Alterations in cytosine methylation and species-specific transcription induced by interspecific hybridization between Oryza sativa and O. officinalis

Theoretical and Applied Genetics

Volumn 117, Issue 8, 2008, Pages 1271-1279

  Jin, Huajun ^a,b   Hu, Wei ^a   Wei, Zhe ^a   Wan, Linglin ^a   Li, Gang ^a   Tan, Guangxuan ^a   Zhu, Lili ^a   He, Guangcun ^a  

^a WUHAN UNIVERSITY   (China)

^b ZHEJIANG SCI TECH UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

BIOACTIVITY; GENE EXPRESSION; METHYLATION; POLYMORPHISM; TRANSCRIPTION;

CYTOSINE METHYLATIONS; EXPRESSION VARIATIONS; INTERSPECIFIC HYBRIDIZATIONS; ORYZA SATIVA; POLYPLOIDIZATION; REVERSE TRANSCRIPTIONS; RICE CULTIVARS; SOUTHERN BLOT ANALYSIS; SPECIFIC PRIMERS; STRAND CONFORMATIONS;

ALKYLATION;

CYTOSINE; PLANT DNA;

ARTICLE; DNA METHYLATION; GENE EXPRESSION REGULATION; GENETIC EPIGENESIS; GENETIC TRANSCRIPTION; GENETICS; HYBRIDIZATION; METABOLISM; PLANT GENOME; RICE; SINGLE STRAND CONFORMATION POLYMORPHISM; SPECIES DIFFERENCE;

CYTOSINE; DNA METHYLATION; DNA, PLANT; EPIGENESIS, GENETIC; GENE EXPRESSION REGULATION, PLANT; GENOME, PLANT; HYBRIDIZATION, GENETIC; ORYZA SATIVA; POLYMORPHISM, SINGLE-STRANDED CONFORMATIONAL; SPECIES SPECIFICITY; TRANSCRIPTION, GENETIC;

ORYZA SATIVA;

EID: 55149086560     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-008-0861-9     Document Type: Article

References (40)

