-
1
-
-
14744277777
-
Polyploidy and genome evolution in plants
-
Adams KL, Wendel JF (2005) Polyploidy and genome evolution in plants. Curr Opin Plant Biol 8: 135-141
-
(2005)
Curr Opin Plant Biol
, vol.8
, pp. 135-141
-
-
Adams, K.L.1
Wendel, J.F.2
-
2
-
-
33847769886
-
Indirect activation of a plant nucleotide binding site-leucine-rich repeat protein by a bacterial protease
-
Ade J, DeYoung BJ, Golstein C, Innes RW (2007) Indirect activation of a plant nucleotide binding site-leucine-rich repeat protein by a bacterial protease. Proc Natl Acad Sci USA 104: 2531-2536
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 2531-2536
-
-
Ade, J.1
Deyoung, B.J.2
Golstein, C.3
Innes, R.W.4
-
3
-
-
28444488986
-
Update on the domain architectures of NLRs and R proteins
-
Albrecht M, Takken FL (2006) Update on the domain architectures of NLRs and R proteins. Biochem Biophys Res Commun 339: 459-462
-
(2006)
Biochem Biophys Res Commun
, vol.339
, pp. 459-462
-
-
Albrecht, M.1
Takken, F.L.2
-
4
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215: 403-410
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
5
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schäffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
6
-
-
0031818864
-
Rpg1, a soybean gene effective against races of bacterial blight, maps to a cluster of previously identified disease resistance genes
-
Ashfield T, Danzer JR, Held D, Clayton K, Keim P, Saghai Maroof MA, Webb PM, Innes RW (1998) Rpg1, a soybean gene effective against races of bacterial blight, maps to a cluster of previously identified disease resistance genes. Theor Appl Genet 96: 1013-1021
-
(1998)
Theor Appl Genet
, vol.96
, pp. 1013-1021
-
-
Ashfield, T.1
Danzer, J.R.2
Held, D.3
Clayton, K.4
Keim, P.5
Saghai, M.M.A.6
Webb, P.M.7
Innes, R.W.8
-
7
-
-
1042267608
-
Convergent evolution of disease resistance gene specificity in two flowering plant families
-
Ashfield T, Ong LE, Nobuta K, Schneider CM, Innes RW (2004) Convergent evolution of disease resistance gene specificity in two flowering plant families. Plant Cell 16: 309-318
-
(2004)
Plant Cell
, vol.16
, pp. 309-318
-
-
Ashfield, T.1
Ong, L.E.2
Nobuta, K.3
Schneider, C.M.4
Innes, R.W.5
-
8
-
-
0037423390
-
Initiation of RPS2-specified disease resistance in Arabidopsis is coupled to the AvrRpt2-directed elimination of RIN4
-
Axtell MJ, Staskawicz BJ (2003) Initiation of RPS2-specified disease resistance in Arabidopsis is coupled to the AvrRpt2-directed elimination of RIN4. Cell 112: 369-377
-
(2003)
Cell
, vol.112
, pp. 369-377
-
-
Axtell, M.J.1
Staskawicz, B.J.2
-
9
-
-
0141678039
-
Genome-level evolution of resistance genes in Arabidopsis thaliana
-
Baumgarten A, Cannon S, Spangler R, May G (2003) Genome-level evolution of resistance genes in Arabidopsis thaliana. Genetics 165: 309-319
-
(2003)
Genetics
, vol.165
, pp. 309-319
-
-
Baumgarten, A.1
Cannon, S.2
Spangler, R.3
May, G.4
-
10
-
-
35148827341
-
Elicitors, effectors, and R genes: The new paradigm and a lifetime supply of questions
-
Bent AF, Mackey D (2007) Elicitors, effectors, and R genes: the new paradigm and a lifetime supply of questions. Annu Rev Phytopathol 45: 399-436
-
(2007)
Annu Rev Phytopathol
, vol.45
, pp. 399-436
-
-
Bent, A.F.1
Mackey, D.2
-
11
-
-
0033954256
-
The Protein Data Bank
-
Berman HM, Westbrook J, Feng Z, Gilliland G, Bhat TN, Weissig H, Shindyalov IN, Bourne PE (2000) The Protein Data Bank. Nucleic Acids Res 28: 235-242
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
12
-
-
0034090615
-
RPP13 is a simple locus in Arabidopsis thaliana for alleles that specify downy mildew resistance to different avirulence determinants in Peronospora parasitica
-
Bittner-Eddy PD, Crute IR, Holub EB, Beynon JL (2000) RPP13 is a simple locus in Arabidopsis thaliana for alleles that specify downy mildew resistance to different avirulence determinants in Peronospora parasitica. Plant J 21: 177-188
-
(2000)
Plant J
, vol.21
, pp. 177-188
-
-
Bittner-Eddy, P.D.1
Crute, I.R.2
Holub, E.B.3
Beynon, J.L.4
-
13
-
-
34247231965
-
Hybrid necrosis: Autoimmunity as a potential gene-flow barrier in plant species
-
Bomblies K, Weigel D (2007) Hybrid necrosis: autoimmunity as a potential gene-flow barrier in plant species. Nat Rev Genet 8: 382-393
-
