메뉴 건너뛰기




Volumn 15, Issue 9, 2010, Pages 479-487

Palaeogenomics of plants: Synteny-based modelling of extinct ancestors

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL; CLASSIFICATION; EVOLUTION; GENETICS; GENOMICS; HUMAN; PHYLOGENY; PLANT; PLANT GENOME; POLYPLOIDY; SHORT SURVEY;

EID: 77956459883     PISSN: 13601385     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tplants.2010.06.001     Document Type: Short Survey
Times cited : (100)

References (51)
  • 1
    • 33644857314 scopus 로고    scopus 로고
    • Cretaceous angiosperm flowers: innovation and evolution in plant reproduction
    • Friis E.M., et al. Cretaceous angiosperm flowers: innovation and evolution in plant reproduction. Palaeogeogr. Palaeocl. Palaeoecol. 2006, 232:251-293.
    • (2006) Palaeogeogr. Palaeocl. Palaeoecol. , vol.232 , pp. 251-293
    • Friis, E.M.1
  • 2
    • 58449137410 scopus 로고    scopus 로고
    • The Sorghum bicolor genome and the diversification of grasses
    • Paterson A.H., et al. The Sorghum bicolor genome and the diversification of grasses. Nature 2009, 457:551-556.
    • (2009) Nature , vol.457 , pp. 551-556
    • Paterson, A.H.1
  • 3
    • 37549054628 scopus 로고    scopus 로고
    • Using plastid genome-scale data to resolve enigmatic relationships among basal angiosperms
    • Moore M.J., et al. Using plastid genome-scale data to resolve enigmatic relationships among basal angiosperms. Proc. Natl. Acad. Sci. U. S. A. 2007, 104:19363-19368.
    • (2007) Proc. Natl. Acad. Sci. U. S. A. , vol.104 , pp. 19363-19368
    • Moore, M.J.1
  • 4
    • 70450202132 scopus 로고    scopus 로고
    • The B73 maize genome: complexity, diversity, and dynamics
    • Schnable P.S., et al. The B73 maize genome: complexity, diversity, and dynamics. Science 2009, 326:1112-1115.
    • (2009) Science , vol.326 , pp. 1112-1115
    • Schnable, P.S.1
  • 5
    • 84907150192 scopus 로고    scopus 로고
    • International Rice Genome Sequencing Project (2005) The map-based sequence of the rice genome. Nature
    • International Rice Genome Sequencing Project (2005) The map-based sequence of the rice genome. Nature 436, 793-800.
    • , vol.436 , pp. 793-800
  • 6
    • 76749150030 scopus 로고    scopus 로고
    • International Brachypodium Initiative, Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature
    • International Brachypodium Initiative (2010) Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature 463:763-768.
    • (2010) , vol.463 , pp. 763-768
  • 7
    • 34848886909 scopus 로고    scopus 로고
    • The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
    • Jaillon O., et al. The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature 2007, 449:463-467.
    • (2007) Nature , vol.449 , pp. 463-467
    • Jaillon, O.1
  • 8
    • 33748760611 scopus 로고    scopus 로고
    • The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
    • Tuskan G.A., et al. The genome of black cottonwood, Populus trichocarpa (Torr. & Gray). Science 2006, 313:1596-1604.
    • (2006) Science , vol.313 , pp. 1596-1604
    • Tuskan, G.A.1
  • 9
    • 42949157236 scopus 로고    scopus 로고
    • The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)
    • Ming R., et al. The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus). Nature 2008, 452:991-996.
    • (2008) Nature , vol.452 , pp. 991-996
    • Ming, R.1
  • 10
    • 0034649566 scopus 로고    scopus 로고
    • Arabidopsis Genome Initiative, Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature
    • Arabidopsis Genome Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408, 796-815.
    • (2000) , vol.408 , pp. 796-815
  • 11
    • 74549221016 scopus 로고    scopus 로고
    • Genome sequence of the palaeopolyploid soybean
    • Schmutz J., et al. Genome sequence of the palaeopolyploid soybean. Nature 2010, 463:178-183.
