Skip to main content
Log in

Somaclonal variation in plants: causes and detection methods

  • SI : Tissue Culture
  • Published:
Plant Growth Regulation Aims and scope Submit manuscript

Abstract

Plant tissue culture has become one of the fundamental tools of plant science research. It is extensively employed in the production, conservation and improvement of plant resources. The presence of somaclonal variation in populations derived from tissue culture is affecting the use of tissue culture negatively and has remained a major problem. Conversely, it is a source of new desirable clones/variants with better agronomic traits. In this review, we summarize the possible causes, detection methods and desirability of variants. Somaclonal variation is one of the most researched and reviewed topics. Hence, we restricted ourselves to outlining various examples which may be used as important references for researchers who intend to identify and/or characterize somaclonal variants while using tissue culture for research and production. Emphasis is placed on the negative effects of somaclonal variation. However, this review also includes examples of some useful variants generated as a result of somaclonal variation.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Similar content being viewed by others

References

  • Adir N, Zer H, Shochat S, Ohad I (2003) Photoinhibition—a historical perspective. Photosynth Res 76:343–370

    PubMed  CAS  Google Scholar 

  • Agarwal M, Shrivastava N, Padh H (2008) Advances in molecular marker techniques and their applications in plant sciences. Plant Cell Rep 27:617–631

    PubMed  CAS  Google Scholar 

  • Ahloowalia BS (1986) Limitations to the use of somaclonal variation in crop improvement. In: Semal J (ed) Somaclonal variations and crop improvement. Martinus Nijhoff Publishers, Dordrecht, pp 14–27

    Google Scholar 

  • Ahmed K, Abdelkareem A (2005) Somaclonal variation in bread wheat (Triticum aestivum L.). II. Field performance of somaclones. Cereal Res Commun 33:485–492

    Google Scholar 

  • Ahmed EU, Hayashi T, Yazawa S (2004) Auxins increase the occurrence of leaf-colour variants in Caladium regenerated from leaf explants. Sci Hortic 100:153–159

    CAS  Google Scholar 

  • Albani MC, Wilkinson MJ (1998) Inter simple sequence repeat polymerase chain reaction for the detection of somaclonal variation. Plant Breed 117:573–575

    Google Scholar 

  • Althoff DM, Gitzendanner MA, Segraves KA (2007) The utility of amplified fragment length polymorphisms in phylogenetics: a comparison of homology within and between genomes. Syst Biol 56:477–484

    PubMed  CAS  Google Scholar 

  • Al-Zahim MA, Ford-Lloyd BV, Newbury HJ (1999) Detection of somaclonal variation in garlic (Allium sativum L.) using RAPD and cytological analysis. Plant Cell Rep 18:473–477

    CAS  Google Scholar 

  • Anastassopoulos E, Keil M (1996) Assessment of natural and induced genetic variation in Alstroemeria using random amplified polymorphic DNA (RAPD) markers. Euphytica 90:235–244

    CAS  Google Scholar 

  • Araújo LG, Prabhu AS, Filippi MC, Chaves LJ (2001) RAPD analysis of blast resistant somaclones from upland rice cultivar IAC 47 for genetic divergence. Plant Cell Tissue Organ Cult 67:165–172

    Google Scholar 

  • Arihara A, Kita T, Igarashi S, Goto M, Irikura Y (1995) White Baron: a non-browning somaclonal variant of Danshakuimo (Irish cobbler). Am J Potato Res 72:701–705

    Google Scholar 

  • Arun B, Joshi AK, Chand R, Singh BD (2003) Wheat somaclonal variants showing earliness, improved spot blotch resistance and higher yield. Euphytica 132:235–241

    Google Scholar 

  • Arun B, Singh BD, Sharma S, Paliwal R, Joshi AK (2007) Development of somaclonal variants of wheat (Triticum aestivum L.) for yield traits and disease resistance suitable for heat stressed and zero-till conditions. Field Crops Res 103:62–69

    Google Scholar 

  • Asif MJ, Othman RY (2005) Characterization of fusarium wilt-resistant and fusarium wilt-susceptible somaclones of banana cultivar rastali (Musa AAB) by random amplified polymorphic DNA and retrotransposon markers. Plant Mol Biol Rep 23:241–249

    Google Scholar 

  • Aversano R, Savarese S, Maria De Nova J, Frusciante L, Punzo M, Carputo D (2009) Genetic stability at nuclear and plastid DNA level in regenerated plants of Solanum species and hybrids. Euphytica 165:353–361

    CAS  Google Scholar 

  • Baer G, Yemets A, Stadnichuk N, Rakhmetov D, Blume Y (2007) Somaclonal variability as a source for creation of new varieties of finger millet (Eleusine coracana (L.) Gaertn.). Cytol Genet 41:204–208

    Google Scholar 

  • Bairu MW, Fennell CW, van Staden J (2006) The effect of plant growth regulators on somaclonal variation in Cavendish banana (Musa AAA cv. ‘Zelig’). Sci Hortic 108:347–351

    CAS  Google Scholar 

  • Bajaj YPS (1990) Somaclonal variation—origin, induction, cryopreservation, and implications in plant breeding. In: Bajaj YPS (ed) Biotechnology in agriculture and forestry II. Somaclonal variation in crop improvement. Springer, Berlin, pp 3–35

    Google Scholar 

  • Baránek M, Křižan B, Ondrušíková E, Pidra M (2010) DNA-methylation changes in grapevine somaclones following in vitro culture and thermotherapy. Plant Cell Tissue Organ Cult 101:11–22