(2007)
Nat Rev Genet
, vol.8
, pp. 382-393
-
-
Bomblies, K.1
Weigel, D.2
-
14
-
-
0037468758
-
Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events
-
Bowers JE, Chapman BA, Rong J, Paterson AH (2003) Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events. Nature 422: 433-438
-
(2003)
Nature
, vol.422
, pp. 433-438
-
-
Bowers, J.E.1
Chapman, B.A.2
Rong, J.3
Paterson, A.H.4
-
15
-
-
23144444979
-
Protein structure prediction servers at University College London
-
Bryson K, McGuffin LJ, Marsden RL, Ward JJ, Sodhi JS, Jones DT (2005) Protein structure prediction servers at University College London. Nucleic Acids Res 33: W36-W38
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Bryson, K.1
McGuffin, L.J.2
Marsden, R.L.3
Ward, J.J.4
Sodhi, J.S.5
Jones, D.T.6
-
16
-
-
2942620598
-
The roles of segmental and tandem gene duplication in the evolution of large gene families in Arabidopsis thaliana
-
Cannon SB, Mitra A, Baumgarten A, Young ND, May G (2004) The roles of segmental and tandem gene duplication in the evolution of large gene families in Arabidopsis thaliana. BMC Plant Biol 4: 10
-
(2004)
BMC Plant Biol
, vol.4
, pp. 10
-
-
Cannon, S.B.1
Mitra, A.2
Baumgarten, A.3
Young, N.D.4
May, G.5
-
17
-
-
77955734200
-
Specific resistances against Pseudomonas syringae effectors AvrB and AvrRpm1 have evolved differently in common bean (Phaseolus vulgaris), soybean (Glycine max), and Arabidopsis thaliana
-
Chen NW, Sévignac M, Thareau V, Magdelenat G, David P, Ashfield T, Innes RW, Geffroy V (2010) Specific resistances against Pseudomonas syringae effectors AvrB and AvrRpm1 have evolved differently in common bean (Phaseolus vulgaris), soybean (Glycine max), and Arabidopsis thaliana. New Phytol 187: 941-956
-
(2010)
New Phytol
, vol.187
, pp. 941-956
-
-
Chen, N.W.1
Sévignac, M.2
Thareau, V.3
Magdelenat, G.4
David, P.5
Ashfield, T.6
Innes, R.W.7
Geffroy, V.8
-
18
-
-
79951639951
-
Specific threonine phosphorylation of a host target by two unrelated type III effectors activates a host innate immune receptor in plants
-
Chung EH, da Cunha L, Wu AJ, Gao Z, Cherkis K, Afzal AJ, Mackey D, Dangl JL (2011) Specific threonine phosphorylation of a host target by two unrelated type III effectors activates a host innate immune receptor in plants. Cell Host Microbe 9: 125-136
-
(2011)
Cell Host Microbe
, vol.9
, pp. 125-136
-
-
Chung, E.H.1
da Cunha, L.2
Wu, A.J.3
Gao, Z.4
Cherkis, K.5
Afzal, A.J.6
Mackey, D.7
Dangl, J.L.8
-
19
-
-
0033165792
-
Molecular characterization of the maize Rp1-D rust resistance haplotype and its mutants
-
Collins N, Drake J, Ayliffe M, Sun Q, Ellis J, Hulbert S, Pryor T (1999) Molecular characterization of the maize Rp1-D rust resistance haplotype and its mutants. Plant Cell 11: 1365-1376
-
(1999)
Plant Cell
, vol.11
, pp. 1365-1376
-
-
Collins, N.1
Drake, J.2
Ayliffe, M.3
Sun, Q.4
Ellis, J.5
Hulbert, S.6
Pryor, T.7
-
20
-
-
0035859020
-
Plant pathogens and integrated defence responses to infection
-
Dangl JL, Jones JD (2001) Plant pathogens and integrated defence responses to infection. Nature 411: 826-833
-
(2001)
Nature
, vol.411
, pp. 826-833
-
-
Dangl, J.L.1
Jones, J.D.2
-
21
-
-
77957233168
-
DataMonkey 2010: A suite of phylogenetic analysis tools for evolutionary biology
-
Delport W, Poon AF, Frost SD, Pond SLK (2010) DataMonkey 2010: a suite of phylogenetic analysis tools for evolutionary biology. Bioinformatics 26: 2455-2457
-
(2010)
Bioinformatics
, vol.26
, pp. 2455-2457
-
-
Delport, W.1
Poon, A.F.2
Frost, S.D.3
Pond, S.L.K.4
-
22
-
-
33846272114
-
Plant NBS-LRR proteins in pathogen sensing and host defense
-
DeYoung BJ, Innes RW (2006) Plant NBS-LRR proteins in pathogen sensing and host defense. Nat Immunol 7: 1243-1249
-
(2006)
Nat Immunol
, vol.7
, pp. 1243-1249
-
-
Deyoung, B.J.1
Innes, R.W.2
-
23
-
-
0001191716
-
Mapping Phytophthora resistance loci in soybean with restriction fragment length polymorphism markers
-
Diers BW, Mansur L, Imsande J, Shoemaker RC (1992) Mapping Phytophthora resistance loci in soybean with restriction fragment length polymorphism markers. Crop Sci 32: 377-383
-
(1992)
Crop Sci
, vol.32
, pp. 377-383
-
-
Diers, B.W.1
Mansur, L.2
Imsande, J.3
Shoemaker, R.C.4
-
24
-
-
33745015480
-
