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Volumn 39, Issue 7, 2012, Pages 317-324

Recent Developments of Genomic Research in Soybean

Author keywords

Evolution; Genome; Soybean

Indexed keywords

SOYBEAN OIL; SOYBEAN PROTEIN; TRANSCRIPTOME;

EID: 84864304733     PISSN: 16738527     EISSN: 18735533     Source Type: Journal    
DOI: 10.1016/j.jgg.2012.02.002     Document Type: Review
Times cited : (46)

References (70)
  • 1
    • 0346494829 scopus 로고    scopus 로고
    • SGMD: the Soybean Genomics and Microarray Database
    • Alkharouf N., Matthews B.F. SGMD: the Soybean Genomics and Microarray Database. Nucleic Acids Res. 2004, 32:1-3.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 1-3
    • Alkharouf, N.1    Matthews, B.F.2
  • 2
    • 78049263858 scopus 로고    scopus 로고
    • MiRNAs in the biogenesis of trans-acting siRNAs in higher plants
    • Allen E., Howell M.D. miRNAs in the biogenesis of trans-acting siRNAs in higher plants. Semin. Cell Dev. Biol. 2010, 21:798-804.
    • (2010) Semin. Cell Dev. Biol. , vol.21 , pp. 798-804
    • Allen, E.1    Howell, M.D.2
  • 8
    • 64749084488 scopus 로고    scopus 로고
    • An approach to transcriptome analysis of non-model organisms using short-read sequences
    • Collins L.J., Biggs P.J., Voelckel C., Joly S. An approach to transcriptome analysis of non-model organisms using short-read sequences. Genome Inform. 2008, 21:3-14.
    • (2008) Genome Inform. , vol.21 , pp. 3-14
    • Collins, L.J.1    Biggs, P.J.2    Voelckel, C.3    Joly, S.4
  • 10
    • 77950931395 scopus 로고    scopus 로고
    • Dating the origins of polyploidy events
    • Doyle J.J., Egan A.N. Dating the origins of polyploidy events. New Phytol. 2010, 186:73-85.
    • (2010) New Phytol. , vol.186 , pp. 73-85
    • Doyle, J.J.1    Egan, A.N.2
  • 14
    • 23744483843 scopus 로고    scopus 로고
    • Profiling histone modification patterns in plants using genomic tiling microarrays
    • Gendrel A.V., Lippman Z., Martienssen R., Colot V. Profiling histone modification patterns in plants using genomic tiling microarrays. Nat. Methods 2005, 2:213-218.
    • (2005) Nat. Methods , vol.2 , pp. 213-218
    • Gendrel, A.V.1    Lippman, Z.2    Martienssen, R.3    Colot, V.4
  • 18
    • 36248953882 scopus 로고    scopus 로고
    • Chromatin immunoprecipitation: optimization, quantitative analysis and data normalization
    • Haring M., Offermann S., Danker T., Horst I., Peterhansel C., Stam M. Chromatin immunoprecipitation: optimization, quantitative analysis and data normalization. Plant Methods 2007, 3:11.
    • (2007) Plant Methods , vol.3 , pp. 11
    • Haring, M.1    Offermann, S.2    Danker, T.3    Horst, I.4    Peterhansel, C.5    Stam, M.6
  • 20
    • 33750733285 scopus 로고    scopus 로고
    • Genome-wide analysis of histone modifications by ChIP-on-chip
    • Huebert D.J., Kamal M., O'Donovan A., Bernstein B.E. Genome-wide analysis of histone modifications by ChIP-on-chip. Methods 2006, 40:365-369.
    • (2006) Methods , vol.40 , pp. 365-369
    • Huebert, D.J.1    Kamal, M.2    O'Donovan, A.3    Bernstein, B.E.4
  • 22
    • 76749107192 scopus 로고    scopus 로고
    • A high density integrated genetic linkage map of soybean and the development of a 1536 universal soy linkage panel for quantitative trait locus mapping
    • Hyten D.L., Choi I.Y., Song Q.J., Specht J.E., Carter T.E., Shoemaker R.C., Hwang E.Y., Matukumalli L.K., Cregan P.B. A high density integrated genetic linkage map of soybean and the development of a 1536 universal soy linkage panel for quantitative trait locus mapping. Crop Sci. 2010, 50:960-968.