    Google Scholar 

  • Barret P, Brinkman M, Beckert M (2006) A sequence related to rice Pong transposable element displays transcriptional activation by in vitro culture and reveals somaclonal variations in maize. Genome 49:1399–1407

    PubMed  CAS  Google Scholar 

  • Barwale UB, Widholm JM (1987) Somaclonal variation in plants regenerated from cultures of soybean. Plant Cell Rep 6:365–368

    Google Scholar 

  • Bayliss MW (1980) Chromosomal variation in tissue culture. In: Vasil IK (ed) Perspectives in plant cell and tissue culture. Academic Press, New York, pp 113–144

    Google Scholar 

  • Bednarek P, Orlowska R, Koebner R, Zimny J (2007) Quantification of the tissue-culture induced variation in barley (Hordeum vulgare L.). BMC Plant Biol 7:10. doi:10.1186/1471-2229-7-10

    PubMed  Google Scholar 

  • Beemster GTS, Fiorani F, Inzé D (2003) Cell cycle: the key to plant growth control? Trends Plant Sci 8:154–158

    PubMed  CAS  Google Scholar 

  • Belaj A, Satovic Z, Cipriani G, Baldoni L, Testolin R, Rallo L, Trujillo I (2003) Comparative study of the discriminating capacity of RAPD, AFLP and SSR markers and of their effectiveness in establishing genetic relationships in olive. Theor Appl Genet 107:736–744

    PubMed  CAS  Google Scholar 

  • Bennici A, Anzidei M, Vendramin GG (2004) Genetic stability and uniformity of Foeniculum vulgare Mill. regenerated plants through organogenesis and somatic embryogenesis. Plant Sci 166:221–227

    CAS  Google Scholar 

  • Bernardo Royo J, Itoiz R (2004) Evaluation of the discriminance capacity of RAPD, isoenzymes and morphologic markers in apple (Malus × domestica Borkh.) and the congruence among classifications. Genet Resour Crop Evol 51:153–160

    CAS  Google Scholar 

  • Bhat KV, Bhat SR, Chandel KPS (1992) Survey of isozyme polymorphism for clonal identification in Musa. I. Esterase, acid phosphate and catalase. J Hortic Sci 67:501–507

    CAS  Google Scholar 

  • Bhatia R, Singh KP, Jhang T, Sharma TR (2009) Assessment of clonal fidelity of micropropagated gerbera plants by ISSR markers. Sci Hortic 119:208–211

    CAS  Google Scholar 

  • Bhattacharya S, Dey T, Bandopadhyay T, Ghosh P (2008) Genetic polymorphism analysis of somatic embryo-derived plantlets of Cymbopogon flexuosus through RAPD assay. Plant Biotechnol Rep 2:245–252

    Google Scholar 

  • Biswas MK, Dutt M, Roy UK, Islam R, Hossain M (2009) Development and evaluation of in vitro somaclonal variation in strawberry for improved horticultural traits. Sci Hortic 122:409–416

    CAS  Google Scholar 

  • Bogdanova ED (2003) Epigenetic variation induced in Triticum aestivum L. by nicotinic acid. Russ J Genet 39:1029–1034

    CAS  Google Scholar 

  • Bonner JE, Warner RM, Brewbaker JL (1974) A chemosystematic study of Musa cultivars. HortScience 9:325–328

    CAS  Google Scholar 

  • Bordallo PN, Silva DH, Maria J, Cruz CD, Fontes EP (2004) Somaclonal variation on in vitro callus culture potato cultivars. Hort Brasil 22:300–304

    Google Scholar 

  • Botstein D, White RL, Skolnick M, Davis RW (1980) Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am J Hum Genet 32:314–331

    PubMed  CAS  Google Scholar 

  • Bouharmont J (1994) Application of somaclonal variation and in vitro selection to plant improvement. Acta Hortic 355:213–218

    Google Scholar 

  • Bouman H, De Klerk GJ (2001) Measurement of the extent of somaclonal variation in begonia plants regenerated under various conditions. Comparison of three assays. Theor Appl Genet 102:111–117

    CAS  Google Scholar 

  • Brar DS, Jain SM (1998) Somaclonal variation: mechanism and applications in crop improvement. In: Jain SM, Brar DS, Ahloowalia BS (eds) Somaclonal variation and induced mutations in crop improvement. Kluwer Academic Publishers, Dordrecht, pp 15–37

    Google Scholar 

  • Braun AC (1959) A demonstration of the recovery of the crown-gall tumor cell with the use of complex tumors of single-cell origin. Proc Natl Acad Sci USA 45:932–938

    PubMed  CAS  Google Scholar 

  • Bright S, Jarret V, Nelson R, Creissen G, Karp A, Franklin J, Norbury P, Kueh J, Rognes S, Miflin B (1983) Modification of agronomic traits using in vitro technology. In: Mantell SH, Smith H (eds) Plant biotechnology. Cambridge University Press, New York, pp 251–265

    Google Scholar 

  • Brutovská R, Čellárová E, Doležel J (1998) Cytogenetic variability of in vitro regenerated Hypericum perforatum L. plants and their seed progenies. Plant Sci 133:221–229

    Google Scholar 

  • Bryant JA (1976) The cell cycle. In: Bryant JA (ed) Molecular aspect of gene expression in plants. Academic Press, New York, pp 117–216

    Google Scholar 

  • Caetano-Anollés G, Bassam B (1993) DNA amplification fingerprinting using arbitrary oligonucleotide primers. Appl Biochem Biotechnol 42:189–200