Direct protein interaction underlies gene-forgene specificity and coevolution of the flax resistance genes and flax rust avirulence genes
-
Dodds PN, Lawrence GJ, Catanzariti AM, Teh T, Wang CI, Ayliffe MA, Kobe B, Ellis JG (2006) Direct protein interaction underlies gene-forgene specificity and coevolution of the flax resistance genes and flax rust avirulence genes. Proc Natl Acad Sci USA 103: 8888-8893
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 8888-8893
-
-
Dodds, P.N.1
Lawrence, G.J.2
Catanzariti, A.M.3
Teh, T.4
Wang, C.I.5
Ayliffe, M.A.6
Kobe, B.7
Ellis, J.G.8
-
25
-
-
0034784612
-
Contrasting modes of evolution acting on the complex N Locus For Rust Resistance In Flax
-
Dodds PN, Lawrence GJ, Ellis JG (2001) Contrasting modes of evolution acting on the complex N locus for rust resistance in flax. Plant J 27: 439-453
-
(2001)
Plant J
, vol.27
, pp. 439-453
-
-
Dodds, P.N.1
Lawrence, G.J.2
Ellis, J.G.3
-
26
-
-
77958056519
-
A comparison of global, gene-specific, and relaxed clock methods in a comparative genomics framework: Dating the polyploid history of soybean (Glycine max)
-
Egan AN, Doyle J (2010) A comparison of global, gene-specific, and relaxed clock methods in a comparative genomics framework: dating the polyploid history of soybean (Glycine max). Syst Biol 59: 534-547
-
(2010)
Syst Biol
, vol.59
, pp. 534-547
-
-
Egan, A.N.1
Doyle, J.2
-
27
-
-
77955091927
-
NB-LRR proteins: Pairs, pieces, perception, partners, and pathways
-
Eitas TK, Dangl JL (2010) NB-LRR proteins: pairs, pieces, perception, partners, and pathways. Curr Opin Plant Biol 13: 472-477
-
(2010)
Curr Opin Plant Biol
, vol.13
, pp. 472-477
-
-
Eitas, T.K.1
Dangl, J.L.2
-
28
-
-
43749107283
-
Comparative protein structure modeling using Modeller
-
Chapter 5: Unit
-
Eswar N, Webb B, Marti-Renom MA, Madhusudhan MS, Eramian D, Shen MY, Pieper U, Sali A (2006) Comparative protein structure modeling using Modeller. Curr Protoc Bioinformatics Chapter 5: Unit 5.6
-
(2006)
Curr Protoc Bioinformatics
-
-
Eswar, N.1
Webb, B.2
Marti-Renom, M.A.3
Madhusudhan, M.S.4
Eramian, D.5
Shen, M.Y.6
Pieper, U.7
Sali, A.8
-
29
-
-
0031957682
-
A family of LRR sequences in the vicinity of the Co-2 locus for anthracnose resistance in Phaseolus vulgaris and its potential use in marker-assisted selection
-
Geffroy V, Creusot F, Falquet J, Sévignac M, Adam-Blondon AF, Bannerot H, Gepts P, Dron M (1998) A family of LRR sequences in the vicinity of the Co-2 locus for anthracnose resistance in Phaseolus vulgaris and its potential use in marker-assisted selection. Theor Appl Genet 96: 494-502
-
(1998)
Theor Appl Genet
, vol.96
, pp. 494-502
-
-
Geffroy, V.1
Creusot, F.2
Falquet, J.3
Sévignac, M.4
Adam-Blondon, A.F.5
Bannerot, H.6
Gepts, P.7
Dron, M.8
-
30
-
-
62449248419
-
Molecular analysis of a large subtelomeric nucleotide-binding-site-leucine-rich-repeat family in two representative genotypes of the major gene pools of Phaseolus vulgaris
-
Geffroy V, Macadré C, David P, Pedrosa-Harand A, Sévignac M, Dauga C, Langin T (2009) Molecular analysis of a large subtelomeric nucleotide-binding-site-leucine-rich-repeat family in two representative genotypes of the major gene pools of Phaseolus vulgaris. Genetics 181: 405-419
-
(2009)
Genetics
, vol.181
, pp. 405-419
-
-
Geffroy, V.1
Macadré, C.2
David, P.3
Pedrosa-Harand, A.4
Sévignac, M.5
Dauga, C.6
Langin, T.7
-
31
-
-
70350630311
-
Molecular and chromosomal evidence for allopolyploidy in soybean
-
Gill N, Findley S, Walling JG, Hans C, Ma J, Doyle J, Stacey G, Jackson SA (2009) Molecular and chromosomal evidence for allopolyploidy in soybean. Plant Physiol 151: 1167-1174
-
(2009)
Plant Physiol
, vol.151
, pp. 1167-1174
-
-
Gill, N.1
Findley, S.2
Walling, J.G.3
Hans, C.4
Ma, J.5
Doyle, J.6
Stacey, G.7
Jackson, S.A.8
-
32
-
-
70450204614
-
A first-generation haplotype map of maize
-
Gore MA, Chia JM, Elshire RJ, Sun Q, Ersoz ES, Hurwitz BL, Peiffer JA, McMullen MD, Grills GS, Ross-Ibarra J, et al (2009) A first-generation haplotype map of maize. Science 326: 1115-1117
-
(2009)
Science
, vol.326
, pp. 1115-1117
-
-
Gore, M.A.1
Chia, J.M.2
Elshire, R.J.3
Sun, Q.4
Ersoz, E.S.5
Hurwitz, B.L.6
Peiffer, J.A.7
McMullen, M.D.8
Grills, G.S.9
Ross-Ibarra, J.10
-
33
-
-
0001359013
-
Natural selection and the evolutionary history of major histocompatibility complex loci
