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Volumn 60, Issue 1, 2009, Pages 181-193

Genome organization of the tomato sun locus and characterization of the unusual retrotransposon Rider

Author keywords

Evolution; Genome structure; Rider; Tomato; Transposons

Indexed keywords

PLANT DNA;

EID: 70349515979     PISSN: 09607412     EISSN: 1365313X     Source Type: Journal    
DOI: 10.1111/j.1365-313X.2009.03946.x     Document Type: Article
Times cited : (61)

References (44)
  • 1
    • 0030246842 scopus 로고    scopus 로고
    • The contributions of retroelements to plant genome organization, function and evolution
    • Bennetzen, J.L. (1996) The contributions of retroelements to plant genome organization, function and evolution. Trends Microbiol. 4, 347 353.
    • (1996) Trends Microbiol. , vol.4 , pp. 347-353
    • Bennetzen, J.L.1
  • 2
    • 0000364979 scopus 로고
    • Toward a saturated linkage map in tomato based on isozymes and random cDNA sequences
    • Bernatzky, R. Tanksley, S.D. (1986) Toward a saturated linkage map in tomato based on isozymes and random cDNA sequences. Genetics, 112, 887 898.
    • (1986) Genetics , vol.112 , pp. 887-898
    • Bernatzky, R.1    Tanksley, S.D.2
  • 3
    • 0028301318 scopus 로고
    • Transduction of a cellular gene by a plant retroelement
    • Bureau, T.E., White, S.E. Wessler, S.R. (1994) Transduction of a cellular gene by a plant retroelement. Cell, 77, 479 480.
    • (1994) Cell , vol.77 , pp. 479-480
    • Bureau, T.E.1    White, S.E.2    Wessler, S.R.3
  • 5
    • 67650321229 scopus 로고    scopus 로고
    • A new family of Ty1-copia-like retrotransposon originated in the tomato genomes by a recent horizontal transfer event
    • Cheng, X., Zhang, D., Cheng, Z., Keller, B. Ling, H.-Q. (2009) A new family of Ty1-copia-like retrotransposon originated in the tomato genomes by a recent horizontal transfer event. Genetics, 181, 1183 1193.
    • (2009) Genetics , vol.181 , pp. 1183-1193
    • Cheng, X.1    Zhang, D.2    Cheng, Z.3    Keller, B.4    Ling, H.-Q.5
  • 6
    • 42649104077 scopus 로고    scopus 로고
    • Comparative BAC end sequence analysis of tomato and potato reveals overrepresentation of specific gene families in potato
    • Datema, E., Mueller, L.A., Buels, R., Giovannoni, J.J., Visser, R.G., Stiekema, W.J. van Ham, R.C. (2008) Comparative BAC end sequence analysis of tomato and potato reveals overrepresentation of specific gene families in potato. BMC Plant Biol. 8, 34.
    • (2008) BMC Plant Biol. , vol.8 , pp. 34
    • Datema, E.1    Mueller, L.A.2    Buels, R.3    Giovannoni, J.J.4    Visser, R.G.5    Stiekema, W.J.6    Van Ham, R.C.7
  • 7
    • 0030893329 scopus 로고    scopus 로고
    • The evolution of apical dominance in maize
    • Doebley, J., Stec, A. Hubbard, L. (1997) The evolution of apical dominance in maize. Nature, 386, 485 488.
    • (1997) Nature , vol.386 , pp. 485-488
    • Doebley, J.1    Stec, A.2    Hubbard, L.3
  • 8
    • 0036250001 scopus 로고    scopus 로고
    • Plant transposable elements: Where genetics meets genomics
    • Feschotte, C., Jiang, N. Wessler, S.R. (2002) Plant transposable elements: where genetics meets genomics. Nat. Rev. Genet. 3, 329 341.
    • (2002) Nat. Rev. Genet. , vol.3 , pp. 329-341
    • Feschotte, C.1    Jiang, N.2    Wessler, S.R.3
  • 10
    • 0027638752 scopus 로고
    • Identification and genetic analysis of normal and mutant phytoene synthase genes of tomato by sequencing, complementation and co-suppression
    • Fray, R.G. Grierson, D. (1993) Identification and genetic analysis of normal and mutant phytoene synthase genes of tomato by sequencing, complementation and co-suppression. Plant Mol. Biol. 22, 589 602.