    PubMed  Google Scholar 

  • Campbell B, LeMare S, Piperidis G, Godwin I (2010) IRAP, a retrotransposon-based marker system for the detection of somaclonal variation in barley. Mol Breed. doi:10.1007/s11032-010-9422-4

  • Carsono N, Yoshida T (2007) Variation in spikelet-related traits of rice plants regenerated from mature seed-derived callus culture. Plant Prod Sci 10:86–90

    Google Scholar 

  • Cassells AC, Walsh M (1995) Screening for Sclerotinia resistance in Helianthus tuberosus L. (Jerusalem artichoke) varieties, lines and somaclones, in the field and in vitro. Plant Pathol 44:428–437

    Google Scholar 

  • Cassells AC, Walsh C, Periappuram C (1993) Diplontic selection as a positive factor in determining the fitness of mutants of Dianthus ‘Mystère’ derived from x-irradiation of nodes in in vitro culture. Euphytica 70:167–174

    Google Scholar 

  • Chandrika M, Thoyajaksha, Ravishankar Rai V, Ramachandra Kini K (2008) Assessment of genetic stability of in vitro grown Dictyospermum ovalifolium. Biol Plant 52:735–739

    CAS  Google Scholar 

  • Chandrika M, Ravishankar Rai V, Thoyajaksha (2010) ISSR marker based analysis of micropropagated plantlets of Nothapodytes foetida. Biol Plant 54:561–565

    CAS  Google Scholar 

  • Chen WH, Chen TM, Fu YM, Hsieh RM, Chen WS (1998) Studies on somaclonal variation in Phalaenopsis. Plant Cell Rep 18:7–13

    Google Scholar 

  • Chen J, Henny R, Devanand P, Chao C (2006) AFLP analysis of nephthytis (Syngonium podophyllum Schott) selected from somaclonal variants. Plant Cell Rep 24:743–749

    PubMed  CAS  Google Scholar 

  • Chintapalli P, Moss J, Sharma K, Bhalla J (1997) In vitro culture provides additional variation for pigeonpea. In Vitro Cell Dev Biol Plant 33:30–37

    Google Scholar 

  • Choi H-W, Lemaux PG, Cho M-J (2001) High frequency of cytogenetic aberration in transgenic oat (Avena sativa L.) plants. Plant Sci 160:763–772

    PubMed  Google Scholar 

  • Chomátová S, Turková V, Klozová E (1990) Protein complex and esterase isoenzyme patterns of Allium sativum L. cultivars and clones-regenerants. Biol Plant 32:321–331

    Google Scholar 

  • Chuang SJ, Chen CL, Chen JJ, Chou WY, Sung JM (2009) Detection of somaclonal variation in micro-propagated Echinacea purpurea using AFLP marker. Sci Hortic 120:121–126

    CAS  Google Scholar 

  • Claxton J, Arnold D, Clarkson J, Blakesley D (1998) The regeneration and screening of watercress somaclones for resistance to Spongospora subterranea f. sp. nasturtii and measurement of somaclonal variation. Plant Cell Tissue Organ Cult 52:155–164

    CAS  Google Scholar 

  • Cloutier S, Landry B (1994) Molecular markers applied to plant tissue culture. In Vitro Cell Dev Biol Plant 30:32–39

    Google Scholar 

  • Coggins LW, O’Prey M (1989) DNA tertiary structures formed in vitro by misaligned hybridization of multiple tandem repeat sequences. Nucleic Acids Res 17:7417–7426

    PubMed  CAS  Google Scholar 

  • Cooper C, Crowther T, Smith BM, Isaac S, Collin HA (2006) Assessment of the response of carrot somaclones to Pythium violae, causal agent of cavity spot. Plant Pathol 55:427–432

    Google Scholar 

  • Côte F, Teisson C, Perrier X (2001) Somaclonal variation rate evolution in plant tissue culture: contribution to understanding through a statistical approach. In Vitro Cell Dev Biol Plant 37:539–542

    Google Scholar 

  • D’Amato F (1975) The problem of genetic stability in plant tissue and cell cultures. In: Frankel OH, Hawkes JG (eds) Crop genetic resources for today and tomorrow. Cambridge University Press, New York, pp 333–348

    Google Scholar 

  • D’Amato F (1977) Cytogenetics of differentiation in tissue and cell culture. In: Reinert J, Bajaj YPS (eds) Applied and fundamental aspects of plant cell, tissue and organ culture. Springer, New York, pp 343–464

    Google Scholar 

  • Damasco OP, Godwin ID, Smith MK, Adkins SW (1996) Gibberellic acid detection of dwarf off-types in micropropagated Cavendish bananas. Aust J Exp Agric 36:237–341

    Google Scholar 

  • Damasco OP, Smith MK, Godwin ID, Adkins SW, Smillie RM, Hetherington SE (1997) Micropropagated dwarf off-type Cavendish bananas (Musa spp., AAA) show improved tolerance to suboptimal temperatures. Aust J Agric Res 48:377–384

    Google Scholar 

  • Damasco OP, Smith MK, Adkins SW, Hetherington SE, Godwin ID (1998) Identification and characterisation of dwarf off-types from micropropagated ‘Cavendish’ bananas. Acta Hortic 490:79–84

    Google Scholar 

  • Daub ME (1986) Tissue culture and the selection of resistance to pathogens. Annu Rev Phytopathol 24:159–186

    Google Scholar 

  • Daub ME, Jenns AE (1989) Field and greenhouse analysis of variation for disease resistance in tobacco somaclones. Phytopathology 79:600–605