-
Hughes AL, Yeager M (1998a) Natural selection and the evolutionary history of major histocompatibility complex loci. Front Biosci 3: d509-d516
-
(1998)
Front Biosci
, vol.3
-
-
Hughes, A.L.1
Yeager, M.2
-
34
-
-
0032426345
-
Natural selection at major histocompatibility complex loci of vertebrates
-
Hughes AL, Yeager M (1998b) Natural selection at major histocompatibility complex loci of vertebrates. Annu Rev Genet 32: 415-435
-
(1998)
Annu Rev Genet
, vol.32
, pp. 415-435
-
-
Hughes, A.L.1
Yeager, M.2
-
35
-
-
30744470609
-
Application of phylogenetic networks in evolutionary studies
-
Huson DH, Bryant D (2006) Application of phylogenetic networks in evolutionary studies. Mol Biol Evol 23: 254-267
-
(2006)
Mol Biol Evol
, vol.23
, pp. 254-267
-
-
Huson, D.H.1
Bryant, D.2
-
36
-
-
0038806568
-
Leucine-rich repeat-mediated intramolecular interactions in nematode recognition and cell death signaling by the tomato resistance protein Mi
-
Hwang CF, Williamson VM (2003) Leucine-rich repeat-mediated intramolecular interactions in nematode recognition and cell death signaling by the tomato resistance protein Mi. Plant J 34: 585-593
-
(2003)
Plant J
, vol.34
, pp. 585-593
-
-
Hwang, C.F.1
Williamson, V.M.2
-
37
-
-
3042525485
-
Guarding the goods: New insights into the central alarm system of plants
-
Innes RW (2004) Guarding the goods: new insights into the central alarm system of plants. Plant Physiol 135: 695-701
-
(2004)
Plant Physiol
, vol.135
, pp. 695-701
-
-
Innes, R.W.1
-
38
-
-
57749105200
-
Differential accumulation of retroelements and diversification of NBLRR disease resistance genes in duplicated regions following polyploidy in the ancestor of soybean
-
Innes RW, Ameline-Torregrosa C, Ashfield T, Cannon E, Cannon SB, Chacko B, Chen NW, Couloux A, Dalwani A, Denny R, et al (2008) Differential accumulation of retroelements and diversification of NBLRR disease resistance genes in duplicated regions following polyploidy in the ancestor of soybean. Plant Physiol 148: 1740-1759
-
(2008)
Plant Physiol
, vol.148
, pp. 1740-1759
-
-
Innes, R.W.1
Ameline-Torregrosa, C.2
Ashfield, T.3
Cannon, E.4
Cannon, S.B.5
Chacko, B.6
Chen, N.W.7
Couloux, A.8
Dalwani, A.9
Denny, R.10
-
39
-
-
0033578684
-
Protein secondary structure prediction based on positionspecific scoring matrices
-
Jones DT (1999) Protein secondary structure prediction based on positionspecific scoring matrices. J Mol Biol 292: 195-202
-
(1999)
J Mol Biol
, vol.292
, pp. 195-202
-
-
Jones, D.T.1
-
40
-
-
33751100626
-
The plant immune system
-
Jones JD, Dangl JL (2006) The plant immune system. Nature 444: 323-329
-
(2006)
Nature
, vol.444
, pp. 323-329
-
-
Jones, J.D.1
Dangl, J.L.2
-
41
-
-
40949140170
-
Frequent sequence exchanges between homologs of RPP8 in Arabidopsis are not necessarily associated with genomic proximity
-
Kuang H, Caldwell KS, Meyers BC, Michelmore RW (2008) Frequent sequence exchanges between homologs of RPP8 in Arabidopsis are not necessarily associated with genomic proximity. Plant J 54: 69-80
-
(2008)
Plant J
, vol.54
, pp. 69-80
-
-
Kuang, H.1
Caldwell, K.S.2
Meyers, B.C.3
Michelmore, R.W.4
-
42
-
-
33644808013
-
The R1 resistance gene cluster contains three groups of independently evolving, type I R1 homologues and shows substantial structural variation among haplotypes of Solanum demissum
-
Kuang H, Wei F, Marano MR, Wirtz U, Wang X, Liu J, Shum WP, Zaborsky J, Tallon LJ, Rensink W, et al (2005) The R1 resistance gene cluster contains three groups of independently evolving, type I R1 homologues and shows substantial structural variation among haplotypes of Solanum demissum. Plant J 44: 37-51
-
(2005)
Plant J
, vol.44
, pp. 37-51
-
-
Kuang, H.1
Wei, F.2
Marano, M.R.3
Wirtz, U.4
Wang, X.5
Liu, J.6
Shum, W.P.7
Zaborsky, J.8
Tallon, L.J.9
Rensink, W.10
-
43
-
-
36448991500
-
Clustal W and Clustal X version 2.0
-
Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, et al (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23: 2947-2948
-
(2007)
Bioinformatics
, vol.23
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
McGettigan, P.A.5
McWilliam, H.6
Valentin, F.7
Wallace, I.M.8
Wilm, A.9
Lopez, R.10
-
44
-
-
25144446148
-
Evolutionary rates analysis of Leguminosae implicates a rapid diversification of lineages during the tertiary