    • (1993) Plant Mol. Biol. , vol.22 , pp. 589-602
    • Fray, R.G.1    Grierson, D.2
  • 11
    • 4544345787 scopus 로고    scopus 로고
    • Zooming in on a quantitative trait for tomato yield using interspecific introgressions
    • Fridman, E., Carrari, F., Liu, Y.S., Fernie, A.R. Zamir, D. (2004) Zooming in on a quantitative trait for tomato yield using interspecific introgressions. Science, 305, 1786 1789.
    • (2004) Science , vol.305 , pp. 1786-1789
    • Fridman, E.1    Carrari, F.2    Liu, Y.S.3    Fernie, A.R.4    Zamir, D.5
  • 12
    • 0037047037 scopus 로고    scopus 로고
    • Intraspecific violation of genetic colinearity and its implications in maize
    • Fu, H. Dooner, H.K. (2002) Intraspecific violation of genetic colinearity and its implications in maize. Proc. Natl Acad. Sci. USA, 99, 9573 9578.
    • (2002) Proc. Natl Acad. Sci. USA , vol.99 , pp. 9573-9578
    • Fu, H.1    Dooner, H.K.2
  • 13
    • 51249166384 scopus 로고
    • Microprep protocol for extraction of DNA from tomato and other herbaceous plants
    • Fulton, T.M., Chunwongse, J. Tanksley, S.D. (1995) Microprep protocol for extraction of DNA from tomato and other herbaceous plants. Plant Mol. Biol. Rep. 13, 207 209.
    • (1995) Plant Mol. Biol. Rep. , vol.13 , pp. 207-209
    • Fulton, T.M.1    Chunwongse, J.2    Tanksley, S.D.3
  • 14
    • 0024978849 scopus 로고
    • Tnt1, a mobile retroviral-like transposable element of tobacco isolated by plant cell genetics
    • Grandbastien, M.A., Spielmann, A. Caboche, M. (1989) Tnt1, a mobile retroviral-like transposable element of tobacco isolated by plant cell genetics. Nature, 337, 376 380.
    • (1989) Nature , vol.337 , pp. 376-380
    • Grandbastien, M.A.1    Spielmann, A.2    Caboche, M.3
  • 16
    • 55549123888 scopus 로고    scopus 로고
    • Genome-wide analysis of transposon insertion polymorphisms reveals intraspecific variation in cultivated rice
    • Huang, X., Lu, G., Zhao, Q., Liu, X. Han, B. (2008) Genome-wide analysis of transposon insertion polymorphisms reveals intraspecific variation in cultivated rice. Plant Physiol. 148, 25 40.
    • (2008) Plant Physiol. , vol.148 , pp. 25-40
    • Huang, X.1    Lu, G.2    Zhao, Q.3    Liu, X.4    Han, B.5
  • 17
    • 4944239027 scopus 로고    scopus 로고
    • Pack-MULE transposable elements mediate gene evolution in plants
    • Jiang, N., Bao, Z., Zhang, X., Eddy, S.R. Wessler, S.R. (2004) Pack-MULE transposable elements mediate gene evolution in plants. Nature, 431, 569 573.
    • (2004) Nature , vol.431 , pp. 569-573
    • Jiang, N.1    Bao, Z.2    Zhang, X.3    Eddy, S.R.4    Wessler, S.R.5
  • 18
    • 0028485954 scopus 로고
    • Integration and nonrandom mutation of a plasma membrane proton ATPase gene fragment within the Bs1 retroelement of maize
    • Jin, Y.K. Bennetzen, J.L. (1994) Integration and nonrandom mutation of a plasma membrane proton ATPase gene fragment within the Bs1 retroelement of maize. Plant Cell, 6, 1177 1186.
    • (1994) Plant Cell , vol.6 , pp. 1177-1186
    • Jin, Y.K.1    Bennetzen, J.L.2
  • 19
    • 24344459435 scopus 로고    scopus 로고
    • The evolutionary fate of MULE-mediated duplications of host gene fragments in rice
    • Juretic, N., Hoen, D.R., Huynh, M.L., Harrison, P.M. Bureau, T.E. (2005) The evolutionary fate of MULE-mediated duplications of host gene fragments in rice. Genome Res. 15, 1292 1297.
