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Volumn 28, Issue 9, 2011, Pages 2537-2547

Gene space dynamics during the evolution of aegilops tauschii, brachypodium distachyon, Oryza sativa, and sorghum bicolor genomes

Author keywords

Aegilops tauschii; comparative genomics; gene space; genome evolution; genome organization

Indexed keywords

ARTICLE; BRACHYPODIUM; COMPARATIVE GENOMIC HYBRIDIZATION; GENE DELETION; GENE DUPLICATION; GENE NUMBER; GENE SEQUENCE; GENOME ANALYSIS; GRASS; MOLECULAR DYNAMICS; MOLECULAR EVOLUTION; MOLECULAR GENETICS; NONHUMAN; PHYLOGENETIC TREE; PLANT GENETICS; PLANT GENOME; RICE; SEQUENCE ANALYSIS; SORGHUM; SYNTENY;

EID: 80052146245     PISSN: 07374038     EISSN: 15371719     Source Type: Journal    
DOI: 10.1093/molbev/msr080     Document Type: Article
Times cited : (39)

References (47)
  • 1
    • 33846811438 scopus 로고    scopus 로고
    • Mechanisms and rates of birth and death of dispersed duplicated genes during the evolution of a multigene family in diploid and tetraploid wheats
    • DOI 10.1093/molbev/msl183
    • Akhunov ED, Akhunova AR, Dvorak J. 2007. Mechanisms and rates of birth and death of dispersed duplicated genes during the evolution of a multigene family in diploid and tetraploid wheats. Mol Biol Evol. 24:539-550. (Pubitemid 46204386)
    • (2007) Molecular Biology and Evolution , vol.24 , Issue.2 , pp. 539-550
    • Akhunov, E.D.1    Akhunova, A.R.2    Dvorak, J.3
  • 3
    • 51249171246 scopus 로고
    • Nuclear DNA content of some important plant species
    • Arumuganathan K, Earle ED. 1991. Nuclear DNA content of some important plant species. Plant Mol Biol Rep. 9:208-218.
    • (1991) Plant Mol Biol Rep , vol.9 , pp. 208-218
    • Arumuganathan, K.1    Earle, E.D.2
  • 5
    • 27444444339 scopus 로고    scopus 로고
    • Transposable elements, gene creation and genome rearrangement in flowering plants
    • DOI 10.1016/j.gde.2005.09.010, PII S0959437X05001796, Genomes and Evolution
    • Bennetzen JL. 2005. Transposable elements, gene creation and genome rearrangement in flowering plants. Curr Opin Genet Dev. 15:621-627. (Pubitemid 41532335)
    • (2005) Current Opinion in Genetics and Development , vol.15 , Issue.6 , pp. 621-627
    • Bennetzen, J.L.1
  • 6
    • 0000637348 scopus 로고    scopus 로고
    • Do plants have a one-way ticket to genomic obesity?
    • Bennetzen JL, Kellogg EA. 1997. Do plants have a one-way ticket to genomic obesity? Plant Cell. 9:1509-1514.
