. 1567-1576
-
-
Popescu, C.E.1
Borza, T.2
Bielawski, J.P.3
Lee, R.W.4
-
59
-
-
0001874604
-
Phylogeny and systematics of Pinus
-
Richardson DM, editor, Cambridge: Cambridge University Press. p
-
Price RA, Liston A, Strauss SH. 1998. Phylogeny and systematics of Pinus. In: Richardson DM, editor. In: Ecology and biogeography of Pinus. Cambridge: Cambridge University Press. p. 44-68.
-
(1998)
Ecology and biogeography of Pinus
, pp. 44-68
-
-
Price, R.A.1
Liston, A.2
Strauss, S.H.3
-
60
-
-
37249019973
-
Demographic history has influenced nucleotide diversity in European Pinus sylvestris populations
-
Pyhäjärvi T, García-Gil MR, Knürr T, Mikkonen M, Wachowiak W, Savolainen O. 2007. Demographic history has influenced nucleotide diversity in European Pinus sylvestris populations. Genetics. 177:1713-1724.
-
(2007)
Genetics
, vol.177
, pp. 1713-1724
-
-
Pyhäjärvi, T.1
García-Gil, M.R.2
Knürr, T.3
Mikkonen, M.4
Wachowiak, W.5
Savolainen, O.6
-
61
-
-
17744398025
-
More genes or more taxa? The relative contribution of gene number and taxon number to phylogenetic accuracy
-
Rokas A, Carroll SB. 2005. More genes or more taxa? The relative contribution of gene number and taxon number to phylogenetic accuracy. Mol Biol Evol. 22:1337-1344.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 1337-1344
-
-
Rokas, A.1
Carroll, S.B.2
-
62
-
-
0242365676
-
Genome-scale approaches to resolving incongruence in molecular phylogenies
-
Rokas A, Williams BL, King N, Carroll SB. 2003. Genome-scale approaches to resolving incongruence in molecular phylogenies. Nature. 425:798-804.
-
(2003)
Nature
, vol.425
, pp. 798-804
-
-
Rokas, A.1
Williams, B.L.2
King, N.3
Carroll, S.B.4
-
63
-
-
0041386108
-
MrBayes 3: Bayesian phylogenetic inference under mixed models
-
Ronquist F, Huelsenbeck JP. 2003. MrBayes 3: bayesian phylogenetic inference under mixed models. Bioinformatics. 19:1572-1574.
-
(2003)
Bioinformatics
, vol.19
, pp. 1572-1574
-
-
Ronquist, F.1
Huelsenbeck, J.P.2
-
64
-
-
33747239595
-
A systematic search for positive selection in higher plants (Embryophytes)
-
Roth C, Liberles DA. 2006. A systematic search for positive selection in higher plants (Embryophytes). BMC Plant Biol. 6:12.
-
(2006)
BMC Plant Biol
, vol.6
, pp. 12
-
-
Roth, C.1
Liberles, D.A.2
-
67
-
-
0343527428
-
Characterization and expression of cold-induced glutathione s-transferase in freezing tolerant Solanum commersonii, sensitive S. tuberosum and their interspecific somatic hybrids
-
Seppänen MM, Cardi T, Borg Hyökki M, Pehu E. 2000. Characterization and expression of cold-induced glutathione s-transferase in freezing tolerant Solanum commersonii, sensitive S. tuberosum and their interspecific somatic hybrids. Plant Sci. 153:125-133.
-
(2000)
Plant Sci
, vol.153
, pp. 125-133
-
-
Seppänen, M.M.1
Cardi, T.2
Borg Hyökki, M.3
Pehu, E.4
-
68
-
-
0033604619
-
Angiosperm phylogeny inferred from multiple genes as a tool for comparative biology
-
Soltis PS, Soltis DE, Chase MW. 1999. Angiosperm phylogeny inferred from multiple genes as a tool for comparative biology. Nature. 402:402-404.