    • (2005) Genome Res. , vol.15 , pp. 1292-1297
    • Juretic, N.1    Hoen, D.R.2    Huynh, M.L.3    Harrison, P.M.4    Bureau, T.E.5
  • 20
    • 43049143055 scopus 로고    scopus 로고
    • Mapping and sequencing of structural variation from eight human genomes
    • Kidd, J.M., Cooper, G.M., Donahue, W.F. et al. (2008) Mapping and sequencing of structural variation from eight human genomes. Nature, 453, 56 64.
    • (2008) Nature , vol.453 , pp. 56-64
    • Kidd, J.M.1    Cooper, G.M.2    Donahue, W.F.3
  • 21
    • 40849101803 scopus 로고    scopus 로고
    • Sudbury, MA. Jones and Bartlett Publishers
    • Lewin, B. (2008) Genes IX, 9th edn. Sudbury, MA : Jones and Bartlett Publishers.
    • (2008) Genes IX, 9th Edn.
    • Lewin, B.1
  • 22
    • 0037108975 scopus 로고    scopus 로고
    • The tomato fer gene encoding a bHLH protein controls iron-uptake responses in roots
    • Ling, H.Q., Bauer, P., Bereczky, Z., Keller, B. Ganal, M. (2002) The tomato fer gene encoding a bHLH protein controls iron-uptake responses in roots. Proc. Natl Acad. Sci. USA, 99, 13938 13943.
    • (2002) Proc. Natl Acad. Sci. USA , vol.99 , pp. 13938-13943
    • Ling, H.Q.1    Bauer, P.2    Bereczky, Z.3    Keller, B.4    Ganal, M.5
  • 23
    • 0036789974 scopus 로고    scopus 로고
    • A new class of regulatory genes underlying the cause of pear-shaped tomato fruit
    • Liu, J., Van Eck, J., Cong, B. Tanksley, S.D. (2002) A new class of regulatory genes underlying the cause of pear-shaped tomato fruit. Proc. Natl Acad. Sci. USA, 99, 13302 13306.
    • (2002) Proc. Natl Acad. Sci. USA , vol.99 , pp. 13302-13306
    • Liu, J.1    Van Eck, J.2    Cong, B.3    Tanksley, S.D.4
  • 24
    • 2342466982 scopus 로고    scopus 로고
    • Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice
    • Ma, J., Devos, K.M. Bennetzen, J.L. (2004) Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice. Genome Res. 14, 860 869.
    • (2004) Genome Res. , vol.14 , pp. 860-869
    • Ma, J.1    Devos, K.M.2    Bennetzen, J.L.3
  • 25
    • 34347353237 scopus 로고    scopus 로고
    • Copy-number variation and association studies of human disease
    • McCarroll, S.A. Altshuler, D.M. (2007) Copy-number variation and association studies of human disease. Nat. Genet. 39, S37 S42.
    • (2007) Nat. Genet. , vol.39
    • McCarroll, S.A.1    Altshuler, D.M.2
  • 26
    • 0041419305 scopus 로고    scopus 로고
    • Target site specificity of the Tos17 retrotransposon shows a preference for insertion within genes and against insertion in retrotransposon-rich regions of the genome
    • Miyao, A., Tanaka, K., Murata, K., Sawaki, H., Takeda, S., Abe, K., Shinozuka, Y., Onosato, K. Hirochika, H. (2003) Target site specificity of the Tos17 retrotransposon shows a preference for insertion within genes and against insertion in retrotransposon-rich regions of the genome. Plant Cell, 15, 1771 1780.
    • (2003) Plant Cell , vol.15 , pp. 1771-1780
    • Miyao, A.1    Tanaka, K.2    Murata, K.3    Sawaki, H.4    Takeda, S.5    Abe, K.6    Shinozuka, Y.7    Onosato, K.8    Hirochika, H.9
  • 27
    • 25144488228 scopus 로고    scopus 로고
    • Gene duplication and exon shuffling by helitron-like transposons generate intraspecies diversity in maize
    • 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.