    Google Scholar 

  • De la Puente R, González A, Ruiz M, Polanco C (2008) Somaclonal variation in rye (Secale cereale L.) analyzed using polymorphic and sequenced AFLP markers. In Vitro Cell Dev Biol Plant 44:419–426

    Google Scholar 

  • Dennis ES, Brettell RIS, Peacock WJ (1987) A tissue culture induced Adh1 null mutant of maize results from a single base change. Mol Gen Genet 210:181–183

    CAS  Google Scholar 

  • Devarumath RM, Nandy S, Rani V, Marimuthu S, Muraleedharan N, Raina SN (2002) RAPD, ISSR and RFLP fingerprints as useful markers to evaluate genetic integrity of micropropagated plants of three diploid and triploid elite tea clones representing Camellia sinensis (China type) and C. assamica ssp. assamica (Assam-India type). Plant Cell Rep 21:166–173

    CAS  Google Scholar 

  • Devarumath RM, Doule RB, Kawar PG, Naikebawane SB, Nerkar YS (2007) Field performance and RAPD analysis to evaluate genetic fidelity of tissue culture raised plants vis-à-vis conventional setts derived plants of sugarcane. Sugar Tech 9:17–22

    CAS  Google Scholar 

  • Do G-S, Seo B-B, Ko J-M, Lee S-H, Pak J-H, Kim I-S, Song S-D (1999) Analysis of somaclonal variation through tissue culture and chromosomal localization of rDNA sites by fluorescent in situ hybridization in wild Allium tuberosum and a regenerated variant. Plant Cell Tissue Organ Cult 57:113–119

    CAS  Google Scholar 

  • Doležel J (1997) Application of flow cytometry for the study of plant genomes. J Appl Genet 38:285–302

    Google Scholar 

  • Doležel J, Bartoš JAN (2005) Plant DNA flow cytometry and estimation of nuclear genome size. Ann Bot 95:99–110

    PubMed  Google Scholar 

  • Doležel J, Valárik M, Vrána J, Lysák MA, Hřibová E, Bartoš J, Gasmanová N, Doleželová M, Šafář J, Šimková H (2004) Molecular cytogenetics and cytometry of bananas (Musa spp.). In: Jain SM, Swennen R (eds) Banana improvement: cellular, molecular biology, and induced mutations. Science Publishers, Inc., Enfield, pp 229–244

    Google Scholar 

  • Dugdale LJ, Mortimer AM, Isaac S, Collin HA (2000) Disease response of carrot and carrot somaclones to Alternaria dauci. Plant Pathol 49:57–67

    CAS  Google Scholar 

  • Eastwood RF, Kollmorgen JF, Hannah M, Williams WM (1994) Reaction of somaclonal variants of wheat to the take-all fungus (Gaeumannomyces graminis var. tritici). Plant Pathol 43:644–650

    Google Scholar 

  • Ehsanpour AA, Madani S, Hoseini M (2007) Detection of somaclonal variation in potato callus induced by UV-C radiation using RAPD-PCR. Gen Appl Plant Physiol 33:3–11

    CAS  Google Scholar 

  • Eizenga GC, Cornelius PL (1991) Comparison of the isozyme variation in tall fescue parents and their somaclones. Euphytica 51:249–256

    Google Scholar 

  • El-Sayed OE, Rizkalla AA, Sabri SRS (2007) In vitro mutagenesis for genetic improvement of salinity tolerance in wheat. Res J Agric Biol Sci 4:377–383

    Google Scholar 

  • 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

    PubMed  CAS  Google Scholar 

  • Evans DA, Sharp WR, Medina-Filho HP (1984) Somaclonal and gametoclonal variation. Am J Bot 71:759–774

    Google Scholar 

  • Fiuk A, Bednarek P, Rybczyński J (2010) Flow cytometry, HPLC-RP, and metAFLP analyses to assess genetic variability in somatic embryo-derived plantlets of Gentiana pannonica Scop. Plant Mol Biol Rep 28:413–420

    CAS  Google Scholar 

  • Fourré JL, Berger P, Niquet L, André P (1997) Somatic embryogenesis and somaclonal variation in Norway spruce: morphogenetic, cytogenetic and molecular approaches. Theor Appl Genet 94:159–169

    Google Scholar 

  • Gao D-Y, Vallejo V, He B, Gai Y-C, Sun L-H (2009) Detection of DNA changes in somaclonal mutants of rice using SSR markers and transposon display. Plant Cell Tissue Organ Cult 98:187–196

    CAS  Google Scholar 

  • Gao X, Yang D, Cao D, Ao M, Sui X, Wang Q, Kimatu J, Wang L (2010) In vitro micropropagation of Freesia hybrida and the assessment of genetic and epigenetic stability in regenerated plantlets. J Plant Growth Regul 29:257–267

    Google Scholar 

  • Gengenbach BG, Umpeck P (1982) Characteristics of T-cytoplasm revertants from tissue culture. Maize Genet Coop News Lett 56:140–142

    Google Scholar 

  • George EF (1993) Plant propagation by tissue culture, part 1: the technology. Exegetics Ltd, London

    Google Scholar 

  • Gesteira AS, Otoni WC, Barros EG, Moreira MA (2002) RAPD-based detection of genomic instability in soybean plants derived from somatic embryogenesis. Plant Breed 121:269–271

    CAS  Google Scholar 

  • Giménez C, de García E, de Enrech NX, Blanca I (2001) Somaclonal variation in banana: cytogenetic and molecular characterization of the somaclonal variant CIEN BTA-03. In Vitro Cell Dev Biol Plant 37:217–222