-
(1999)
Nature
, vol.402
, pp. 402-404
-
-
Soltis, P.S.1
Soltis, D.E.2
Chase, M.W.3
-
69
-
-
1842584810
-
A latitudinal cline in flowering time in Arabidopsis thaliana modulated by the flowering time gene frigida
-
Stinchcombe JR, Weinig C, Ungerer M, Olsen KM, Mays C, Halldorsdottir SS, Purugganan MD, Schmitt J. 2004. A latitudinal cline in flowering time in Arabidopsis thaliana modulated by the flowering time gene frigida. Proc Natl Acad Sci USA. 101:4712-4717.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 4712-4717
-
-
Stinchcombe, J.R.1
Weinig, C.2
Ungerer, M.3
Olsen, K.M.4
Mays, C.5
Halldorsdottir, S.S.6
Purugganan, M.D.7
Schmitt, J.8
-
70
-
-
0042424602
-
Statistical significance for genomewide studies
-
Storey JD, Tibshirani R. 2003. Statistical significance for genomewide studies. Proc Natl Acad Sci USA. 100:9440-9445.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 9440-9445
-
-
Storey, J.D.1
Tibshirani, R.2
-
71
-
-
32144438168
-
Evolutionary relationships among Pinus (Pinaceae) subsections inferred from multiple low-copy nuclear loci
-
Syring J, Willyard A, Cronn R, Liston A. 2005. Evolutionary relationships among Pinus (Pinaceae) subsections inferred from multiple low-copy nuclear loci. Am J Bot. 92:2086-2100.
-
(2005)
Am J Bot
, vol.92
, pp. 2086-2100
-
-
Syring, J.1
Willyard, A.2
Cronn, R.3
Liston, A.4
-
72
-
-
0027453388
-
Simple methods for testing the molecular evolutionary clock hypothesis
-
Tajima F. 1993. Simple methods for testing the molecular evolutionary clock hypothesis. Genetics. 135:599-607.
-
(1993)
Genetics
, vol.135
, pp. 599-607
-
-
Tajima, F.1
-
73
-
-
0031574072
-
The Clustal X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
Thompson J, Gibson T, Plewniak F, Jeanmougin F, Higgins D. 1997. The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 24:4876-4882.
-
(1997)
Nucleic Acids Res
, vol.24
, pp. 4876-4882
-
-
Thompson, J.1
Gibson, T.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.5
-
74
-
-
0036100820
-
Coding sequence divergence between two closely related plant species: Arabidopsis thaliana and Brassica rapa ssp. Pekinensis
-
Tiffin P, Hahn MW. 2002. Coding sequence divergence between two closely related plant species: arabidopsis thaliana and Brassica rapa ssp. Pekinensis. J Mol Evol. 54:746-753.
-
(2002)
J Mol Evol
, vol.54
, pp. 746-753
-
-
Tiffin, P.1
Hahn, M.W.2
-
75
-
-
57349197887
-
Search for nucleotide patterns of local adaptation in dehydrins and other cold related candidate genes in Scots pine (Pinus sylvestris L.)
-
Wachowiak W, Balk P, Savolainen O. 2009. Search for nucleotide patterns of local adaptation in dehydrins and other cold related candidate genes in Scots pine (Pinus sylvestris L.). Tree Genet Genomes. 5:117-132.
-
(2009)
Tree Genet Genomes
, vol.5
, pp. 117-132
-
-
Wachowiak, W.1
Balk, P.2
Savolainen, O.3
-
76
-
-
0034022645
-
Phylogeny and divergence times in Pinaceae: Evidence from three genomes
-
Wang X-Q, Tank DC, Sang T. 2000. Phylogeny and divergence times in Pinaceae: evidence from three genomes. Mol Biol Evol. 17:773-781.
-
(2000)
Mol Biol Evol
, vol.17
, pp. 773-781
-
-
Wang, X.-Q.1
Tank, D.C.2
Sang, T.3
-
77
-
-
0033301379
-
Phylogenetic relationships of Eurasian pines (Pinus, Pinaceae) based on chloroplast rbcl, matk, rpl20-rps18 spacer, and trnv intron sequences
-
Wang X-R, Tsumura Y, Yoshimaru H, Nagasaka K, Szmidt AE. 1999. Phylogenetic relationships of Eurasian pines (Pinus, Pinaceae) based on chloroplast rbcl, matk, rpl20-rps18 spacer, and trnv intron sequences. Am J Bot. 86:1742-1753.
