Genetic and epigenetic instabilities induced by tissue culture in wild barley (Hordeum brevisubulatum (Trin.) Link)

Plant Cell, Tissue and Organ Culture

Volumn 90, Issue 2, 2007, Pages 153-168

  Li, Xiaoling ^a   Yu, Xiaoming ^a   Wang, Ningning ^a   Feng, Qizhi ^b   Dong, Zhenying ^a   Liu, Lixia ^a   Shen, Jinglin ^c   Liu, Bao ^a  

^a NORTHEAST NORMAL UNIVERSITY   (China)

^b Department of Biology   (China)

^c JILIN UNIVERSITY   (China)

Author keywords

DNA methylation; Epigenetic; Molecular markers; Plant regeneration; Somaclonal variation; Tissue culture; Wild barley (Hordeum brevisubulatum (Trin.) Link)

Indexed keywords

BIOMARKERS; GENES; PROTEINS; TISSUE CULTURE;

DNA METHYLATION; EPIGENETICS; MOLECULAR MARKERS; PLANT REGENERATION; SOMACLONAL VARIATIONS; WILD BARLEY;

CROPS;

HORDEUM; HORDEUM BREVISUBULATUM; HORDEUM VULGARE SUBSP. SPONTANEUM;

EID: 34547569044     PISSN: 01676857     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11240-007-9224-5     Document Type: Article

References (52)