    • (2010) Crop Sci. , vol.50 , pp. 960-968
    • Hyten, D.L.1    Choi, I.Y.2    Song, Q.J.3    Specht, J.E.4    Carter, T.E.5    Shoemaker, R.C.6    Hwang, E.Y.7    Matukumalli, L.K.8    Cregan, P.B.9
  • 23
    • 76749130701 scopus 로고    scopus 로고
    • High-throughput SNP discovery through deep resequencing of a reduced representation library to anchor and orient scaffolds in the soybean whole genome sequence
    • Hyten D.L., Cannon S.B., Song Q.J., Weeks N., Fickus E.W., Shoemaker R.C., Specht J.E., Farmer A.D., May G.D., Cregan P.B. High-throughput SNP discovery through deep resequencing of a reduced representation library to anchor and orient scaffolds in the soybean whole genome sequence. BMC Genomics 2010, 11:38.
    • (2010) BMC Genomics , vol.11 , pp. 38
    • Hyten, D.L.1    Cannon, S.B.2    Song, Q.J.3    Weeks, N.4    Fickus, E.W.5    Shoemaker, R.C.6    Specht, J.E.7    Farmer, A.D.8    May, G.D.9    Cregan, P.B.10
  • 26
    • 34250159524 scopus 로고    scopus 로고
    • Genome-wide mapping of in vivo protein-DNA interactions
    • Johnson D.S., Mortazavi A., Myers R.M., Wold B. Genome-wide mapping of in vivo protein-DNA interactions. Science 2007, 316:1497-1502.
    • (2007) Science , vol.316 , pp. 1497-1502
    • Johnson, D.S.1    Mortazavi, A.2    Myers, R.M.3    Wold, B.4
  • 28
    • 0037226595 scopus 로고    scopus 로고
    • Transcriptional activation of retrotransposons alters the expression of adjacent genes in wheat
    • Kashkush K., Feldman M., Levy A.A. Transcriptional activation of retrotransposons alters the expression of adjacent genes in wheat. Nat. Genet. 2003, 33:102-106.
    • (2003) Nat. Genet. , vol.33 , pp. 102-106
    • Kashkush, K.1    Feldman, M.2    Levy, A.A.3
  • 29
    • 77749320166 scopus 로고    scopus 로고
    • Chromatin immunoprecipitation (ChIP) of plant transcription factors followed by sequencing (ChIP-SEQ) or hybridization to whole genome arrays (ChIP-CHIP)
    • Kaufmann K., Muino J.M., Osteras M., Farinelli L., Krajewski P., Angenent G.C. Chromatin immunoprecipitation (ChIP) of plant transcription factors followed by sequencing (ChIP-SEQ) or hybridization to whole genome arrays (ChIP-CHIP). Nat. Protoc. 2010, 5:457-472.
    • (2010) Nat. Protoc. , vol.5 , pp. 457-472
    • Kaufmann, K.1    Muino, J.M.2    Osteras, M.3    Farinelli, L.4    Krajewski, P.5    Angenent, G.C.6
  • 35
    • 77957764187 scopus 로고    scopus 로고
    • Structural and functional divergence of a 1-Mb duplicated region in the soybean (Glycine max) genome and comparison to an orthologous region from Phaseolus vulgaris
    • Lin J.Y., Stupar R.M., Hans C., Hyten D.L., Jackson S.A. Structural and functional divergence of a 1-Mb duplicated region in the soybean (Glycine max) genome and comparison to an orthologous region from Phaseolus vulgaris. Plant Cell 2010, 22:2545-2561.
    • (2010) Plant Cell , vol.22 , pp. 2545-2561
    • Lin, J.Y.1    Stupar, R.M.2    Hans, C.3    Hyten, D.L.4    Jackson, S.A.5
  • 36
    • 33344458581 scopus 로고    scopus 로고
    • The accumulation of deleterious mutations in rice genomes: a hypothesis on the cost of domestication
    • Lu J., Tang T., Tang H., Huang J.Z., Shi S.H., Wu C.I. The accumulation of deleterious mutations in rice genomes: a hypothesis on the cost of domestication. Trends Genet. 2006, 22:126-131.