1. KL Adams R Cronn R Percifield JF Wendel 2003 Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ specific reciprocal silencing Proc Natl Acad Sci USA 100 4649 4654
2. KL Adams R Percifield JF Wendel 2004 Organ-specific silencing of duplicated genes in a newly synthesized cotton allotetraploid Genetics 168 2217 2226
3. W Albertin T Balliau P Brabant A-M Chevre F Eber C Malosse H Thiellement 2006 Numerous and rapid nonstochastic modifications of gene products in newly synthesized Brassica napus allotetraploids Genetics 173 1101 1113
4. A Bottley GM Xia RMD Koebner 2006 Homoeologous gene silencing in hexaploid wheat Plant J 47 897 906
5. DS Brar GS Khush 1997 Alien introgression in rice Plant Mol Biol 35 35 47
6. L Comai AP Tyagi K Winter R Holmes-Davis SH Reynolds Y Stevens B Byers 2000 Phenotypic instability and rapid gene silencing in newly formed Arabidopsis allotetraploids Plant Cell 12 1551 1568
7. M Feldman B Liu G Segal S Abbo A Levy J Vega 1997 Rapid elimination of low-copy sequences in polyploid wheat: a possible mechanism for differentiation of homoeologous chromosomes Genetics 147 1381 1387
8. RT Gaeta JC Pires F Iniguez-Luy E Leon TC Osborna 2007 Genomic changes in resynthesized Brassica napus and their effect on gene expression and phenotype Plant Cell 19 3403 3417
9. P He B Friebe B Gill JM Zhou 2003 Allopolyploidy alters gene expression in the highly stable hexaploid wheat Plant Mol Biol 52 401 414
10. Z Huang GC He LH Shu XH Li QF Zhang 2001 Identification and mapping of two brown planthopper genes in rice Theor Appl Genet 102 929 934
11. HJ Jin GX Tan DS Brar M Tang G Li LL Zhu GC He 2006 Molecular and cytogenetic characterization of an Oryza officinalis-O. sativa chromosome 4 addition line and its progenies Plant Mol Biol 62 769 777
12. C Josefsson B Dilkes L Comai 2006 Parent-dependent loss of gene silencing during interspecies hybridization Curr Biol 16 1322 1328
13. K Kashkush M Feldman A Levy 2002 Gene loss, silencing, and activation in newly synthesized wheat allopolyploids Genetics 160 1651 1659
14. HS Lee J Chen 2001 Protein-coding genes are epigenetically regulated in Arabidopsis polyploids Proc Natl Acad Sci USA 98 6753 6758
15. B Liu JF Wendel 2003 Epigenetic phenomena and the evolution of plant allopolyploids Mol Phylogenet Evol 29 365 379
16. B Liu JM Vega M Feldman 1998 Rapid genomic changes in newly synthesized amphiploids of Triticum and Aegilops. II. Changes in low-copy coding DNA sequences Genome 41 535 542
17. B Liu JM Vega G Segal S Abbo M Rodova M Feldman 1998 Rapid genomic changes in newly synthesized amphiploids of Triticum and Aegilops. I. Changes in low-copy non-coding DNA sequences Genome 41 272 277
18. B Liu CL Brubaker G Mergeai RC Cronn JF Wendel 2001 Polyploid formation in cotton is not accompanied by rapid genomic changes Genome 43 874 880
19. LN Lukens JC Pires E Leon R Vogelzang L Oslach T Osborn 2006 Patterns of sequence loss and cytosine methylation within a population of newly resynthesized Brassica napus allopolyploids Plant Physiol 140 336 348
20. A Madlung R Masuelli B Watson S Reynolds J Davison L Comai 2002 Remodeling of DNA methylation and phenotypic and transcriptional changes in synthetic Arabidopsis allotetraploids Plant Physiol 129 733 746
21. A Madlung AP Tyagi B Watson H Jiang T Kagochi RW Doerge R Martienssen L Comai 2005 Genomic changes in synthetic Arabidopsis polyploids Plant J 41 221 230
22. RA Martienssen V Colot 2001 DNA methylation and epigenetic inheritance in plants and filamentous fungi Science 293 1070 1074
23. MG Murray WF Thompson 1980 Rapid isolation of high-molecular-weight plant DNA Nucleic Acids Res 8 4321 4325
24. H Ozkan A Levy M Feldman 2001 Allopolyploidy-induced rapid genome evolution in the wheat (Aegilops-Triticum) group Plant Cell 13 1735 1747
25. SH Rangwala EJ Richards 2004 The value-added genome: building and maintaining genomic cytosine methylation landscapes Curr Opin Genet Dev 14 686 691
26. RA Rapp JF Wendel 2005 Epigenetics and plant evolution New Phytol 168 81 91
27. GE Reyna-Lopez J Simpson J Ruiz-Herrera 1997 Differences in DNA methylation patterns are detectable during the dimorphic transition of fungi by amplification of restriction polymorphisms Mol Gen Genet 253 703 710
28. NC Riddle JA Birchler 2003 Effects of reunited diverged regulatory hierarchies in allopolyploids and species hybrids Trends Genet 19 597 600
29. LH Rieseberg JF Wendel 2004 Plant speciation-rise of the poor cousins New Phytol 161 3 8
30. A Salmon ML Ainouche JF Wendel 2005 Genetic and epigenetic consequences of recent hybridization and polyploidy in Spartina (Poaceae) Mol Ecol 14 1163 1175
31. H Shaked K Kashkush H Ozkan M Feldman A Levy 2001 Sequence elimination and cytosine methylation are rapid and reproducible responses of the genome to wide hybridization and allopolyploidy in wheat Plant Cell 13 1749 1759
32. K Song P Lu K Tang TC Osborn 1995 Rapid genome change in synthetic polyploids of Brassica and its implications for polyploidy evolution Proc Natl Acad Sci USA 92 7719 7723
33. GX Tan HJ Jin G Li RF He LL Zhu GC He 2005 Production and characterization of a complete set of individual chromosome additions from Oryza officinalis to Oryza sativa using RFLP and GISH analyses Theor Appl Genet 111 1585 1595
34. S Uozu H Ikehashi N Ohmido H Ohtsubo E Ohtsubo K Fukui 1997 Repetitive sequences: cause for variation in genome size and chromosome morphology in the genus Oryza Plant Mol Biol 35 791 799
35. DA Vaughan H Morishima K Kadowaki 2003 Diversity in the Oryza genus Curr Opin Plant Biol 6 139 146
36. J Wang L Tian A Madlung H Lee M Chen J Lee B Watson T Kagochi L Comai ZJ Chen 2004 Stochastic and epigenetic changes of gene expression in Arabidopsis polyploids Genetics 167 1961 1973
37. J Wang L Tian HS Lee NE Wei HM Jiang B Watson A Madlung TC Osborn RW Doerge L Comai ZJ Chen 2006 Genomewide nonadditive gene regulation in Arabidopsis allotetraploids Genetics 172 507 517
38. JF Wendel A Schnabel T Seelanan 1995 Bidirectional interlocus concerted evolution following allopolyploid speciation in cotton (Gossypium) Proc Natl Acad Sci USA 92 280 284
39. LZ Xiong CG Xu MAS Maroof Q Zhang 1999 Patterns of cytosine methylation in an elite rice hybrid and its parental lines, detected by a methylation-sensitive amplification polymorphism technique Mol Gen Genet 261 439 446
40. X Zhang S Shiu A Cal JO Borevitz 2008 Global analysis of genetic, epigenetic and transcriptional polymorphisms in Arabidopsis thaliana using whole genome tiling arrays PLoS Genet 4 e1000032