1. Armstrong CL, Green CE (1985) Establishment and maintenance of friable, embryogenic maize callus and involvement of L-proline. Planta 164:207-214
2. Ashikawa I (2001) Surveying CpG methylation at 5′-CCGG in the genomes of rice cultivars. Plant Mol Biol 45:31-39
3. Bhaskaran S, Smith RA (1990) Regeneration in cereal tissue culture: a review. Crop Sci 30:1328-1336
4. Bohorova NE, Luna B, Briton RM, Huerta LD, Hoisington DA (1995) Regeneration potential of tropical, and subtropical, midaltitude, and highland maize inbreds. Maydica 40:275-281
5. Bregitzer P, Campbell RD, Wu Y (1995) Plant regeneration from barley callus: effects of 2,4-dichlorphenoxy acetic acid and phenylacetic acid. Plant Cell Tissue Organ Cult 43:229-235
6. Bregitzer P, Dahleen LS, Campbell RD (1998) Enhancement of plant regeneration from embryogenic callus of commercial barley cultivars. Plant Cell Rep 17:941-945
7. Carvalho CHS, Bohorova N, Bordallo PN, Abreu LL, Valicente FH, Bressan W, Paiva E (1997) Type II Callus production and plant regeneration in tropical maize genotypes. Plant Cell Rep 17:73-76
8. Cecchini E, Natali L, Cavallini A, Durante M (1992) DNA variations in regenerated plants of pea (Pisum sativum L.). Theor Appl Genet 84:874-879
9. Cervera MT, Ruiz-García L, Martínez-Zapater JM (2002) Analysis of DNA methylation in Arabidopsis thaliana based on methylation-sensitive AFLP markers. Mol Genet Genomics 268:543-552
10. Dahleen LS, Bregitzer P (2002) An improved media system for high regeneration rates from barley immature embryo-derived callus cultures of commercial cultivars. Crop Sci 42(3):934-938
11. Dong ZY, Wang YM, Zhang ZJ, Shen Y, Lin XY, Ou XF, Han FP, Liu B (2006) Extent and pattern of DNA methylation alteration in rice lines derived from introgressive hybridization of rice and Zizania latifolia Griseb. Theor Appl Genet 113:196-205
12. Duncan RP (1997) Tissue culture-induced variation and crop improvement. Adv Agron 58:201-240
13. Ellis THN, Poyser SJ, Knox MR, Vershinin AV, Ambrose MJ (1998) Polymorphism of insertion sites of Ty1-copia class retrotransposons and its use for linkage and diversity analysis in pea. Mol Gen Genet 260:9-19
14. Etienne H, Bertrand B (2003) Somaclonal variation in Coffea arabica: effects of genotype and embryogenic cell suspension age on frequency and phenotype of variants. Tree Physiol 23:419-426
15. Golyasnaya NV, Tsvetkova NA (2006) Mismatch repair. Mol Biol 40:183-193
16. Gonzalgo ML, Jones PA (1997) Mutagenic and epigenetic effects of DNA methylation. Mutat Res 386:107-118
17. Guo JX, Jiang SC, Sun G (1998) Comparative study on remediation techniques of saline-alkali grassland in Songnen Plain. Chin J Appl Ecol 9:425-428
18. Guo WL, Wu R, Zhang YF, Liu XM, Wang HY, Gong L, Zhang ZH, Liu B (2007) Tissue culture-induced locus-specific alteration in DNA methylation and its correlation with genetic variation in Codonopsis lanceolata Benth. et Hook. f. Plant Cell Rep. doi:10.1007/s00299-007-0320-0
19. Joyce SM, Cassells AC, Jain SM (2003) Stress and aberrant phenotypes in in vitro culture. Plant Cell Tissue Organ Cult 74(2):103-121
20. Kaeppler SM, Phillips RL (1993a) Tissue culture-induced DNA methylation variation in maize. Proc Natl Acad Sci USA 90:8773-8776
21. Kaeppler SM, Phillips RL (1993b) DNA methylation and tissue culture-induced variation in plants. In Vitro Cell Dev Biol 29:125-130
22. Kaeppler SM, Kaeppler HF, Rhee Y (2000) Epigenetic aspects of somaclonal variation in plants. Plant Mol Biol 43:179-188
23. Karp A (1995) Somaclonal variation as a tool for crop improvement. Euphytica 85:295-302
24. Kaup S, Grandjean V, Mukherjee R, Kapoor A, Keyes E, Seymour CB, Mothersill CE, Schofield PN (2006) Radiation-induced genomic instability is associated with DNA methylation changes in cultured human keratinocytes. Mutat Res 597:87-97
25. Kidwell KK, Osborn TC (1992) Simple plant DNA isolation procedures. In: Beckman JS, Osborn TC (eds) Plant genomes: methods for genetic and physical mapping. Kluwer Academic Publishers, Amsterdam, The Netherlands, pp 1-13
26. Larkin PJ, Scowcroft WR (1981) Somaclonal variation-a novel source of variability from cell cultures for plant improvement. Theor Appl Genet 60:443-455
27. Leigh F, Kalendar R, Lea V, Lee D, Donini P, Schulman AH (2003) Comparison of the utility of barley retrotransposon families for genetic analysis by molecular marker techniques. Mol Genet Genomics 269:464-474
28. Murashige T, Skoog F (1962) A revised medium for rapid growth and bioassays with tobacco tissue cultures. Physiol Plant 15:473-497
29. Manninen I, Schulman AH (1993) Bare-1, a copia-like retroelement in barley (Hordeum vulgare L.). Plant Mol Biol 22:829-846
30. Mantel NA (1967) The detection of disease clustering and a generalized regression approach. Cancer Res 27:209-220
31. Matthes M, Singh R, Cheah SC, Karp A (2001) Variation in oil palm (Elais guineensis Jacq.) tissue culture-derived regenerants revealed by AFLPs with methylation-sensitive enzymes. Theor Appl Genet 102:971-979
32. McClelland M, Nelson M, Raschke E (1994) Effect of site-specific modification on restriction endonucleases and DNA modification methyltransferases. Nucleic Acids Res 22:3640-3659
33. Mohan JS (2001) Tissue culture-derived variation in crop improvement. Euphytica 118:153-166
34. Parra R, Pastor MT, Pérez-Payá E, Amo-Marco JB (2001) Effect of in vitro shoot multiplication and somatic embryogenesis on 5-methylcytosine content in DNA of Myrtus communis L. Plant Growth Regul 33:131-136
35. Peredo EL, Ángeles Revilla M, Arroyo-García R (2006) Assessment of genetic and epigenetic variation in hop plants regenerated from sequential subcultures of organogenic call. J Plant Physiol 163:1071-1079
36. Phillips RL, Kaeppler SM, Olhoft P (1994) Genetic instability of plant tissue cultures: Breakdown of normal controls. Proc Natl Acad Sci USA 91:5222-5226
37. Porceddu A, Albertini E, Barcaccia G, Marconi G, Bertoli FB, Veronesi F (2002) Development of S-SAP markers based on an LTR-like sequence from Medicago sativa L. Mol Genet Genomics 267:107-114
38. Portis E, Acquadro A, Comino C, Lanteri S (2003) Analysis of DNA methylation during germination of pepper (Capsicum annuum L.) seeds using methylation-sensitive amplification polymorphism (MSAP). Plant Sci 166:169-178
39. Quemada H, Roth EK, Lark KG (1987) Changes in methylation status of tissue cultured soybean cells detected by digestion with the restriction enzymes Hpa II and Msp I. Plant Cell Rep 6:63-66
40. Rabinowicz PD, Citek R, Budiman MA, Nunberg A, Bedell JA, Lakey N, O'Shaughnessy AL, Nascimento LU, McCombie WR, Martienssen RA (2005) Differential methylation of genes and repeats in land plants. Genome Res 15:1431-1440
41. Reyna-López GE, Simpson J, Ruiz-Herrera J (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
42. Rohlf FJ (2000) NTSYS-pc. Numerical taxonomy and multivariate analysis system. Ver. 2.1. Exeter software, Setauket, New York
43. Smulders MJM, Rus-Kortekaas W, Vosman B (1995) Tissue culture-induced DNA methylation polymorphisms in repetitive DNA of tomato calli and regenerated plants. Theor Appl Genet 91:1257-1264
44. Soleimani VD, Baum BR, Johnson DA (2005) Genetic diversity among barley cultivars assessed by sequence-specific amplification polymorphism. Theor Appl Genet 110:1290-1300
45. Soleimani VD, Baum BR, Johnson DA (2006) Quantification of the retrotransposon BARE-1 reveals the dynamic nature of the barley genome. Genome 49:389-396
46. Suzuki K, Suzuki I, Leodolter A, Alonso S, Horiuchi S, Yamashita K, Perucho M (2006) Global DNA demethylation in gastrointestinal cancer is age dependent and precedes genomic damage. Cancer Cell 9:199-207
47. Tam SM, Mhiri C, Vogelaar A, Kerkveld M, Pearce SR, Grandbastien MA (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
48. Vos P, Hogers R, Bleeker M, Reijans M, van de Lee T, Hornes M, Frijters A, Pot J, Peleman J, Kuiper M, Zabeau M (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res 23:4407-4414
49. Wang YM, Dong ZY, Zhang ZJ, Lin XY, Shen Y, Zhou D, Liu B (2005) Extensive de novo genomic variation in rice induced by introgression from wild rice (Zizania latifolia Griseb.). Genetics 170:1945-1956
50. Waugh R, McLean K, Flavell AJ, Pearce SR, Kumar A, Thomas BBT, Powell W (1997) Genetic distribution of Bare-1-like retrotransposable elements in the barley genome revealed by sequence-specific amplification polymorphisms (S-SAP). Mol Gen Genet 253:687-694
51. Xiong LZ, Xu CG, Shagi-Maroof MA, Zhang Q (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
52. Xu ML, Li XQ, Korban SS (2004) DNA-methylation alterations and exchanges during in vitro cellular differentiation in rose (Rosa hybrida L.). Theor Appl Genet 109:899-910