Epigenetic inheritance and variation of DNA methylation level and pattern in maize intra-specific hybrids

Plant Science

Volumn 172, Issue 5, 2007, Pages 930-938

  Zhao, Xinxin ^a,b   Chai, Yang ^a   Liu, Bao ^a  

^a NORTHEAST NORMAL UNIVERSITY   (China)

^b JILIN AGRICULTURAL UNIVERSITY   (China)

Author keywords

Cytosine methylation; Epigenetic inheritance; Heterosis; Hybrid; Maize; Methylation remodeling

Indexed keywords

CROPS; GENETIC ENGINEERING; METHYLATION;

CYTOSINE METHYLATION; EPIGENETIC INHERITANCE; METHYLATION REMODELING; PARENTAL COMBINATIONS;

DNA;

CORN; GENETIC ENGINEERING; HETEROSIS; METHYLATION; NUCLEIC ACIDS;

ZEA MAYS;

EID: 34047168659     PISSN: 01689452     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.plantsci.2007.01.002     Document Type: Article

References (40)

1. Chan S.W., Henderson I.R., and Jacobsen S.E. Gardening the genome: DNA methylation in Arabidopsis thaliana. Nat. Rev. Genet. 6 (2005) 351-360
2. Rangwala S.H., and Richards E.J. The value-added genome: building and maintaining genomic cytosine methylation landscapes. Curr. Opin. Genet. Dev. 14 (2004) 686-691
3. Tariq M., and Paszkowski J. DNA and histone methylation in plants. Trends Genet. 20 (2004) 244-251
4. Kakutani T. Epi-alleles in plants: inheritance of epigenetic information over generations. Plant Cell Physiol. 43 (2002) 1106-1111
5. Rapp R.A., and Wendel J.F. Epigenetics and plant evolution. New Phytol. 168 (2005) 81-91
6. Martienssen R.A., and Colot V. DNA methylation and epigenetic inheritance in plants and lamentous fungi. Science 293 (2001) 1070-1074
7. Riddle N.C., and Richards E.J. The control of natural variation in cytosine methylation in Arabidopsis. Genetics 162 (2002) 355-363
8. Reik W., Dean W., and Walte J. Epigenetic reprogramming in mammalian development. Science 293 (2001) 1089-1093
9. Geiman T.M., and Robertson K.D. Chromatin remodeling, histone modifications, and DNA methylation-how does it all fit together?. J. Cell Biochem. 87 (2002) 117-125
10. Chong S., and Whitelaw E. Epigenetic germline inheritance. Curr. Opin. Genet. Dev. 14 (2004) 692-696
11. Colot V., and Rossignol J.L. Eukaryotic DNA methylation as an evolutionary device. BioEssays 21 (1999) 402-411
12. Kakutani T., Munakata K., Richards E.J., and Hirochika H. Meiotically and mitotically stable inheritance of DNA hypomethylation induced by ddm1 mutation of Arabidopsis thaliana. Genet. Feb 151 2 (1999) 831-838
13. Riddle N.C., and Richards E.J. Genetic variation in epigenetic inherit.ance of ribosomal RNA gene methylation in Arabidopsis. Plant J. 41 (2005) 524-532
14. Xiong L.Z., Xu C.G., Shagi-Maroof M.A., and Zhang Q. Patterns of cytosine methyaltion in an elite rice hybrid and its parental lines, detected by a methylation-sensitive amplification polymorphism technique. Mol. Genet. Genomics 261 (1999) 439-446
15. Shaked H., Kashkush K., Ozkan H., Feldman M., and Levy A.A. Sequence elimination and cytosine methylation are rapid and reproducible responses of the genome to wide hybridization and allopolyploidy in wheat. Plant Cell 13 (2001) 1749-1759
16. Kashkush K., Feldman M., and Levy A.A. Transcriptional activation of retrotransposons alters the expression of adjacent genes in wheat. Nat. Genet. 33 (2003) 102-106
17. SanMiguel P., Tikhonov A., Jin Y.K., Motchoulskaia N., Zakharov D., Melake-Berhan A., Springer P.S., Edwards K.J., Lee M., Avramova Z., and Bennetzen J.L. Nested retrotransposons in the intergenic regions of the maize genome. Science 274 (1996) 765-768
18. Rabinowicz P.D., Citek R., Budiman M.A., Nunberg A., Bedell J.A., Lakey N., O'Shaughnessy A.L., Nascimento L.U., McCombie W.R., and Martienssen R.A. Differential methylation of genes and repeats in land plants. Genome Res. 15 (2005) 1431-1440
19. Guo M., Rupe M.A., Zinselmeier C., Habben J., Bowen B.A., and Smith O.S. Allelic variation of gene expression in maize hybrids. Plant Cell 16 (2004) 1707-1716