    • (2006) Trends Genet. , vol.22 , pp. 126-131
    • Lu, J.1    Tang, T.2    Tang, H.3    Huang, J.Z.4    Shi, S.H.5    Wu, C.I.6
  • 37
    • 31044442399 scopus 로고    scopus 로고
    • Recombination, rearrangement, reshuffling, and divergence in a centromeric region of rice
    • Ma J.X., Bennetzen J.L. Recombination, rearrangement, reshuffling, and divergence in a centromeric region of rice. Proc. Natl. Acad. Sci. USA 2006, 103:383-388.
    • (2006) Proc. Natl. Acad. Sci. USA , vol.103 , pp. 383-388
    • Ma, J.X.1    Bennetzen, J.L.2
  • 39
    • 80052960863 scopus 로고    scopus 로고
    • Next-generation transcriptome assembly
    • Martin J.A., Wang Z. Next-generation transcriptome assembly. Nat. Rev. Genet. 2011, 12:671-682.
    • (2011) Nat. Rev. Genet. , vol.12 , pp. 671-682
    • Martin, J.A.1    Wang, Z.2
  • 40
    • 80855123881 scopus 로고    scopus 로고
    • Gene expression profiling of resistant and susceptible soybean lines infected with soybean cyst nematode
    • Mazarei M., Liu W.X., Al-Ahmad H., Arelli P., Pantalone V., Stewart C. Gene expression profiling of resistant and susceptible soybean lines infected with soybean cyst nematode. Theor. Appl. Genet. 2011, 123:1193-1206.
    • (2011) Theor. Appl. Genet. , vol.123 , pp. 1193-1206
    • Mazarei, M.1    Liu, W.X.2    Al-Ahmad, H.3    Arelli, P.4    Pantalone, V.5    Stewart, C.6
  • 41
    • 10644247621 scopus 로고    scopus 로고
    • Applications of DNA tiling arrays for whole-genome analysis
    • Mockler T.C., Ecker J.R. Applications of DNA tiling arrays for whole-genome analysis. Genomics 2005, 85:1-15.
    • (2005) Genomics , vol.85 , pp. 1-15
    • Mockler, T.C.1    Ecker, J.R.2
  • 42
    • 33847661809 scopus 로고    scopus 로고
    • Protocol for the fast chromatin immunoprecipitation (ChIP) method
    • Nelson J.D., Denisenko O., Bomsztyk K. Protocol for the fast chromatin immunoprecipitation (ChIP) method. Nat. Protoc. 2006, 1:179-185.
    • (2006) Nat. Protoc. , vol.1 , pp. 179-185
    • Nelson, J.D.1    Denisenko, O.2    Bomsztyk, K.3
  • 43
    • 78751570979 scopus 로고    scopus 로고
    • RNA sequencing: advances, challenges and opportunities
    • Ozsolak F., Milos P.M. RNA sequencing: advances, challenges and opportunities. Nat. Rev. Genet. 2010, 12:87-98.
    • (2010) Nat. Rev. Genet. , vol.12 , pp. 87-98
    • Ozsolak, F.1    Milos, P.M.2
  • 44
    • 22844439628 scopus 로고    scopus 로고
    • Placing paleopolyploidy in relation to taxon divergence: a phylogenetic analysis in legumes using 39 gene families
    • Pfeil B.E., Schlueter J.A., Shoemaker R.C., Doyle J.J. Placing paleopolyploidy in relation to taxon divergence: a phylogenetic analysis in legumes using 39 gene families. Syst. Biol. 2005, 54:441-454.
    • (2005) Syst. Biol. , vol.54 , pp. 441-454
    • Pfeil, B.E.1    Schlueter, J.A.2    Shoemaker, R.C.3    Doyle, J.J.4
  • 45
    • 35848952287 scopus 로고    scopus 로고
    • GeneChip profiling of transcriptional responses to soybean cyst nematode, Heterodera glycines, colonization of soybean roots
    • Puthoff D.P., Ehrenfried M.L., Vinyard B.T., Tucker M.L. GeneChip profiling of transcriptional responses to soybean cyst nematode, Heterodera glycines, colonization of soybean roots. J. Exp. Bot. 2007, 58:3407-3418.