    • (2010) Nature , vol.463 , pp. 178-183
    • Schmutz, J.1
  • 12
    • 8544273197 scopus 로고    scopus 로고
    • A chromosome bin map of 16,000 expressed sequence tag loci and distribution of genes among the three genomes of polyploid wheat
    • Qi L.L., et al. A chromosome bin map of 16,000 expressed sequence tag loci and distribution of genes among the three genomes of polyploid wheat. Genetics 2004, 168:701-712.
    • (2004) Genetics , vol.168 , pp. 701-712
    • Qi, L.L.1
  • 13
    • 33847353451 scopus 로고    scopus 로고
    • A 1,000-loci transcript map of the barley genome: new anchoring points for integrative grass genomics
    • Stein N., et al. A 1,000-loci transcript map of the barley genome: new anchoring points for integrative grass genomics. Theor. Appl. Genet. 2007, 114:823-839.
    • (2007) Theor. Appl. Genet. , vol.114 , pp. 823-839
    • Stein, N.1
  • 14
    • 71049119909 scopus 로고    scopus 로고
    • Complexity of genome evolution by segmental rearrangement in Brassica rapa revealed by sequence-level analysis
    • Trick M., et al. Complexity of genome evolution by segmental rearrangement in Brassica rapa revealed by sequence-level analysis. BMC Genomics 2009, 10:539.
    • (2009) BMC Genomics , vol.10 , pp. 539
    • Trick, M.1
  • 15
    • 37449006074 scopus 로고    scopus 로고
    • Comparative genomics of cereals
    • Springer Verlag, R.K. Varshney, R. Tuberosa (Eds.)
    • Salse J., Feuillet C. Comparative genomics of cereals. Genomics-Assisted Crop Improvement 2007, 177-205. Springer Verlag. R.K. Varshney, R. Tuberosa (Eds.).
    • (2007) Genomics-Assisted Crop Improvement , pp. 177-205
    • Salse, J.1    Feuillet, C.2
  • 16
    • 62649099646 scopus 로고    scopus 로고
    • The 'inner circle' of the cereal genomes
    • Bolot S., et al. The 'inner circle' of the cereal genomes. Curr. Opin. Plant Biol. 2009, 12:119-125.
    • (2009) Curr. Opin. Plant Biol. , vol.12 , pp. 119-125
    • Bolot, S.1
  • 17
    • 70450189075 scopus 로고    scopus 로고
    • Improved standards and new comparative genomics tools provide new insights into grasses paleogenomics
    • Salse J., et al. Improved standards and new comparative genomics tools provide new insights into grasses paleogenomics. Brief. Bioinform. 2009, 10:619-630.
    • (2009) Brief. Bioinform. , vol.10 , pp. 619-630
    • Salse, J.1
  • 18
    • 43549097168 scopus 로고    scopus 로고
    • Identification and characterization of conserved duplications between rice and wheat provide new insight into grass genome evolution
    • Salse J., et al. Identification and characterization of conserved duplications between rice and wheat provide new insight into grass genome evolution. Plant Cell 2008, 20:11-24.
    • (2008) Plant Cell , vol.20 , pp. 11-24
    • Salse, J.1
  • 19
    • 70349298447 scopus 로고    scopus 로고
    • Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals
    • Salse J., et al. Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals. Proc. Natl. Acad. Sci. U. S. A. 2009, 106:14908-14913.
    • (2009) Proc. Natl. Acad. Sci. U. S. A. , vol.106 , pp. 14908-14913
    • Salse, J.1
  • 20
    • 27544478621 scopus 로고    scopus 로고
    • Rice Chromosomes 11 and 12 Sequencing Consortia (2005) The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications. BMC Biol.
    • Rice Chromosomes 11 and 12 Sequencing Consortia (2005) The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications. BMC Biol. 27, 3:20.
    • , vol.27
  • 21
    • 5144234363 scopus 로고    scopus 로고
    • Close split of sorghum and maize genome progenitors
    • Swigonová Z., et al. Close split of sorghum and maize genome progenitors. Genome Res. 2004, 14:1916-1923.