    Google Scholar 

  • Godwin ID, Sangduen N, Kunanuvatchaidach R, Piperidis G, Adkins SW (1997) RAPD polymorphisms among variant and phenotypically normal rice (Oryza sativa var.indica) somaclonal progenies. Plant Cell Rep 16:320–324

    CAS  Google Scholar 

  • González A, De la Fuente M, De Ron A, Santalla M (2010) Protein markers and seed size variation in common bean segregating populations. Mol Breed 25:723–740

    Google Scholar 

  • Gostimsky SA, Kokaeva ZG, Konovalov FA (2005) Studying plant genome variation using molecular markers. Russ J Genet 41:378–388

    CAS  Google Scholar 

  • Graebe JE (2003) Gibberellin biosynthesis and control. Annu Rev Plant Physiol 38:419–465

    Google Scholar 

  • Guo W, Gong L, Ding Z, Li Y, Li F, Zhao S, Liu B (2006a) Genomic instability in phenotypically normal regenerants of medicinal plant Codonopsis lanceolata Benth. et Hook. f., as revealed by ISSR and RAPD markers. Plant Cell Rep 25:896–906

    PubMed  CAS  Google Scholar 

  • Guo W, Li Y, Gong L, Li F, Dong Y, Liu B (2006b) Efficient micropropagation of Robinia ambigua var. idahoensis (Idaho Locust) and detection of genomic variation by ISSR markers. Plant Cell Tissue Organ Cult 84:343–351

    CAS  Google Scholar 

  • Guo W, Wu R, Zhang Y, Liu X, Wang H, Gong L, Zhang Z, 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 26:1297–1307

    PubMed  CAS  Google Scholar 

  • Hadi MZ, Bridgen MP (1996) Somaclonal variation as a tool to develop pest resistant plants of Torenia fournieri ‘Compacta Blue’. Plant Cell Tissue Organ Cult 46:43–50

    CAS  Google Scholar 

  • Hao Y-J, Deng X-X (2002) Occurrence of chromosomal variations and plant regeneration from long-term-cultured citrus callus. In Vitro Cell Dev Biol Plant 38:472–476

    Google Scholar 

  • Hartmann C, Henry Y, Buyser J, Aubry C, Rode A (1989) Identification of new mitochondrial genome organizations in wheat plants regenerated from somatic tissue cultures. Theor Appl Genet 77:169–175

    Google Scholar 

  • Hashim ZN, Campbell WF, Carman JG (1990) Morphological analyses of spring wheat (CIMMYT cv. PCYT-10) somaclones. Plant Cell Tissue Organ Cult 20:95–99

    Google Scholar 

  • Hashmi G, Huettel R, Meyer R, Krusberg L, Hammerschlag F (1997) RAPD analysis of somaclonal variants derived from embryo callus cultures of peach. Plant Cell Rep 16:624–627

    CAS  Google Scholar 

  • Hautea DM, Molina GC, Balatero CH, Coronado NB, Perez EB, Alvarez MTH, Canama AO, Akuba RH, Quilloy RB, Frankie RB, Caspillo CS (2004) Analysis of induced mutants of Philippine bananas with molecular markers. In: Jain SM, Swennen R (eds) Banana improvement: cellular, molecular biology, and induced mutations. Science Publishers, Inc., Enfield, pp 45–58

    Google Scholar 

  • Havey MJ, Muehlbauer FJ (1989) Linkages between restriction fragment length, isozyme, and morphological markers in lentil. Theor Appl Genet 77:395–401

    CAS  Google Scholar 

  • Heinz DJ, Mee GWP (1971) Morphologic, cytogenetic, and enzymatic variation in Saccharum species hybrid clones derived from callus tissue. Am J Bot 58:257–262

    Google Scholar 

  • Henry Y, Marcotte JL, de Buyser J (1996) The effect of aneuploidy on karyotype abnormalities in wheat plants regenerated from short- and long-term somatic embryogenesis. Plant Sci 114:101–109

    CAS  Google Scholar 

  • Hirochika H (1993) Activation of tobacco transposons during tissue culture. EMBO J 12:2521–2528

    PubMed  CAS  Google Scholar 

  • Hornero J, Martínez I, Celestino C, Gallego FJ, Torres V, Toribio M (2001) Early checking of genetic stability of cork oak somatic embryos by AFLP analysis. Int J Plant Sci 162:827–833

    CAS  Google Scholar 

  • Hossain AM, Konisho K, Minami M, Nemoto K (2003) Somaclonal variation of regenerated plants in chili pepper (Capsicum annuum L.). Euphytica 130:233–239

    Google Scholar 

  • Hsu T-W, Tsai W-C, Wang D-P, Lin S, Hsiao Y-Y, Chen W-H, Chen H-H (2008) Differential gene expression analysis by cDNA-AFLP between flower buds of Phalaenopsis Hsiang Fei cv. H. F. and its somaclonal variant. Plant Sci 175:415–422

    CAS  Google Scholar 

  • Hunter RL, Merkert CL (1957) Histochemical demonstration of enzymes separated by zone electrophoresis in starch gels. Science 125:1294–1295

    PubMed  CAS  Google Scholar 

  • Israeli Y, Reuveni O, Lahav E (1991) Qualitative aspects of somaclonal variations in banana propagated by in vitro techniques. Sci Hortic 48:71–88

    Google Scholar 

  • Israeli Y, Lahav E, Reuveni O (1995) In vitro culture of bananas. In: Gowen S (ed) Bananas and plantians. Chapman and Hall, London, pp 147–178