    • (2005) Nat. Genet. , vol.37 , pp. 997-1002
    • Morgante, M.1    Brunner, S.2    Pea, G.3    Fengler, K.4    Zuccolo, A.5    Rafalski, A.6
  • 28
    • 0033955649 scopus 로고    scopus 로고
    • Examining rates and patterns of nucleotide substitution in plants
    • Muse, S.V. (2000) Examining rates and patterns of nucleotide substitution in plants. Plant Mol. Biol. 42, 25 43.
    • (2000) Plant Mol. Biol. , vol.42 , pp. 25-43
    • Muse, S.V.1
  • 29
    • 0036743506 scopus 로고    scopus 로고
    • Comparative sequencing in the genus Lycopersicon: Implications for the evolution of fruit size in the domestication of cultivated tomatoes
    • Nesbitt, T.C. Tanksley, S.D. (2002) Comparative sequencing in the genus Lycopersicon: implications for the evolution of fruit size in the domestication of cultivated tomatoes. Genetics, 162, 365 379.
    • (2002) Genetics , vol.162 , pp. 365-379
    • Nesbitt, T.C.1    Tanksley, S.D.2
  • 30
    • 37549042772 scopus 로고    scopus 로고
    • Genetic and molecular regulation of fruit and plant domestication traits in tomato and pepper
    • Paran, I. van der Knaap, E. (2007) Genetic and molecular regulation of fruit and plant domestication traits in tomato and pepper. J. Exp. Bot. 58, 3841 3852.
    • (2007) J. Exp. Bot. , vol.58 , pp. 3841-3852
    • Paran, I.1    Van Der Knaap, E.2
  • 31
    • 35348936136 scopus 로고    scopus 로고
    • Domestication of plants in the Americas: Insights from Mendelian and molecular genetics
    • Pickersgill, B. (2007) Domestication of plants in the Americas: insights from Mendelian and molecular genetics. Ann. Bot. 100, 925 940.
    • (2007) Ann. Bot. , vol.100 , pp. 925-940
    • Pickersgill, B.1
  • 33
    • 17444395610 scopus 로고    scopus 로고
    • Comparative analyses of genetic diversities within tomato and pepper collections detected by retrotransposon-based SSAP, AFLP and SSR
    • Tam, S.M., Mhiri, C., Vogelaar, A., Kerkveld, M., Pearce, S.R. Grandbastien, M.A. (2005) Comparative analyses of genetic diversities within tomato and pepper collections detected by retrotransposon-based SSAP, AFLP and SSR. Theor. Appl. Genet. 110, 819 831.
    • (2005) Theor. Appl. Genet. , vol.110 , pp. 819-831
    • Tam, S.M.1    Mhiri, C.2    Vogelaar, A.3    Kerkveld, M.4    Pearce, S.R.5    Grandbastien, M.A.6
  • 34
    • 0019838078 scopus 로고
    • Structure, variation and synthesis of retrovirus long terminal repeat
    • Temin, H.M. (1981) Structure, variation and synthesis of retrovirus long terminal repeat. Cell, 27, 1 3.
    • (1981) Cell , vol.27 , pp. 1-3
    • Temin, H.M.1
  • 36
    • 11244249544 scopus 로고    scopus 로고
    • High-resolution fine mapping and fluorescence in situ hybridization analysis of sun, a locus controlling tomato fruit shape, reveals a region of the tomato genome prone to DNA rearrangements
    • Van der Knaap, E., Sanyal, A., Jackson, S.A. Tanksley, S.D. (2004) High-resolution fine mapping and fluorescence in situ hybridization analysis of sun, a locus controlling tomato fruit shape, reveals a region of the tomato genome prone to DNA rearrangements. Genetics, 168, 2127 2140.
    • (2004) Genetics , vol.168 , pp. 2127-2140
    • Van Der Knaap, E.1    Sanyal, A.2    Jackson, S.A.3    Tanksley, S.D.4
  • 37
    • 28444443384 scopus 로고    scopus 로고
    • Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments
    • Wang, Y., van der Hoeven, R.S., Nielsen, R., Mueller, L.A. Tanksley, S.D. (2005) Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet. 112, 72 84.
    • (2005) Theor. Appl. Genet. , vol.112 , pp. 72-84
    • Wang, Y.1    Van Der Hoeven, R.S.2    Nielsen, R.3    Mueller, L.A.4    Tanksley, S.D.5
  • 38
    • 33747465505 scopus 로고    scopus 로고
    • High rate of chimeric gene origination by retroposition in plant genomes
    • Wang, W., Zheng, H., Fan, C. et al. (2006a) High rate of chimeric gene origination by retroposition in plant genomes. Plant Cell, 18, 1791 1802.