    • (1997) Plant Cell , vol.9 , pp. 1509-1514
    • Bennetzen, J.L.1    Kellogg, E.A.2
  • 7
    • 0037391473 scopus 로고    scopus 로고
    • The genetic colinearity of rice and other cereals on the basis of genomic sequence analysis
    • DOI 10.1016/S1369-5266(03)00015-3
    • Bennetzen JL, Ma J. 2003. The genetic colinearity of rice and other cereals on the basis of genomic sequence analysis. Curr Opin Plant Biol. 6:128-133. (Pubitemid 36463286)
    • (2003) Current Opinion in Plant Biology , vol.6 , Issue.2 , pp. 128-133
    • Bennetzen, J.L.1    Ma, J.2
  • 8
    • 33846936303 scopus 로고    scopus 로고
    • Comparison of orthologous loci from small grass genomes Brachypodium and rice: Implications for wheat genomics and grass genome annotation
    • DOI 10.1111/j.1365-313X.2006.02991.x
    • Bossolini E, Wicker T, Knobel PA, Keller B. 2007. Comparison of orthologous loci from small grass genomes Brachypodium and rice: implications for wheat genomics and grass genome annotation. Plant J. 49:704-717. (Pubitemid 46233087)
    • (2007) Plant Journal , vol.49 , Issue.4 , pp. 704-717
    • Bossolini, E.1    Wicker, T.2    Knobel, P.A.3    Keller, B.4
  • 11
    • 0036061848 scopus 로고    scopus 로고
    • Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis
    • DOI 10.1101/gr.132102
    • Devos KM, Brown JKM, Bennetzen JL. 2002. Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis. Genome Res. 12:1075-1079. (Pubitemid 34785200)
    • (2002) Genome Research , vol.12 , Issue.7 , pp. 1075-1079
    • Devos, K.M.1    Brown, J.K.M.2    Bennetzen, J.L.3
  • 12
    • 34347399464 scopus 로고    scopus 로고
    • Genome plasticity a key factor in the success of polyploid wheat under domestication
    • DOI 10.1126/science.1143986
    • Dubcovsky J, Dvorak J. 2007. Genome plasticity a key factor in the success of polyploid wheat under domestication. Science 316:1862-1866. (Pubitemid 47025777)
    • (2007) Science , vol.316 , Issue.5833 , pp. 1862-1866
    • Dubcovsky, J.1    Dvorak, J.2
  • 14
    • 77949918995 scopus 로고    scopus 로고
    • Triticeae genome structure and evolution
    • Feuillet C, Muehlbauer GJ, editors Heidelberg: Springer-Verlag
    • Dvorak J. 2009. Triticeae genome structure and evolution. In: Feuillet C, Muehlbauer GJ, editors. Genetics and genomics of Triticeae. Heidelberg: Springer-Verlag. p 685-711.
    • (2009) Genetics and Genomics of Triticeae , pp. 685-711
    • Dvorak, J.1
  • 15
    • 26444545621 scopus 로고    scopus 로고
    • Tempos of gene locus deletions and duplications and their relationship to recombination rate during diploid and polyploid evolution in the Aegilops-Triticum alliance
    • DOI 10.1534/genetics.105.041632
    • Dvorak J, Akhunov ED. 2005. Tempos of gene locus deletions and duplications and their relationship to recombination rate during diploid and polyploid evolution in the Aegilops-Triticum alliance. Genetics 171:323-332. (Pubitemid 41437561)
    • (2005) Genetics , vol.171 , Issue.1 , pp. 323-332
    • Dvorak, J.1    Akhunov, E.D.2
  • 16
    • 68149134694 scopus 로고    scopus 로고
    • The DAWGPAWS pipeline for the annotation of genes and transposable elements in plant genomes
    • Estill JC, Bennetzen JL. 2009. The DAWGPAWS pipeline for the annotation of genes and transposable elements in plant genomes. Plant Methods 5:8-18.
    • (2009) Plant Methods , vol.5 , pp. 8-18
    • Estill, J.C.1    Bennetzen, J.L.2
  • 17
    • 0030783086 scopus 로고    scopus 로고
    • Detailed comparative mapping of cereal chromosome regions corresponding to the Ph1 locus in wheat
    • Foote T, Roberts M, Kurata N, Sasaki T, Moore G. 1997. Detailed comparative mapping of cereal chromosome regions corresponding to the Ph1 locus in wheat. Genetics 147:801-807. (Pubitemid 27418587)
    • (1997) Genetics , vol.147 , Issue.2 , pp. 801-807
    • Foote, T.1    Roberts, M.2    Kurata, N.3    Sasaki, T.4    Moore, G.5
  • 20
    • 84907150192 scopus 로고    scopus 로고
    • The map-based sequence of the rice genome
    • International Rice Genome Sequencing Project
    • International Rice Genome Sequencing Project. 2005. The map-based sequence of the rice genome. Nature 436:793-800.