    Google Scholar 

  • Israeli Y, Ben-Bassat D, Reuveni O (1996) Selection of stable banana clones which do not produce dwarf somaclonal variants during in vitro culture. Sci Hortic 67:197–205

    Google Scholar 

  • Jain SM (1993) Somaclonal variation in Begonia × elatior and Saintpaulia ionantha L. Sci Hortic 54:221–231

    Google Scholar 

  • Jain SM (1997) Micropropagation of selected somaclones of Begonia and Saintpaulia. J Biosci 22:582–592

    Google Scholar 

  • Jain SM (2001) Tissue culture-derived variation in crop improvement. Euphytica 118:153–166

    CAS  Google Scholar 

  • Jain SM (2006) Mutation-assisted breeding for improving ornamental plants. Acta Hortic 714:85–98

    Google Scholar 

  • Jaligot E, Rival A, Beulé T, Dussert S, Verdeil JL (2000) Somaclonal variation in oil palm (Elaeis guineensis Jacq.): the DNA methylation hypothesis. Plant Cell Rep 19:684–690

    CAS  Google Scholar 

  • Jaligot E, Beulé T, Rival A (2002) Methylation-sensitive RFLPs: characterisation of two oil palm markers showing somaclonal variation-associated polymorphism. Theor Appl Genet 104:1263–1269

    PubMed  CAS  Google Scholar 

  • James AC, Peraza-Echeverria S, Herrera-Valencia VA, Martinez O (2004) Application of the amplified fragment length polymorphism (AFLP) and the methylation-sensitive amplification polymorphism (MSAP) techniques for the detection of DNA polymorphism and changes in DNA methylation in micropropagated bananas. In: Jain SM, Swennen R (eds) Banana improvement: cellular, molecular biology, and induced mutations. Science Publishers, Inc., Enfield, pp 287–306

    Google Scholar 

  • Jarret RL (1986) Biochemical/genetic markers and their uses in the genus Musa. In: Persley GJ, Langhe EA (eds) Banana and plantian strategies, Cairns, Australia. Australia Centre for International Agricultural Research (ACIAR) proceeding no. 21, Canberra

  • Jarret RL, Gawel N (1995) Molecular markers, genetic diversity and systematics in Musa. In: Gowen S (ed) Bananas and plantians. Chapman and Hall, London, pp 66–83

    Google Scholar 

  • Jarret RL, Litz RE (1986) Isozymes as genetic markers in bananas and plantains. Euphytica 35:539–549

    CAS  Google Scholar 

  • Jin S, Mushke R, Zhu H, Tu L, Lin Z, Zhang Y, Zhang X (2008) Detection of somaclonal variation of cotton (Gossypium hirsutum) using cytogenetics, flow cytometry and molecular markers. Plant Cell Rep 27:1303–1316

    PubMed  CAS  Google Scholar 

  • Jones CJ, Edwards KJ, Castaglione S, Winfield MO, Sala F, van de Wiel C, Bredemeijer G, Vosman B, Matthes M, Daly A, Brettschneider R, Bettini P, Buiatti M, Maestri E, Malcevschi A, Marmiroli N, Aert R, Volckaert G, Rueda J, Linacero R, Vazquez A, Karp A (1997) Reproducibility testing of RAPD, AFLP and SSR markers in plants by a network of European laboratories. Mol Breeding 3:381–390

    CAS  Google Scholar 

  • Joshi RK, Rao GJN (2009) Somaclonal variation in submergence tolerant rice cultivars and induced diversity evaluation by PCR markers. Int J Genet Mol Biol 1:80–88

    CAS  Google Scholar 

  • Kaeppler S, Phillips R (1993) DNA methylation and tissue culture-induced variation in plants. In Vitro Cell Dev Biol Plant 29:125–130

    Google Scholar 

  • Kaeppler SM, Kaeppler HF, Rhee Y (2000) Epigenetic aspects of somaclonal variation in plants. Plant Mol Biol 43:179–188

    PubMed  CAS  Google Scholar 

  • Kanwar K, Bindiya K (2003) Random amplified polymorphic DNA (RAPDs) markers for genetic analysis in micropropagated plants of Robinia pseudoacacia L. Euphytica 132:41–47

    CAS  Google Scholar 

  • Kaplan DR (1992) The relationship of cells to organisms in plants: problem and implications of an organismal perspective. Int J Plant Sci 153:S28–S37

    Google Scholar 

  • Karp A (1994) Origins, causes and uses of variation in plant tissue cultures. In: Vasil IK, Thorpe TA (eds) Plant cell and tissue culture. Kluwer Academic Publishers, Dordrecht, pp 139–152

    Google Scholar 

  • Karp A (1995) Somaclonal variation as a tool for crop improvement. Euphytica 85:295–302

    Google Scholar 

  • Karp A, Seberg OLE, Buiatti M (1996) Molecular techniques in the assessment of botanical diversity. Ann Bot 78:143–149

    CAS  Google Scholar 

  • Kawiak A, Łojkowska E (2004) Application of RAPD in the determination of genetic fidelity in micropropagated Drosera plantlets. In Vitro Cell Dev Biol Plant 40:592–595

    CAS  Google Scholar 

  • Khlestkina E, Röder M, Pshenichnikova T, Börner A (2010) Functional diversity at the Rc (red coleoptile) gene in bread wheat. Mol Breeding 25:125–132

    CAS  Google Scholar 

  • Kole P, Chawla H (1993) Variation of Helminthosporium resistance and biochemical and cytological characteristics in somaclonal generations of barley. Biol Plant 35:81–86