    • (2007) J. Exp. Bot. , vol.58 , pp. 3407-3418
    • Puthoff, D.P.1    Ehrenfried, M.L.2    Vinyard, B.T.3    Tucker, M.L.4
  • 46
    • 77950668357 scopus 로고    scopus 로고
    • Protocol: fine-tuning of a chromatin immunoprecipitation (ChIP) protocol in tomato
    • Ricardi M.M., Gonzalez R.M., Iusem N.D. Protocol: fine-tuning of a chromatin immunoprecipitation (ChIP) protocol in tomato. Plant Methods 2010, 6:11.
    • (2010) Plant Methods , vol.6 , pp. 11
    • Ricardi, M.M.1    Gonzalez, R.M.2    Iusem, N.D.3
  • 47
    • 0042669957 scopus 로고    scopus 로고
    • Genomewide histone acetylation microarrays
    • Robyr D., Grunstein M. Genomewide histone acetylation microarrays. Methods 2003, 31:83-89.
    • (2003) Methods , vol.31 , pp. 83-89
    • Robyr, D.1    Grunstein, M.2
  • 50
    • 33847075431 scopus 로고    scopus 로고
    • Genome-wide analysis of chromatin status using tiling microarrays
    • Shivaswamy S., Iyer V.R. Genome-wide analysis of chromatin status using tiling microarrays. Methods 2007, 41:304-311.
    • (2007) Methods , vol.41 , pp. 304-311
    • Shivaswamy, S.1    Iyer, V.R.2
  • 51
    • 33644532857 scopus 로고    scopus 로고
    • Paleopolyploidy and gene duplication in soybean and other legumes
    • Shoemaker R.C., Schlueter J., Doyle J.J. Paleopolyploidy and gene duplication in soybean and other legumes. Curr. Opin. Plant Biol. 2006, 9:104-109.
    • (2006) Curr. Opin. Plant Biol. , vol.9 , pp. 104-109
    • Shoemaker, R.C.1    Schlueter, J.2    Doyle, J.J.3
  • 53
    • 0000699697 scopus 로고
    • The genome relationship between Glycine max (L) Merr. and Glycine soja Sieb. and Zucc. as revealed by pachytene chromosome analysis
    • Singh R.J., Hymowitz T. The genome relationship between Glycine max (L) Merr. and Glycine soja Sieb. and Zucc. as revealed by pachytene chromosome analysis. Theor. Appl. Genet. 1988, 76:705-711.
    • (1988) Theor. Appl. Genet. , vol.76 , pp. 705-711
    • Singh, R.J.1    Hymowitz, T.2
  • 55
    • 0043171067 scopus 로고    scopus 로고
    • Chromatin immunoprecipitation: a tool for studying histone acetylation and transcription factor binding
    • Spencer V.A., Sun J.M., Li L., Davie J.R. Chromatin immunoprecipitation: a tool for studying histone acetylation and transcription factor binding. Methods 2003, 31:67-75.
    • (2003) Methods , vol.31 , pp. 67-75
    • Spencer, V.A.1    Sun, J.M.2    Li, L.3    Davie, J.R.4
  • 57
    • 78650661833 scopus 로고    scopus 로고
    • Into the wild: the soybean genome meets its undomesticated relative
    • Stupar R.M. Into the wild: the soybean genome meets its undomesticated relative. Proc. Natl. Acad. Sci. USA 2010, 107:21947-21948.
    • (2010) Proc. Natl. Acad. Sci. USA , vol.107 , pp. 21947-21948
    • Stupar, R.M.1
  • 59
    • 57749195712 scopus 로고    scopus 로고
    • RNA-Seq: a revolutionary tool for transcriptomics
    • Wang Z., Gerstein M., Snyder M. RNA-Seq: a revolutionary tool for transcriptomics. Nat. Rev. Genet. 2009, 10:57-63.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 57-63
    • Wang, Z.1    Gerstein, M.2    Snyder, M.3
  • 62
    • 69549084781 scopus 로고    scopus 로고
    • Mass spectrometry analysis of the variants of histone H3 and H4 of soybean and their post-translational modifications
    • Wu T., Yuan T.Z., Tsai S.N., Wang C.M., Sun S.M., Lam H.M., Ngai S.M. Mass spectrometry analysis of the variants of histone H3 and H4 of soybean and their post-translational modifications. BMC Plant Biol. 2009, 9:98.