-
(1999)
Am J Bot
, vol.86
, pp. 1742-1753
-
-
Wang, X.-R.1
Tsumura, Y.2
Yoshimaru, H.3
Nagasaka, K.4
Szmidt, A.E.5
-
78
-
-
14044271573
-
Quantitative trait locus mapping and DNA array hybridization identify an flm deletion as a cause for natural flowering-time variation
-
Werner JD, Borevitz JO, Warthmann N, Trainer GT, Ecker JR, Chory J, Weigel D. 2005. Quantitative trait locus mapping and DNA array hybridization identify an flm deletion as a cause for natural flowering-time variation. Proc Natl Acad Sci USA. 102:2460-2465.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 2460-2465
-
-
Werner, J.D.1
Borevitz, J.O.2
Warthmann, N.3
Trainer, G.T.4
Ecker, J.R.5
Chory, J.6
Weigel, D.7
-
79
-
-
0041592696
-
Incomplete taxa, incomplete characters, and phylogenetic accuracy: Is there a missing data problem?
-
Wiens JJ. 2003. Incomplete taxa, incomplete characters, and phylogenetic accuracy: is there a missing data problem? J Vertebr Paleontol. 23:297-310.
-
(2003)
J Vertebr Paleontol
, vol.23
, pp. 297-310
-
-
Wiens, J.J.1
-
80
-
-
31344471014
-
Missing data and the design of phylogenetic analyses
-
Wiens JJ. 2006. Missing data and the design of phylogenetic analyses. J Biom Inform. 39:34-42.
-
(2006)
J Biom Inform
, vol.39
, pp. 34-42
-
-
Wiens, J.J.1
-
81
-
-
33845866619
-
Fossil calibration of molecular divergence infers a moderate mutation rate and recent radiations for Pinus
-
Willyard A, Syring J, Gernandt DS, Liston A, Cronn R. 2007. Fossil calibration of molecular divergence infers a moderate mutation rate and recent radiations for Pinus. Mol Biol Evol. 24:90-101.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 90-101
-
-
Willyard, A.1
Syring, J.2
Gernandt, D.S.3
Liston, A.4
Cronn, R.5
-
82
-
-
14544306215
-
Molecular population genetics and the search for adaptive evolution in plants
-
Wright SI, Gaut BS. 2005. Molecular population genetics and the search for adaptive evolution in plants. Mol Biol Evol. 22:506-519.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 506-519
-
-
Wright, S.I.1
Gaut, B.S.2
-
83
-
-
0031897964
-
Likelihood ratio tests for detecting positive selection and application to primate lysozyme evolution
-
Yang Z. 1998. Likelihood ratio tests for detecting positive selection and application to primate lysozyme evolution. Mol Biol Evol. 15:568-573.
-
(1998)
Mol Biol Evol
, vol.15
, pp. 568-573
-
-
Yang, Z.1
-
84
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
Yang Z. 1997. PAML: a program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci. 13:555-556.
-
(1997)
Comput Appl Biosci
, vol.13
, pp. 555-556
-
-
Yang, Z.1
-
85
-
-
16344378246
-
Bayes empirical Bayes inference of amino acid sites under positive selection
-
Yang Z, Wong WSW, Nielsen R. 2005. Bayes empirical Bayes inference of amino acid sites under positive selection. Mol Biol Evol. 22:1107-1118.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 1107-1118
-
-
Yang, Z.1
Wong, W.S.W.2
Nielsen, R.3
-
86
-
-
1542286776
-
Mammalian housekeeping genes evolve more slowly than tissue-specific genes
-
Zhang L, Li W-H. 2004. Mammalian housekeeping genes evolve more slowly than tissue-specific genes. Mol Biol Evol. 21:236-239.
-
(2004)
Mol Biol Evol
, vol.21
, pp. 236-239
-
-
Zhang, L.1
Li, W.-H.2
-
87
-
-
0034176386
-
Differential expression of genes encoding cell wall proteins in vascular tissues from vertical and bent loblolly pine trees
-
Zhang Y, Sederoff RR, Allona I. 2000. Differential expression of genes encoding cell wall proteins in vascular tissues from vertical and bent loblolly pine trees. Tree Physiol. 20:457-466.
-
(2000)
Tree Physiol
, vol.20
, pp. 457-466
-
-
Zhang, Y.1
Sederoff, R.R.2
Allona, I.3
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