    • (2006) Plant Cell , vol.18 , pp. 1791-1802
    • Wang, W.1    Zheng, H.2    Fan, C.3
  • 39
    • 33646170036 scopus 로고    scopus 로고
    • Euchromatin and pericentromeric heterochromatin: Comparative composition in the tomato genome
    • Wang, Y., Tang, X., Cheng, Z., Mueller, L., Giovannoni, J. Tanksley, S.D. (2006b) Euchromatin and pericentromeric heterochromatin: comparative composition in the tomato genome. Genetics, 172, 2529 2540.
    • (2006) Genetics , vol.172 , pp. 2529-2540
    • Wang, Y.1    Tang, X.2    Cheng, Z.3    Mueller, L.4    Giovannoni, J.5    Tanksley, S.D.6
  • 40
    • 56049110263 scopus 로고    scopus 로고
    • Sequencing and comparative analysis of a conserved syntenic segment in the Solanaceae
    • Wang, Y., Diehl, A., Wu, F., Vrebalov, J., Giovannoni, J., Siepel, A. Tanksley, S.D. (2008) Sequencing and comparative analysis of a conserved syntenic segment in the Solanaceae. Genetics, 180, 391 408.
    • (2008) Genetics , vol.180 , pp. 391-408
    • Wang, Y.1    Diehl, A.2    Wu, F.3    Vrebalov, J.4    Giovannoni, J.5    Siepel, A.6    Tanksley, S.D.7
  • 41
    • 0035823864 scopus 로고    scopus 로고
    • Evolution of the angiosperms: Calibrating the family tree
    • Wikstrom, N., Savolainen, V. Chase, M.W. (2001) Evolution of the angiosperms: calibrating the family tree. Proc. Biol. Sci. 268, 2211 2220.
    • (2001) Proc. Biol. Sci. , vol.268 , pp. 2211-2220
    • Wikstrom, N.1    Savolainen, V.2    Chase, M.W.3
  • 42
    • 33751344142 scopus 로고    scopus 로고
    • Combining bioinformatics and phylogenetics to identify large sets of single-copy orthologous genes (COSII) for comparative, evolutionary and systematic studies: A test case in the euasterid plant clade
    • Wu, F., Mueller, L.A., Crouzillat, D., Petiard, V. Tanksley, S.D. (2006) Combining bioinformatics and phylogenetics to identify large sets of single-copy orthologous genes (COSII) for comparative, evolutionary and systematic studies: a test case in the euasterid plant clade. Genetics, 174, 1407 1420.
    • (2006) Genetics , vol.174 , pp. 1407-1420
    • Wu, F.1    Mueller, L.A.2    Crouzillat, D.3    Petiard, V.4    Tanksley, S.D.5
  • 43
    • 40849085290 scopus 로고    scopus 로고
    • A retrotransposon-mediated gene duplication underlies morphological variation of tomato fruit
    • Xiao, H., Jiang, N., Schaffner, E.K., Stockinger, E.J. Van der Knaap, E. (2008) A retrotransposon-mediated gene duplication underlies morphological variation of tomato fruit. Science, 319, 1527 1530.
    • (2008) Science , vol.319 , pp. 1527-1530
    • Xiao, H.1    Jiang, N.2    Schaffner, E.K.3    Stockinger, E.J.4    Van Der Knaap, E.5
  • 44
    • 46649111176 scopus 로고    scopus 로고
    • Analysis of 90 Mb of the potato genome reveals conservation of gene structures and order with tomato but divergence in repetitive sequence composition
    • Zhu, W., Ouyang, S., Iovene, M., O'Brien, K., Vuong, H., Jiang, J. Buell, C.R. (2008) Analysis of 90 Mb of the potato genome reveals conservation of gene structures and order with tomato but divergence in repetitive sequence composition. BMC Genomics, 9, 286.
    • (2008) BMC Genomics , vol.9 , pp. 286
    • Zhu, W.1    Ouyang, S.2    Iovene, M.3    O'Brien, K.4    Vuong, H.5    Jiang, J.6    Buell, C.R.7


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