-
Lavin M, Herendeen PS, Wojciechowski MF (2005) Evolutionary rates analysis of Leguminosae implicates a rapid diversification of lineages during the tertiary. Syst Biol 54: 575-594
-
(2005)
Syst Biol
, vol.54
, pp. 575-594
-
-
Lavin, M.1
Herendeen, P.S.2
Wojciechowski, M.F.3
-
45
-
-
1242316239
-
Tandem and segmental gene duplication and recombination in the evolution of plant disease resistance gene
-
Leister D (2004) Tandem and segmental gene duplication and recombination in the evolution of plant disease resistance gene. Trends Genet 20: 116-122
-
(2004)
Trends Genet
, vol.20
, pp. 116-122
-
-
Leister, D.1
-
46
-
-
21044458960
-
Molecular genetic evidence for the role of SGT1 in the intramolecular complementation of Bs2 protein activity in Nicotiana benthamiana
-
Leister RT, Dahlbeck D, Day B, Li Y, Chesnokova O, Staskawicz BJ (2005) Molecular genetic evidence for the role of SGT1 in the intramolecular complementation of Bs2 protein activity in Nicotiana benthamiana. Plant Cell 17: 1268-1278
-
(2005)
Plant Cell
, vol.17
, pp. 1268-1278
-
-
Leister, R.T.1
Dahlbeck, D.2
Day, B.3
Li, Y.4
Chesnokova, O.5
Staskawicz, B.J.6
-
47
-
-
65649117685
-
DnaSP v5: A software for comprehensive analysis of DNA polymorphism data
-
Librado P, Rozas J (2009) DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25: 1451-1452
-
(2009)
Bioinformatics
, vol.25
, pp. 1451-1452
-
-
Librado, P.1
Rozas, J.2
-
48
-
-
0026356891
-
Predicting coiled coils from protein sequences
-
Lupas A, Van Dyke M, Stock J (1991) Predicting coiled coils from protein sequences. Science 252: 1162-1164
-
(1991)
Science
, vol.252
, pp. 1162-1164
-
-
Lupas, A.1
van Dyke, M.2
Stock, J.3
-
49
-
-
4744343021
-
The altered evolutionary trajectories of gene duplicates
-
Lynch M, Katju V (2004) The altered evolutionary trajectories of gene duplicates. Trends Genet 20: 544-549
-
(2004)
Trends Genet
, vol.20
, pp. 544-549
-
-
Lynch, M.1
Katju, V.2
-
50
-
-
79952642803
-
Coiled-coil domaindependent homodimerization of intracellular barley immune receptors defines a minimal functional module for triggering cell death
-
Maekawa T, Cheng W, Spiridon LN, Töller A, Lukasik E, Saijo Y, Liu P, Shen QH, Micluta MA, Somssich IE, et al (2011) Coiled-coil domaindependent homodimerization of intracellular barley immune receptors defines a minimal functional module for triggering cell death. Cell Host Microbe 9: 187-199
-
(2011)
Cell Host Microbe
, vol.9
, pp. 187-199
-
-
Maekawa, T.1
Cheng, W.2
Spiridon, L.N.3
Töller, A.4
Lukasik, E.5
Saijo, Y.6
Liu, P.7
Shen, Q.H.8
Micluta, M.A.9
Somssich, I.E.10
-
51
-
-
0033824415
-
RDP: Detection of recombination amongst aligned sequences
-
Martin D, Rybicki E (2000) RDP: detection of recombination amongst aligned sequences. Bioinformatics 16: 562-563
-
(2000)
Bioinformatics
, vol.16
, pp. 562-563
-
-
Martin, D.1
Rybicki, E.2
-
52
-
-
13144283628
-
A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints
-
Martin DP, Posada D, Crandall KA, Williamson C (2005a) A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints. AIDS Res Hum Retroviruses 21: 98-102
-
(2005)
AIDS Res Hum Retroviruses
, vol.21
, pp. 98-102
-
-
Martin, D.P.1
Posada, D.2
Crandall, K.A.3
Williamson, C.4
-
53
-
-
13444251528
-
RDP2: Recombination detection and analysis from sequence alignments
-
Martin DP, Williamson C, Posada D (2005b) RDP2: recombination detection and analysis from sequence alignments. Bioinformatics 21: 260-262
-
(2005)
Bioinformatics
, vol.21
, pp. 260-262
-
-
Martin, D.P.1
Williamson, C.2
Posada, D.3
-
54
-
-
40849086403
-
Molecular diversity at the plant-pathogen interface
-
McDowell JM, Simon SA (2008) Molecular diversity at the plant-pathogen interface. Dev Comp Immunol 32: 736-744
-
(2008)
Dev Comp Immunol
, vol.32
, pp. 736-744
-
-
McDowell, J.M.1
Simon, S.A.2
-
55
-
-
0033231602
-
Plant disease resistance genes encode members of an ancient and diverse protein family within the nucleotidebinding superfamily
-
Meyers BC, Dickerman AW, Michelmore RW, Sivaramakrishnan S, Sobral BW, Young ND (1999) Plant disease resistance genes encode members of an ancient and diverse protein family within the nucleotidebinding superfamily. Plant J 20: 317-332
-
(1999)
Plant J
, vol.20
, pp. 317-332
-
-