    • (2004) Genome Res. , vol.14 , pp. 1916-1923
    • Swigonová, Z.1
  • 22
    • 34547634071 scopus 로고    scopus 로고
    • Physical and genetic structure of the maize genome reflects its complex evolutionary history
    • Wei F., et al. Physical and genetic structure of the maize genome reflects its complex evolutionary history. PLoS Genet. 2007, 3:e123.
    • (2007) PLoS Genet. , vol.3
    • Wei, F.1
  • 23
    • 41249098849 scopus 로고    scopus 로고
    • A high quality draft consensus sequence of the genome of a heterozygous grapevine variety
    • Velasco R., et al. A high quality draft consensus sequence of the genome of a heterozygous grapevine variety. PLoS One 2007, 2:e1326.
    • (2007) PLoS One , vol.2
    • Velasco, R.1
  • 24
    • 70349471296 scopus 로고    scopus 로고
    • Genome comparisons reveal a dominant mechanism of chromosome number reduction in grasses and accelerated genome evolution in Triticeae
    • Luo M.C., et al. Genome comparisons reveal a dominant mechanism of chromosome number reduction in grasses and accelerated genome evolution in Triticeae. Proc. Natl. Acad. Sci. U. S. A. 2009, 106:15780-15785.
    • (2009) Proc. Natl. Acad. Sci. U. S. A. , vol.106 , pp. 15780-15785
    • Luo, M.C.1
  • 25
    • 57749100022 scopus 로고    scopus 로고
    • Evolutionary genetics of genome merger and doubling in plants
    • Doyle J.J., et al. Evolutionary genetics of genome merger and doubling in plants. Annu. Rev. Genet. 2008, 42:443-461.
    • (2008) Annu. Rev. Genet. , vol.42 , pp. 443-461
    • Doyle, J.J.1
  • 26
    • 77952476959 scopus 로고    scopus 로고
    • Insights from the comparison of plant genome sequences
    • Paterson A.H., et al. Insights from the comparison of plant genome sequences. Annu. Rev. Plant. Biol. 2010, 61:349-372.
    • (2010) Annu. Rev. Plant. Biol. , vol.61 , pp. 349-372
    • Paterson, A.H.1
  • 27
    • 67651202628 scopus 로고    scopus 로고
    • Change of gene structure and function by non-homologous end-joining, homologous recombination, and transposition of DNA
    • Goettel W., Messing J. Change of gene structure and function by non-homologous end-joining, homologous recombination, and transposition of DNA. PLoS Genet. 2009, 5:e1000516.
    • (2009) PLoS Genet. , vol.5
    • Goettel, W.1    Messing, J.2
  • 28
    • 58449090877 scopus 로고    scopus 로고
    • Diverged copies of the seed regulatory Opaque-2 gene by a segmental duplication in the progenitor genome of rice, sorghum, and maize
    • Xu J.H., Messing J. Diverged copies of the seed regulatory Opaque-2 gene by a segmental duplication in the progenitor genome of rice, sorghum, and maize. Mol. Plant 2008, 1:760-769.
    • (2008) Mol. Plant , vol.1 , pp. 760-769
    • Xu, J.H.1    Messing, J.2
  • 29
    • 35348820582 scopus 로고    scopus 로고
    • Divergence in expression between duplicated genes in Arabidopsis
    • Ganko E.W., et al. Divergence in expression between duplicated genes in Arabidopsis. Mol. Biol. Evol. 2007, 24:2298-2309.
    • (2007) Mol. Biol. Evol. , vol.24 , pp. 2298-2309
    • Ganko, E.W.1
  • 30
    • 3142732892 scopus 로고    scopus 로고
    • Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution
    • Blanc G., Wolfe K.H. Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution. Plant Cell 2004, 16:1679-1691.