    • (2009) BMC Plant Biol. , vol.9 , pp. 98
    • Wu, T.1    Yuan, T.Z.2    Tsai, S.N.3    Wang, C.M.4    Sun, S.M.5    Lam, H.M.6    Ngai, S.M.7
  • 63
    • 83455201560 scopus 로고    scopus 로고
    • GmPHD5 acts as an important regulator for crosstalk between histone H3K4 di-methylation and H3K14 acetylation in response to salinity stress in soybean
    • Wu T., Pi E.-X., Tsai S.-N., Lam H.-M., Sun S.S.-M., Kwan Y.W., Ngai S.-M. GmPHD5 acts as an important regulator for crosstalk between histone H3K4 di-methylation and H3K14 acetylation in response to salinity stress in soybean. BMC Plant Biol. 2011, 11:178.
    • (2011) BMC Plant Biol. , vol.11 , pp. 178
    • Wu, T.1    Pi, E.-X.2    Tsai, S.-N.3    Lam, H.-M.4    Sun, S.S.-M.5    Kwan, Y.W.6    Ngai, S.-M.7
  • 64
    • 40149092542 scopus 로고    scopus 로고
    • Genetic marker anchoring by six-dimensional pools for development of a soybean physical map
    • Wu X.L., Zhong G.H., Findley S.D., Cregan P., Stacey G., Nguyen H.T. Genetic marker anchoring by six-dimensional pools for development of a soybean physical map. BMC Genomics 2008, 9:28.
    • (2008) BMC Genomics , vol.9 , pp. 28
    • Wu, X.L.1    Zhong, G.H.2    Findley, S.D.3    Cregan, P.4    Stacey, G.5    Nguyen, H.T.6
  • 67
    • 43549115088 scopus 로고    scopus 로고
    • Epigenetic modification of centromeric chromatin: hypomethylation of DNA sequences in the CENH3-associated chromatin in Arabidopsis thaliana and maize
    • Zhang W.L., Lee H.R., Koo D.H., Jiang J.M. Epigenetic modification of centromeric chromatin: hypomethylation of DNA sequences in the CENH3-associated chromatin in Arabidopsis thaliana and maize. Plant Cell 2008, 20:25-34.
    • (2008) Plant Cell , vol.20 , pp. 25-34
    • Zhang, W.L.1    Lee, H.R.2    Koo, D.H.3    Jiang, J.M.4
  • 69
    • 69249154303 scopus 로고    scopus 로고
    • DNA methylation polymorphism in annual wild soybean (Glycine soja Sieb. et Zucc.) and cultivated soybean (G. max L. Merr.)
    • Zhong X.F., Wang Y.M., Liu X.D., Gong L., Ma Y., Qi B., Dong Y.S., Liu B. DNA methylation polymorphism in annual wild soybean (Glycine soja Sieb. et Zucc.) and cultivated soybean (G. max L. Merr.). Can. J. Plant Sci. 2009, 89:851-863.
    • (2009) Can. J. Plant Sci. , vol.89 , pp. 851-863
    • Zhong, X.F.1    Wang, Y.M.2    Liu, X.D.3    Gong, L.4    Ma, Y.5    Qi, B.6    Dong, Y.S.7    Liu, B.8
  • 70
    • 0028089904 scopus 로고
    • Hypomethylated sequences: characterization of the duplicate soybean genome
    • Zhu T., Schupp J.M., Oliphant A., Keim P. Hypomethylated sequences: characterization of the duplicate soybean genome. Mol. Gen. Genet. 1994, 244:638-645.
    • (1994) Mol. Gen. Genet. , vol.244 , pp. 638-645
    • Zhu, T.1    Schupp, J.M.2    Oliphant, A.3    Keim, P.4


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