Meyers, B.C.1
Dickerman, A.W.2
Michelmore, R.W.3
Sivaramakrishnan, S.4
Sobral, B.W.5
Young, N.D.6
-
56
-
-
0037390933
-
Genome-wide analysis of NBS-LRR-encoding genes in Arabidopsis
-
Meyers BC, Kozik A, Griego A, Kuang H, Michelmore RW (2003) Genome-wide analysis of NBS-LRR-encoding genes in Arabidopsis. Plant Cell 15: 809-834
-
(2003)
Plant Cell
, vol.15
, pp. 809-834
-
-
Meyers, B.C.1
Kozik, A.2
Griego, A.3
Kuang, H.4
Michelmore, R.W.5
-
57
-
-
0037009437
-
Interaction between domains of a plant NBS-LRR protein in disease resistance-related cell death
-
Moffett P, Farnham G, Peart J, Baulcombe DC (2002) Interaction between domains of a plant NBS-LRR protein in disease resistance-related cell death. EMBO J 21: 4511-4519
-
(2002)
EMBO J
, vol.21
, pp. 4511-4519
-
-
Moffett, P.1
Farnham, G.2
Peart, J.3
Baulcombe, D.C.4
-
58
-
-
27844526579
-
Gene conversion and the evolution of three leucine-rich repeat gene families in Arabidopsis thaliana
-
Mondragon-Palomino M, Gaut BS (2005) Gene conversion and the evolution of three leucine-rich repeat gene families in Arabidopsis thaliana. Mol Biol Evol 22: 2444-2456
-
(2005)
Mol Biol Evol
, vol.22
, pp. 2444-2456
-
-
Mondragon-Palomino, M.1
Gaut, B.S.2
-
59
-
-
0036739297
-
Patterns of positive selection in the complete NBS-LRR gene family of Arabidopsis thaliana
-
Mondragón-Palomino M, Meyers BC, Michelmore RW, Gaut BS (2002) Patterns of positive selection in the complete NBS-LRR gene family of Arabidopsis thaliana. Genome Res 12: 1305-1315
-
(2002)
Genome Res
, vol.12
, pp. 1305-1315
-
-
Mondragón-Palomino, M.1
Meyers, B.C.2
Michelmore, R.W.3
Gaut, B.S.4
-
60
-
-
12444288067
-
Diversification of non-TIR class NB-LRR genes in relation to whole-genome duplication events in Arabidopsis
-
Nobuta K, Ashfield T, Kim S, Innes RW (2005) Diversification of non-TIR class NB-LRR genes in relation to whole-genome duplication events in Arabidopsis. Mol Plant Microbe Interact 18: 103-109
-
(2005)
Mol Plant Microbe Interact
, vol.18
, pp. 103-109
-
-
Nobuta, K.1
Ashfield, T.2
Kim, S.3
Innes, R.W.4
-
61
-
-
0033590220
-
Possible emergence of new geminiviruses by frequent recombination
-
Padidam M, Sawyer S, Fauquet CM (1999) Possible emergence of new geminiviruses by frequent recombination. Virology 265: 218-225
-
(1999)
Virology
, vol.265
, pp. 218-225
-
-
Padidam, M.1
Sawyer, S.2
Fauquet, C.M.3
-
62
-
-
0031774059
-
GeneTree: Comparing gene and species phylogenies using reconciled trees
-
Page RD (1998) GeneTree: comparing gene and species phylogenies using reconciled trees. Bioinformatics 14: 819-820
-
(1998)
Bioinformatics
, vol.14
, pp. 819-820
-
-
Page, R.D.1
-
63
-
-
4444221565
-
UCSF Chimera: A visualization system for exploratory research and analysis
-
Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, Meng EC, Ferrin TE (2004) UCSF Chimera: a visualization system for exploratory research and analysis. J Comput Chem 25: 1605-1612
-
(2004)
J Comput Chem
, vol.25
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Greenblatt, D.M.5
Meng, E.C.6
Ferrin, T.E.7
-
64
-
-
17744395033
-
DataMonkey: Rapid detection of selective pressure on individual sites of codon alignments
-
Pond SL, Frost SD (2005a) DataMonkey: rapid detection of selective pressure on individual sites of codon alignments. Bioinformatics 21: 2531-2533
-
(2005)
Bioinformatics
, vol.21
, pp. 2531-2533
-
-
Pond, S.L.1
Frost, S.D.2
-
65
-
-
15844406550
-
HyPhy: Hypothesis testing using phylogenies
-
Pond SL, Frost SD, Muse SV (2005) HyPhy: hypothesis testing using phylogenies. Bioinformatics 21: 676-679
-
(2005)
Bioinformatics
, vol.21
, pp. 676-679
-
-
Pond, S.L.1
Frost, S.D.2
Muse, S.V.3
-
66
-
-
17744396121
-
Not so different after all: A comparison of methods for detecting amino acid sites under selection
-
Pond SLK, Frost SDW (2005b) Not so different after all: a comparison of methods for detecting amino acid sites under selection. Mol Biol Evol 22: 1208-1222
-
(2005)
Mol Biol Evol
, vol.22
, pp. 1208-1222
-
-
Pond, S.L.K.1
Frost, S.D.W.2
-
67
-
-
0035923699
-
Evaluation of methods for detecting recombination from DNA sequences: Computer simulations
-
Posada D, Crandall KA (2001) Evaluation of methods for detecting recombination from DNA sequences: computer simulations. Proc Natl Acad Sci USA 98: 13757-13762