    • (2005) Nature , vol.436 , pp. 793-800
  • 21
    • 1942533491 scopus 로고    scopus 로고
    • The Considerable Genome Size Variation of Hordeum Species (Poaceae) Is Linked to Phylogeny, Life Form, Ecology, and Speciation Rates
    • DOI 10.1093/molbev/msh092
    • Jakob SS, Meister A, Blattner FR. 2004. The considerable genome size variation of Hordeum species (Poaceae) is linked to phylogeny, life form, ecology, and speciation rates. Mol Biol Evol. 21:860-869. (Pubitemid 38529728)
    • (2004) Molecular Biology and Evolution , vol.21 , Issue.5 , pp. 860-869
    • Jakob, S.S.1    Meister, A.2    Blattner, F.R.3
  • 22
    • 4944239027 scopus 로고    scopus 로고
    • Pack-MULE transposable elements mediate gene evolution in plants
    • DOI 10.1038/nature02953
    • Jiang N, Bao ZR, Zhang XY, Eddy SR, Wessler SR. 2004. Pack-MULE transposable elements mediate gene evolution in plants. Nature 431:569-573. (Pubitemid 39336337)
    • (2004) Nature , vol.431 , Issue.7008 , pp. 569-573
    • Jiang, N.1    Bao, Z.2    Zhang, X.3    Eddy, S.R.4    Wessler, S.R.5
  • 23
    • 24344459435 scopus 로고    scopus 로고
    • The evolutionary fate of MULE-mediated duplications of host gene fragments in rice
    • DOI 10.1101/gr.4064205
    • Juretic N, Hoen DR, Huynh ML, Harrison PM, Bureau TE. 2005. The evolutionary fate of MULE-mediated duplications of host gene fragments in rice. Genome Res. 15:1292-1297. (Pubitemid 41247920)
    • (2005) Genome Research , vol.15 , Issue.9 , pp. 1292-1297
    • Juretic, N.1    Hoen, D.R.2    Huynh, M.L.3    Harrison, P.M.4    Bureau, T.E.5
  • 24
    • 0035902449 scopus 로고    scopus 로고
    • Rolling-circle transposons in eukar-yotes
    • Kapitonov VV, Jurka J. 2001. Rolling-circle transposons in eukar-yotes. Proc Natl Acad Sci USA. 98:8714-8719.
    • (2001) Proc Natl Acad Sci USA , vol.98 , pp. 8714-8719
    • Kapitonov, V.V.1    Jurka, J.2
  • 25
    • 0001018539 scopus 로고
    • Discovery of the DD-analyser, one of the ancestors of Triticum vulgare (Japanese)
    • Kihara H. 1944. Discovery of the DD-analyser, one of the ancestors of Triticum vulgare (Japanese). Agric Hort (Tokyo). 19:13-14.
    • (1944) Agric Hort (Tokyo) , vol.19 , pp. 13-14
    • Kihara, H.1
  • 27
    • 0012306021 scopus 로고    scopus 로고
    • Apollo: A sequence annotation editor
    • 19 co-authors
    • Lewis SE, Searle S, Harris N, et al. (19 co-authors). 2002. Apollo: a sequence annotation editor. Genome Biol. 3:research0082.1-research0082.14.
    • (2002) Genome Biol , vol.3 , pp. 00821-008214
    • Lewis, S.E.1    Searle, S.2    Harris, N.3
  • 28
    • 8444242268 scopus 로고    scopus 로고
    • Sequence composition, organization, and evolution of the core Triticeae genome
    • DOI 10.1111/j.1365-313X.2004.02228.x
    • Li W, Zhang P, Fellers JP, Friebe B, Gill BS. 2004. Sequence composition, organization and evolution of the core Triticeae genomes. Plant J. 40:500-511. (Pubitemid 39484170)
    • (2004) Plant Journal , vol.40 , Issue.4 , pp. 500-511
    • Li, W.1    Zhang, P.2    Fellers, J.P.3    Friebe, B.4    Gill, B.S.5
  • 29
    • 70349471296 scopus 로고    scopus 로고
    • Genome comparisons reveal a dominant mechanism of chromosome number reduction in grasses and accelerated genome evolution in Triticeae
    • 32 co-authors
    • Luo MC, Deal KR, Akhunov ED, et al. (32 co-authors). 2009. Genome comparisons reveal a dominant mechanism of chromosome number reduction in grasses and accelerated genome evolution in Triticeae. Proc Natl Acad Sci USA. 106:15780-15785.