    CAS  Google Scholar 

  • Krikorian AD, Irizarry H, Cronauer-Mitra SS, Rivera E (1993) Clonal fidelity and variation in plantain (Musa AAB) regenerated from vegetative stem and floral axis tips in vitro. Ann Bot 71:519–535

    Google Scholar 

  • Krikorian AD, Irizarry H, Goenaga R, Scott ME, Lockhart BEL (1999) Stability in plant and bunch traits of a ‘French-type’ dwarf plantain micropropagated from the floral axis tip and five lateral corm tips of a single mother plant: good news on the tissue culture and bad news on banana streak virus. Sci Hortic 81:159–177

    Google Scholar 

  • Kumar M, Barker R, Reed B (1999) Morphological and molecular analysis of genetic stability in micropropagated Fragaria × ananassa cv. pocahontas. In Vitro Cell Dev Biol Plant 35:254–258

    Google Scholar 

  • Kunitake H, Koreeda K, Mii M (1995) Morphological and cytological characteristics of protoplast-derived plants of statice (Limonium perezii Hubbard). Sci Hortic 60:305–312

    Google Scholar 

  • Kuznetsova OI, Ash OA, Hartina GA, Gostimskij SA (2005) RAPD and ISSR analyses of regenerated pea Pisum sativum L. plants. Russ J Genet 41:60–65

    CAS  Google Scholar 

  • Ładyżyński M, Burza W, Malepszy S (2002) Relationship between somaclonal variation and type of culture in cucumber. Euphytica 125:349–356

    Google Scholar 

  • Lamseejan S, Jompuk P, Wongpiyasatid A, Deeseepan S, Kwanthammachart P (2000) Gamma-rays induced morphological changes in chrysanthemum (Chrysanthemum morifolium). Kasetsart J (Nat Sci) 34:417–422

    Google Scholar 

  • Landry BS, Kesseli R, Leung H, Michelmore RW (1987) Comparison of restriction endonucleases and sources of probes for their efficiency in detecting restriction fragment length polymorphisms in lettuce (Lactuca sativa L.). Theor Appl Genet 74:646–653

    CAS  Google Scholar 

  • Larkin PJ (1998) Introduction. In: Jain SM, Brar DS, Ahloowalia BS (eds) Somaclonal variation and induced mutations in crop improvement. Kluwer Academic Publishers, Dordrecht, pp 3–13

    Google Scholar 

  • Larkin P, Scowcroft W (1981) Somaclonal variation—a novel source of variability from cell cultures for plant improvement. Theor Appl Genet 60:197–214

    Google Scholar 

  • Larkin PJ, Ryan SA, Brettell RIS, Scowcroft WR (1984) Heritable somaclonal variation in wheat. Theor Appl Genet 67:443–455

    CAS  Google Scholar 

  • Lee M, Phillips RL (1988) The Chromosomal basis of somaclonal variation. Annu Rev Plant Physiol Plant Mol Biol 39:413–437

    Google Scholar 

  • Lee S-H, Shon Y, Kim C, Chun H, Cheong Y, Kim Z, Choe Z, Choi Y, Cho M (1999) Variations in the morphology of rice plants regenerated from protoplasts using different culture procedures. Plant Cell Tissue Organ Cult 57:179–187

    Google Scholar 

  • Lee YI, Lee IS, Lim YP (2002) Variation in sweetpotato regenerates from gamma-ray irridiated embryogenic callus. J Plant Biotechnol 4:163–170

    Google Scholar 

  • Letham D, Gollnow B (1985) Regulators of cell division in plant tissues. XXX. Cytokinin metabolism in relation to radish cotyledon expansion and senescence. J Plant Growth Regul 4:129–145

    CAS  Google Scholar 

  • Levinson G, Gutman GA (1987) Slipped-strand mispairing: a major mechanism for DNA sequence evolution. Mol Biol Evol 4:203–221

    PubMed  CAS  Google Scholar 

  • Li Y-C, Korol AB, Fahima T, Beiles A, Nevo E (2002) Microsatellites: genomic distribution, putative functions and mutational mechanisms: a review. Mol Ecol 11:2453–2465

    PubMed  CAS  Google Scholar 

  • Li X, Yu X, Wang N, Feng Q, Dong Z, Liu L, Shen J, Liu B (2007) Genetic and epigenetic instabilities induced by tissue culture in wild barley (Hordeum brevisubulatum (Trin.) Link). Plant Cell Tissue Organ Cult 90:153–168

    Google Scholar 

  • Litt M, Luty JA (1989) A hypervariable microsatellite revealed by in vitro amplification of a dinucleotide repeat within the cardiac muscle actin gene. Am J Hum Genet 44:397–401

    PubMed  CAS  Google Scholar 

  • Long SP, Humphries S, Falkowski PG (1994) Photoinhibition of photosynthesis in nature. Annu Rev Plant Physiol Plant Mol Biol 45:633–662

    CAS  Google Scholar 

  • LoSchiavo F, Pitto L, Giuliano G, Torti G, Nuti-Ronchi V, Marazziti D, Vergara R, Orselli S, Terzi M (1989) DNA methylation of embryogenic carrot cell cultures and its variations as caused by mutation, differentiation, hormones and hypomethylating drugs. Theor Appl Genet 77:325–331

    CAS  Google Scholar 

  • Loureiro J, Pinto G, Lopes T, Doležel J, Santos C (2005) Assessment of ploidy stability of the somatic embryogenesis process in Quercus suber L. using flow cytometry. Planta 221:815–822