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 13757-13762
-
-
Posada, D.1
Crandall, K.A.2
-
68
-
-
48249140729
-
The coiled-coil and nucleotide binding domains of the potato Rx disease resistance protein function in pathogen recognition and signaling
-
Rairdan GJ, Collier SM, Sacco MA, Baldwin TT, Boettrich T, Moffett P (2008) The coiled-coil and nucleotide binding domains of the potato Rx disease resistance protein function in pathogen recognition and signaling. Plant Cell 20: 739-751
-
(2008)
Plant Cell
, vol.20
, pp. 739-751
-
-
Rairdan, G.J.1
Collier, S.M.2
Sacco, M.A.3
Baldwin, T.T.4
Boettrich, T.5
Moffett, P.6
-
69
-
-
33747473700
-
Distinct domains in the ARC region of the potato resistance protein Rx mediate LRR binding and inhibition of activation
-
Rairdan GJ, Moffett P (2006) Distinct domains in the ARC region of the potato resistance protein Rx mediate LRR binding and inhibition of activation. Plant Cell 18: 2082-2093
-
(2006)
Plant Cell
, vol.18
, pp. 2082-2093
-
-
Rairdan, G.J.1
Moffett, P.2
-
70
-
-
0036136234
-
Mode of amplification and reorganization of resistance genes during recent Arabidopsis thaliana evolution
-
Richly E, Kurth J, Leister D (2002) Mode of amplification and reorganization of resistance genes during recent Arabidopsis thaliana evolution. Mol Biol Evol 19: 76-84
-
(2002)
Mol Biol Evol
, vol.19
, pp. 76-84
-
-
Richly, E.1
Kurth, J.2
Leister, D.3
-
71
-
-
17244368276
-
Structure of the apoptotic protease-activating factor 1 bound to ADP
-
Riedl SJ, Li W, Chao Y, Schwarzenbacher R, Shi Y (2005) Structure of the apoptotic protease-activating factor 1 bound to ADP. Nature 434: 926-933
-
(2005)
Nature
, vol.434
, pp. 926-933
-
-
Riedl, S.J.1
Li, W.2
Chao, Y.3
Schwarzenbacher, R.4
Shi, Y.5
-
72
-
-
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
-
73
-
-
26644449456
-
Soybean Phytophthora resistance gene Rps8 maps closely to the Rps3 region
-
Sandhu D, Schallock KG, Rivera-Velez N, Lundeen P, Cianzio S, Bhattacharyya MK (2005) Soybean Phytophthora resistance gene Rps8 maps closely to the Rps3 region. J Hered 96: 536-541
-
(2005)
J Hered
, vol.96
, pp. 536-541
-
-
Sandhu, D.1
Schallock, K.G.2
Rivera-Velez, N.3
Lundeen, P.4
Cianzio, S.5
Bhattacharyya, M.K.6
-
74
-
-
2442712340
-
Mining EST databases to resolve evolutionary events in major crop species
-
Schlueter JA, Dixon P, Granger C, Grant D, Clark L, Doyle JJ, Shoemaker RC (2004) Mining EST databases to resolve evolutionary events in major crop species. Genome 47: 868-876
-
(2004)
Genome
, vol.47
, pp. 868-876
-
-
Schlueter, J.A.1
Dixon, P.2
Granger, C.3
Grant, D.4
Clark, L.5
Doyle, J.J.6
Shoemaker, R.C.7
-
75
-
-
74549221016
-
Genome sequence of the palaeopolyploid soybean
-
Schmutz J, Cannon SB, Schlueter J, Ma J, Mitros T, Nelson W, Hyten DL, Song Q, Thelen JJ, Cheng J, et al (2010) Genome sequence of the palaeopolyploid soybean. Nature 463: 178-183
-
(2010)
Nature
, vol.463
, pp. 178-183
-
-
Schmutz, J.1
Cannon, S.B.2
Schlueter, J.3
Ma, J.4
Mitros, T.5
Nelson, W.6
Hyten, D.L.7
Song, Q.8
Thelen, J.J.9
Cheng, J.10
-
76
-
-
77954266748
-
RPG1-B-derived resistance to AvrB-expressing Pseudomonas syringae requires RIN4-like proteins in soybean
-
Selote D, Kachroo A (2010) RPG1-B-derived resistance to AvrB-expressing Pseudomonas syringae requires RIN4-like proteins in soybean. Plant Physiol 153: 1199-1211
-
(2010)
Plant Physiol
, vol.153
, pp. 1199-1211
-
-
Selote, D.1
Kachroo, A.2
-
77
-
-
33847254952
-
Nuclear activity of MLA immune receptors links isolate-specific and basal disease-resistance responses
-
Shen QH, Saijo Y, Mauch S, Biskup C, Bieri S, Keller B, Seki H, Ulker B, Somssich IE, Schulze-Lefert P (2007) Nuclear activity of MLA immune receptors links isolate-specific and basal disease-resistance responses. Science 315: 1098-1103
-
(2007)
Science
, vol.315
, pp. 1098-1103
-
-
Shen, Q.H.1
Saijo, Y.2
Mauch, S.3
Biskup, C.4
Bieri, S.5
Keller, B.6
Seki, H.7
Ulker, B.8
Somssich, I.E.9
Schulze-Lefert, P.10
-
78
-
-
77950579006
-
Widespread gene conversion in centromere cores
-
Shi J, Wolf SE, Burke JM, Presting GG, Ross-Ibarra J, Dawe RK (2010) Widespread gene conversion in centromere cores. PLoS Biol 8: e1000327
-
(2010)
PLoS Biol
, vol.8
-
-
Shi, J.1
Wolf, S.E.2
Burke, J.M.3