    • (2009) Proc Natl Acad Sci USA , vol.106 , pp. 15780-15785
    • Luo, M.C.1    Deal, K.R.2    Akhunov, E.D.3
  • 30
    • 12444325815 scopus 로고    scopus 로고
    • High-throughput fingerprinting of bacterial artificial chromosomes using the SNaPshot labeling kit and sizing of restriction fragments by capillary electrophoresis
    • DOI 10.1016/S0888-7543(03)00128-9
    • Luo MC, Thomas C, You FM, et al. (10 co-authors). 2003. High-throughput fingerprinting of bacterial artificial chromosomes using the SNaPshot labeling kit and sizing of restriction fragments by capillary electrophoresis. Genomics 82:378-389. (Pubitemid 36952308)
    • (2003) Genomics , vol.82 , Issue.3 , pp. 378-389
    • Luo, M.-C.1    Thomas, C.2    You, F.M.3    Hsiao, J.4    Ouyang, S.5    Buell, C.R.6    Malandro, M.7    McGuire, P.E.8    Anderson, O.D.9    Dvorak, J.10
  • 31
    • 2342466982 scopus 로고    scopus 로고
    • Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice
    • DOI 10.1101/gr.1466204
    • Ma J, Devos KM, Bennetzen JL. 2004. Analyses of LTR-retrotrans-poson structures reveal recent and rapid genomic DNA loss in rice. Genome Res. 14:860-869. (Pubitemid 38660503)
    • (2004) Genome Research , vol.14 , Issue.5 , pp. 860-869
    • Ma, J.1    Devos, K.M.2    Bennetzen, J.L.3
  • 33
    • 0347191042 scopus 로고
    • The origin of Triticum spelta and its free-threshing hexaploid relatives
    • McFadden ES, Sears ER. 1946. The origin of Triticum spelta and its free-threshing hexaploid relatives. J Hered. 37:81-89.
    • (1946) J Hered , vol.37 , pp. 81-89
    • McFadden, E.S.1    Sears, E.R.2
  • 34
    • 33645938294 scopus 로고    scopus 로고
    • Plant genome organisation and diversity: The year of the junk!
    • Morgante M. 2006. Plant genome organisation and diversity: the year of the junk! Curr Opin Biotechnol. 17:168-173.
    • (2006) Curr Opin Biotechnol , vol.17 , pp. 168-173
    • Morgante, M.1
  • 35
    • 25144488228 scopus 로고    scopus 로고
    • Gene duplication and exon shuffling by helitron-like transposons generate intraspecies diversity in maize
    • DOI 10.1038/ng1615, PII NG1615
    • Morgante M, Brunner S, Pea G, Fengler K, Zuccolo A, Rafalski A. 2005. Gene duplication and exon shuffling by helitron-like transposons generate intraspecies diversity in maize. Nat Genet. 37:997-1002. (Pubitemid 43086159)
    • (2005) Nature Genetics , vol.37 , Issue.9 , pp. 997-1002
    • Morgante, M.1    Brunner, S.2    Pea, G.3    Fengler, K.4    Zuccolo, A.5    Rafalski, A.6
  • 37
    • 58449137410 scopus 로고    scopus 로고
    • The Sorghum bicolor genome and the diversification of grasses
    • 45 co-authors
    • Paterson AH, Bowers JE, Bruggmann R, et al. (45 co-authors). 2009. The Sorghum bicolor genome and the diversification of grasses. Nature 457:551-556.