    • (2004) Plant Cell , vol.16 , pp. 1679-1691
    • Blanc, G.1    Wolfe, K.H.2
  • 31
    • 62549118744 scopus 로고    scopus 로고
    • Structure and expression analysis of rice paleo duplications
    • Throude M., et al. Structure and expression analysis of rice paleo duplications. Nucleic Acids Res. 2009, 37:1248-1259.
    • (2009) Nucleic Acids Res. , vol.37 , pp. 1248-1259
    • Throude, M.1
  • 32
    • 5144226813 scopus 로고    scopus 로고
    • Sequence composition and genome organization of maize
    • Messing J., et al. Sequence composition and genome organization of maize. Proc. Natl. Acad. Sci. U. S. A. 2004, 101:14349-14354.
    • (2004) Proc. Natl. Acad. Sci. U. S. A. , vol.101 , pp. 14349-14354
    • Messing, J.1
  • 33
    • 33847275983 scopus 로고    scopus 로고
    • Maize haplotype with a helitron-amplified cytidine deaminase gene copy
    • Xu J.H., Messing J. Maize haplotype with a helitron-amplified cytidine deaminase gene copy. BMC Genet. 2006, 7:52.
    • (2006) BMC Genet. , vol.7 , pp. 52
    • Xu, J.H.1    Messing, J.2
  • 34
    • 16544393690 scopus 로고    scopus 로고
    • Transcriptional similarities, dissimilarities, and conservation of cis-elements in duplicated genes of Arabidopsis
    • Haberer G., et al. Transcriptional similarities, dissimilarities, and conservation of cis-elements in duplicated genes of Arabidopsis. Plant Physiol. 2004, 136:3009-3022.
    • (2004) Plant Physiol. , vol.136 , pp. 3009-3022
    • Haberer, G.1
  • 35
    • 14244250895 scopus 로고    scopus 로고
    • Duplication and DNA segmental loss in the rice genome: implications for diploidization
    • Wang X., et al. Duplication and DNA segmental loss in the rice genome: implications for diploidization. New Phytol. 2005, 165:937-946.
    • (2005) New Phytol. , vol.165 , pp. 937-946
    • Wang, X.1
  • 36
    • 57149102681 scopus 로고    scopus 로고
    • Unraveling ancient hexaploidy through multiply aligned angiosperm gene maps
    • Tang H., et al. Unraveling ancient hexaploidy through multiply aligned angiosperm gene maps. Genome Res. 2008, 18:1944-1954.
    • (2008) Genome Res. , vol.18 , pp. 1944-1954
    • Tang, H.1
  • 37
    • 4444363053 scopus 로고    scopus 로고
    • Genome duplication led to highly selective expansion of the Arabidopsis thaliana proteome
    • Seoighe C., Gehring C. Genome duplication led to highly selective expansion of the Arabidopsis thaliana proteome. Trends Genet. 2004, 20:461-464.
    • (2004) Trends Genet. , vol.20 , pp. 461-464
    • Seoighe, C.1    Gehring, C.2
  • 38
    • 33745067419 scopus 로고    scopus 로고
    • The gain and loss of genes during 600 million years of vertebrate evolution
    • Blomme T., et al. The gain and loss of genes during 600 million years of vertebrate evolution. Genome Biol. 2006, 7:R43.
    • (2006) Genome Biol. , vol.7
    • Blomme, T.1
  • 39
    • 24644486450 scopus 로고    scopus 로고
    • Do disparate mechanisms of duplication add similar genes to the genome. Trends Genet.
    • Davis, J.C. and Petrov, D.A. (2005) Do disparate mechanisms of duplication add similar genes to the genome. Trends Genet. 21, 548-551.
    • (2005) , vol.21 , pp. 548-551
    • Davis, J.C.1    Petrov, D.A.2
  • 40
    • 34248328910 scopus 로고    scopus 로고
    • Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids
    • Chen Z.J. Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids. Annu. Rev. Plant Biol. 2007, 58:377-406.
    • (2007) Annu. Rev. Plant Biol. , vol.58 , pp. 377-406
    • Chen, Z.J.1
  • 41
    • 0037047628 scopus 로고    scopus 로고
    • Recent segmental duplications in the human genome
    • Bailey J.A., et al. Recent segmental duplications in the human genome. Science 2002, 297:1003-1007.