Presting, G.G.4
Ross-Ibarra, J.5
Dawe, R.K.6
-
80
-
-
77950586378
-
Centromeres convert but don't cross
-
Talbert PB, Henikoff S (2010) Centromeres convert but don't cross. PLoS Biol 8: e1000326
-
(2010)
PLoS Biol
, vol.8
-
-
Talbert, P.B.1
Henikoff, S.2
-
81
-
-
0037653656
-
Fitness costs of R-gene-mediated resistance in Arabidopsis thaliana
-
Tian D, Traw MB, Chen JQ, Kreitman M, Bergelson J (2003) Fitness costs of R-gene-mediated resistance in Arabidopsis thaliana. Nature 423: 74-77
-
(2003)
Nature
, vol.423
, pp. 74-77
-
-
Tian, D.1
Traw, M.B.2
Chen, J.Q.3
Kreitman, M.4
Bergelson, J.5
-
82
-
-
0032568168
-
The NB-ARC domain: A novel signalling motif shared by plant resistance gene products and regulators of cell death in animals
-
van der Biezen EA, Jones JDG (1998a) The NB-ARC domain: a novel signalling motif shared by plant resistance gene products and regulators of cell death in animals. Curr Biol 8: R226-R227
-
(1998)
Curr Biol
, vol.8
-
-
van der Biezen, E.A.1
Jones, J.D.G.2
-
83
-
-
0032422882
-
Plant disease-resistance proteins and the gene-for-gene concept
-
van der Biezen EA, Jones JDG (1998b) Plant disease-resistance proteins and the gene-for-gene concept. Trends Biochem Sci 23: 454-456
-
(1998)
Trends Biochem Sci
, vol.23
, pp. 454-456
-
-
van der Biezen, E.A.1
Jones, J.D.G.2
-
85
-
-
35748972958
-
Crystal structures of flax rust avirulence proteins AvrL567-A and -D reveal details of the structural basis for flax disease resistance specificity
-
Wang CI, Guncar G, Forwood JK, Teh T, Catanzariti AM, Lawrence GJ, Loughlin FE, Mackay JP, Schirra HJ, Anderson PA, et al (2007) Crystal structures of flax rust avirulence proteins AvrL567-A and -D reveal details of the structural basis for flax disease resistance specificity. Plant Cell 19: 2898-2912
-
(2007)
Plant Cell
, vol.19
, pp. 2898-2912
-
-
Wang, C.I.1
Guncar, G.2
Forwood, J.K.3
Teh, T.4
Catanzariti, A.M.5
Lawrence, G.J.6
Loughlin, F.E.7
Mackay, J.P.8
Schirra, H.J.9
Anderson, P.A.10
-
86
-
-
79953714580
-
Gene conversion in angiosperm genomes with an emphasis on genes duplicated by polyploidization
-
Wang X, Paterson AH (2011) Gene conversion in angiosperm genomes with an emphasis on genes duplicated by polyploidization. Genes 2: 1-20
-
(2011)
Genes
, vol.2
, pp. 1-20
-
-
Wang, X.1
Paterson, A.H.2
-
87
-
-
57749085447
-
Replication of nonautonomous retroelements in soybean appears to be both recent and common
-
Wawrzynski A, Ashfield T, Chen NW, Mammadov J, Nguyen A, Podicheti R, Cannon SB, Thareau V, Ameline-Torregrosa C, Cannon E, et al (2008) Replication of nonautonomous retroelements in soybean appears to be both recent and common. Plant Physiol 148: 1760-1771
-
(2008)
Plant Physiol
, vol.148
, pp. 1760-1771
-
-
Wawrzynski, A.1
Ashfield, T.2
Chen, N.W.3
Mammadov, J.4
Nguyen, A.5
Podicheti, R.6
Cannon, S.B.7
Thareau, V.8
Ameline-Torregrosa, C.9
Cannon, E.10
-
88
-
-
0028084032
-
RFLP and microsatellite mapping of a gene for soybean mosaic virus resistance
-
Yu YG, Saghai Maroof MA, Buss GR, Maughan PJ, Tolin SA (1994) RFLP and microsatellite mapping of a gene for soybean mosaic virus resistance. Phytopathology 84: 60-64
-
(1994)
Phytopathology
, vol.84
, pp. 60-64
-
-
Yu, Y.G.1
Saghai, M.M.A.2
Buss, G.R.3
Maughan, P.J.4
Tolin, S.A.5
-
89
-
-
78049405533
-
Numbers of genes in the NBS and RLK families vary by more than four-fold within a plant species and are regulated by multiple factors
-
Zhang M, Wu YH, Lee MK, Liu YH, Rong Y, Santos TS, Wu C, Xie F, Nelson RL, Zhang HB (2010) Numbers of genes in the NBS and RLK families vary by more than four-fold within a plant species and are regulated by multiple factors. Nucleic Acids Res 38: 6513-6525
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 6513-6525
-
-
Zhang, M.1
Wu, Y.H.2
Lee, M.K.3
Liu, Y.H.4
Rong, Y.5
Santos, T.S.6
Wu, C.7
Xie, F.8
Nelson, R.L.9
Zhang, H.B.10
-
90
-
-
79952214722
-
Relative evolutionary rates of NBS-encoding genes revealed by soybean segmental duplication
-
Zhang X, Feng Y, Cheng H, Tian D, Yang S, Chen JQ (2011) Relative evolutionary rates of NBS-encoding genes revealed by soybean segmental duplication. Mol Genet Genomics 285: 79-90
-
(2011)
Mol Genet Genomics
, vol.285
, pp. 79-90
-
-
Zhang, X.1
Feng, Y.2
Cheng, H.3
Tian, D.4
Yang, S.5
Chen, J.Q.6
|