    • (2009) Nature , vol.457 , pp. 551-556
    • Paterson, A.H.1    Bowers, J.E.2    Bruggmann, R.3
  • 38
    • 0032413101 scopus 로고    scopus 로고
    • Evidence that a recent increase in maize genome size was caused by the massive amplification of intergene retrotransposons
    • DOI 10.1006/anbo.1998.0746
    • SanMiguel P, Bennetzen JL. 1998. Evidence that a recent increase in maize genome size was caused by the massive amplification of intergene retrotransposons. Ann Bot. 82:37-44. (Pubitemid 29014739)
    • (1998) Annals of Botany , vol.82 , Issue.SUPPL. A , pp. 37-44
    • Sanmiguel, P.1    Bennetzen, J.L.2
  • 40
    • 70450202132 scopus 로고    scopus 로고
    • The B73 maize genome: Complexity, diversity and dynamics
    • 157 co-authors
    • Schnable PS, Ware D, Fulton RS, et al. (157 co-authors). 2009. The B73 maize genome: complexity, diversity and dynamics. Science 326:1112-1115.
    • (2009) Science , vol.326 , pp. 1112-1115
    • Schnable, P.S.1    Ware, D.2    Fulton, R.S.3
  • 42
    • 68849088292 scopus 로고    scopus 로고
    • Identification and characterization of pseudogenes in the rice gene complement
    • Thibaud-Nissen F, Ouyang S, Buell CR. 2009. Identification and characterization of pseudogenes in the rice gene complement. BMC Genomics. 10:317-329.
    • (2009) BMC Genomics , vol.10 , pp. 317-329
    • Thibaud-Nissen, F.1    Ouyang, S.2    Buell, C.R.3
  • 43
    • 76749150030 scopus 로고    scopus 로고
    • Genome sequencing and analysis of the model grass Brachypo-dium distachyon
    • 135 co-authors
    • Vogel JP, Garvin DF, Mockler TC, et al. (135 co-authors). 2010. Genome sequencing and analysis of the model grass Brachypo-dium distachyon. Nature 463:763-768.
    • (2010) Nature , vol.463 , pp. 763-768
    • Vogel, J.P.1    Garvin, D.F.2    Mockler, T.C.3
  • 44
    • 0033004344 scopus 로고    scopus 로고
    • Nuclear DNA content of perennial grasses of the Triticeae
    • Vogel KP, Arumuganathan R, Jensen KB. 1999. Nuclear DNA content of perennial grasses of the Triticeae. Crop Sci. 39:661-667. (Pubitemid 29291860)
    • (1999) Crop Science , vol.39 , Issue.3 , pp. 661-667
    • Vogel, K.P.1    Arumuganathan, K.2    Jensen, K.B.3
  • 45
    • 77956284088 scopus 로고    scopus 로고
    • Patching gaps in plant genomes results in gene movement and erosion of colinearity
    • Wicker T, Buchmann JP, Keller B. 2010. Patching gaps in plant genomes results in gene movement and erosion of colinearity. Genome Res. 20:1229-1237.
    • (2010) Genome Res , vol.20 , pp. 1229-1237
    • Wicker, T.1    Buchmann, J.P.2    Keller, B.3
  • 46
    • 0034944487 scopus 로고    scopus 로고
    • Analysis of a contiguous 211 kb sequence in diploid wheat (Triticum monococcum L.) reveals multiple mechanisms of genome evolution
    • DOI 10.1046/j.1365-313X.2001.01028.x
    • Wicker T, Stein N, Albar L, Feuillet C, Schlagenhauf E, Keller B. 2001. Analysis of a contiguous 211 kb sequence in diploid wheat (Triticum monococcum L.) reveals multiple mechanisms of genome evolution. Plant J. 26:307-316. (Pubitemid 32626214)
    • (2001) Plant Journal , vol.26 , Issue.3 , pp. 307-316
    • Wicker, T.1    Stein, N.2    Albar, L.3    Feuillet, C.4    Schlagenhauf, E.5    Keller, B.6


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