    • (2002) Science , vol.297 , pp. 1003-1007
    • Bailey, J.A.1
  • 42
    • 0034634395 scopus 로고    scopus 로고
    • The evolutionary fate and consequences of duplicate genes
    • Lynch M., Conery J.S. The evolutionary fate and consequences of duplicate genes. Science 2000, 290:1151-1155.
    • (2000) Science , vol.290 , pp. 1151-1155
    • Lynch, M.1    Conery, J.S.2
  • 43
    • 0037500141 scopus 로고    scopus 로고
    • Evolution by gene duplication: an update
    • Zhang J. Evolution by gene duplication: an update. Trends Ecol. Evol. 2003, 18:292-298.
    • (2003) Trends Ecol. Evol. , vol.18 , pp. 292-298
    • Zhang, J.1
  • 44
    • 65249143921 scopus 로고    scopus 로고
    • Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event
    • Fawcett J.A., et al. Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event. Proc. Natl. Acad. Sci. U. S. A. 2009, 106:5737-5742.
    • (2009) Proc. Natl. Acad. Sci. U. S. A. , vol.106 , pp. 5737-5742
    • Fawcett, J.A.1
  • 45
    • 70549110074 scopus 로고    scopus 로고
    • The flowering world: a tale of duplications
    • Van de Peer Y., et al. The flowering world: a tale of duplications. Trends Plant Sci. 2009, 14:680-688.
    • (2009) Trends Plant Sci. , vol.14 , pp. 680-688
    • Van de Peer, Y.1
  • 46
    • 20144366981 scopus 로고    scopus 로고
    • Genome duplication, extinction and vertebrate evolution
    • Donoghue P.C.J., et al. Genome duplication, extinction and vertebrate evolution. Trends Ecol. Evol. 2005, 20:312-319.
    • (2005) Trends Ecol. Evol. , vol.20 , pp. 312-319
    • Donoghue, P.C.J.1
  • 47
    • 0042178293 scopus 로고    scopus 로고
    • Major ecological transitions in wild sunflowers facilitated by hybridization
    • Rieseberg L.H., et al. Major ecological transitions in wild sunflowers facilitated by hybridization. Science 2003, 301:1211-1216.
    • (2003) Science , vol.301 , pp. 1211-1216
    • Rieseberg, L.H.1
  • 48
    • 70349325524 scopus 로고    scopus 로고
    • The evolutionary significance of ancient genome duplications
    • Van de Peer Y., et al. The evolutionary significance of ancient genome duplications. Nat. Rev. Genet. 2009, 10:725-732.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 725-732
    • Van de Peer, Y.1
  • 49
    • 35548966719 scopus 로고    scopus 로고
    • Polyploidy: doubling up for evolutionary success
    • Hegarty M., Hiscock S. Polyploidy: doubling up for evolutionary success. Curr. Biol. 2007, 17:R927-R929.
    • (2007) Curr. Biol. , vol.17
    • Hegarty, M.1    Hiscock, S.2
  • 50
    • 2942653309 scopus 로고    scopus 로고
    • Understanding apomixis: recent advances and remaining conundrums
    • Bicknell R.A., Koltunow A.M. Understanding apomixis: recent advances and remaining conundrums. Plant Cell 2007, 16(Suppl):S228-S245.
    • (2007) Plant Cell , vol.16 , Issue.SUPPL
    • Bicknell, R.A.1    Koltunow, A.M.2
  • 51
    • 70350037699 scopus 로고    scopus 로고
    • Genomics in cereals: From genome-wide conserved orthologous set (COS) sequences to candidate genes for trait dissection
    • Masood Quraishi M., et al. Genomics in cereals: From genome-wide conserved orthologous set (COS) sequences to candidate genes for trait dissection. Funct. Integr. Genomics 2009, 9:473-484.
    • (2009) Funct. Integr. Genomics , vol.9 , pp. 473-484
    • Masood Quraishi, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.