20. Kidwell K.K., and Osborn T.C. Simple plant DNA isolation procedures. In: Beckman J.S., and Osborn T.C. (Eds). Plant genomes: Methods for Genetic and Physical Mapping (1992), Kluwer Academic Publishers, Dordrecht, The Netherlands 1-13
21. Reyna-Lopez G.E., Simpson J., and Ruiz-Herrera J. Differences in DNA methylation patterns are detectable during the dimorphic transition of fungi by amplification of restriction polymorphisms. Mol. Gen. Genet. 253 (1997) 703-710
22. Salmon A., Ainouche M.L., and Wendel J.F. Genetic and epigenetic consequences of recent hybridization and polyploidy in Spartina (Poaceae). Mol. Ecol. 14 (2005) 1163-1175
23. Ashikawa I. Surveying CpG methylation at 5′-CCGG in the genomes of rice cultivars. Plant Mol. Biol. 45 (2001) 31-39
24. Liu B., Brubaker C.L., Mergeai G., Cronn R.C., and Wendel J.F. Polyploid formation in cotton is not accompanied by rapid genomic changes. Genome 44 (2001) 321-330
25. Cervera M.T., Ruiz-Garcia L., and Martinez-Zapater J.M. Analysis of DNA methylation in Arabidopsis thaliana based on methylation-sensitive AFLP markers. Mol. Genet. Genomics 268 (2002) 543-552
26. Portis E., Acquadro A., Comino C., and Lanteri S. Analysis of DNA methylation during germination of pepper (Capsicum annuum L.) seeds using methylation-sensitive amplification polymorphism (MSAP). Plant Sci. 166 (2003) 169-178
27. Vos P., Hogers R., Bleeker M., Reijans M., van de Lee T., Hornes M., Frijters A., Pot J., Peleman J., Kuiper M., and Zabeau M. AFLP: a new technique for DNA fingerprinting. Nucl. Acids Res. 23 (1995) 4407-4414
28. McClelland M., Nelson M., and Raschke E. Effect of site-specific modification on restriction endonucleases and DNA modification methyltransferases. Nucl. Acids Res. 22 (1994) 3640-3659
29. Cubas P., Vincent C., and Coen E. An epigenetic mutation responsible for natural variation in floral symmetry. Nature 401 (1999) 157-161
30. Madlung A., Masuelli R.W., Watson B., Reynolds S.H., Davison J., and Comai L. Remodeling of DNA methylation and phenotypic and transcriptional changes in synthetic Arabidopsis allotetraploids. Plant Physiol. 129 (2002) 733-746
31. Levy A.A., and Feldman M. Genetic and epigenetic reprogramming of the wheat genome upon allopolyploidization. Biol. J. Linnean Soc. 82 (2004) 607-613
32. Liu B., and Wendel J.F. Epigenetic phenomena and the evolution of plant allopolyploids. Mol. Phylogenet. Evol. 29 (2003) 365-379
33. Autran D., Huanca-Mamani W., and Vielle-Calzada J.P. Genomic imprinting in plants: the epigenetic version of an Oedipus complex. Curr. Opin. Plant Biol. 8 (2005) 19-25
34. Birchler J.A., Auger D.L., and Riddle N.C. In search of the molecular basis of heterosis. Plant Cell 15 (2003) 2236-2239
35. Birchler J.A., Riddle N.C., Auger D.L., and Veitia R.A. Dosage balance in gene regulation: biological implications. Trends Genet. 21 (2005) 219-226
36. Sun Q.X., Wu L.M., Ni Z.F., Meng F.R., Wang Z.K., and Lin Z. Differential gene expression patterns in leaves between hybrids and their parental inbreds are correlated with heterosis in a wheat diallel cross. Plant Sci. 166 (2004) 651-657
37. Yao Y., Ni Z., Zhang Y., Chen Y., Ding Y., Han Z., Liu Z., and Sun Q. Identification of differentially expressed genes in leaf and root between wheat hybrid and its parental inbreds using PCR-based cDNA subtraction. Plant Mol. Biol. 58 (2005) 367-384
38. Guo M., Rupe M.A., Yang X., Crasta O.C., Zinselmeier O.S., Smith B., and Bowen. Genome-wide transcript analysis of maize hybrids: allelic additive gene expression and yield heterosis. Theor. Appl. Genet. 113 (2006) 831-845
39. Swanson-Wagner R.A., Jia Y., DeCook R., Borsuk L.A., Nettleton D., and Schnable P.S. All possible modes of gene action are observed in a global comparison of gene expression in a maize F1 hybrid and its inbred parents. Proc. Natl. Acad. Sci. 103 (2006) 6805-6810
40. Tsaftaris S.A. Molecular aspects of heterosis in plants. Physiol. Plant. 94 (1995) 362-370