    PubMed  CAS  Google Scholar 

  • Loureiro J, Capelo A, Brito G, Rodriguez E, Silva S, Pinto G, Santos C (2007) Micropropagation of Juniperus phoenicea from adult plant explants and analysis of ploidy stability using flow cytometry. Biol Plant 51:7–14

    CAS  Google Scholar 

  • Maddock SE, Semple JT (1986) Field assessment of somaclonal variation in wheat. J Exp Bot 37:1065–1078

    Google Scholar 

  • Mandal A, Maiti A, Chowdhury B, Elanchezhian R (2001) Isoenzyme markers in varietal identification of banana. In Vitro Cell Dev Biol Plant 37:599–604

    CAS  Google Scholar 

  • Martin K, Pachathundikandi S, Zhang C, Slater A, Madassery J (2006) RAPD analysis of a variant of banana (Musa sp.) cv. grande naine and its propagation via shoot tip culture. In Vitro Cell Dev Biol Plant 42:188–192

    CAS  Google Scholar 

  • Marum L, Rocheta M, Maroco J, Oliveira M, Miguel C (2009) Analysis of genetic stability at SSR loci during somatic embryogenesis in maritime pine (Pinus pinaster). Plant Cell Rep 28:673–682

    PubMed  CAS  Google Scholar 

  • Matheka JM, Magiri E, Rasha AO, Machuka J (2008) In vitro selection and characterization of drought tolerant somaclones of tropical maize (Zea mays L.). Biotechnology 7:641–650

    CAS  Google Scholar 

  • McClintock B (1950) The origin and behavior of mutable loci in maize. Proc Natl Acad Sci USA 36:344–355

    PubMed  CAS  Google Scholar 

  • McPheeters K, Skirvin RM (1983) Histogenic layer manipulation in chimeral ‘Thornless Evergreen’ trailing blackberry. Euphytica 32:351–360

    Google Scholar 

  • Mehta YR, Angra DC (2000) Somaclonal variation for disease resistance in wheat and production of dihaploids through wheat × maize hybrids. Genet Mol Biol 23:617–622

    Google Scholar 

  • Miñano HS, González-Benito ME, Martín C (2009) Molecular characterization and analysis of somaclonal variation in chrysanthemum cultivars using RAPD markers. Sci Hortic 122:238–243

    Google Scholar 

  • Modgil M, Mahajan K, Chakrabarti SK, Sharma DR, Sobti RC (2005) Molecular analysis of genetic stability in micropropagated apple rootstock MM106. Sci Hortic 104:151–160

    CAS  Google Scholar 

  • Mohanty S, Panda M, Subudhi E, Nayak S (2008) Plant regeneration from callus culture of Curcuma aromatica and in vitro detection of somaclonal variation through cytophotometric analysis. Biol Plant 52:783–786

    Google Scholar 

  • Mohmand AS, Nabors MW (1990) Somaclonal variant plants of wheat derived from mature embryo explants of three genotypes. Plant Cell Rep 8:558–560

    Google Scholar 

  • Mondal TK, Chand PK (2002) Detection of genetic variation among micropropagated tea [Camellia sinensis (L.) O. Kuntze] by RAPD analysis. In Vitro Cell Dev Biol Plant 38:296–299

    CAS  Google Scholar 

  • Mujib A (2005) Colchicine induced morphological variants in pineapple. Plant Tissue Cult Biotechnol 15:127–133

    Google Scholar 

  • Mujib A, Banerjee S, Dev Ghosh P (2007) Callus induction, somatic embryogenesis and chromosomal instability in tissue culture-raised hippeastrum (Hippeastrum hybridum cv. United Nations). Propag Ornam Plants 7:169–174

    Google Scholar 

  • Mulcahy DL, Cresti M, Sansavini S, Douglas GC, Linskens HF, Mulcahy GB, Vignani R, Pancaldi M (1993) The use of random amplified polymorphic DNAs to fingerprint apple genotypes. Sci Hortic 54:89–96

    CAS  Google Scholar 

  • Müller E, Brown PTH, Hartke S, Lörz H (1990) DNA variation in tissue-culture-derived rice plants. Theor Appl Genet 80:673–679

    Google Scholar 

  • Munthali MT, Newbury HJ, Ford-Lloyd BV (1996) The detection of somaclonal variants of beet using RAPD. Plant Cell Rep 15:474–478

    CAS  Google Scholar 

  • Nakano M, Nomizu T, Mizunashi K, Suzuki M, Mori S, Kuwayama S, Hayashi M, Umehara H, Oka E, Kobayashi H, Asano M, Sugawara S, Takagi H, Saito H, Nakata M, Godo T, Hara Y, Amano J (2006) Somaclonal variation in Tricyrtis hirta plants regenerated from 1-year-old embryogenic callus cultures. Sci Hortic 110:366–371

    Google Scholar 

  • Nayak S, Debata BK, Srivastava VK, Sangwan NS (2003) Evaluation of agronomically useful somaclonal variants in Jamrosa (a hybrid Cymbopogon) and detection of genetic changes through RAPD. Plant Sci 164:1029–1035

    CAS  Google Scholar 

  • Nehra NS, Kartha KK, Stushnott C, Giles KL (1992) The influence of plant growth regulator concentrations and callus age on somaclonal variation in callus culture regenerants of strawberry. Plant Cell Tissue Organ Cult 29:257–268

    CAS  Google Scholar 

  • Ngezahayo F, Dong Y, Liu B (2007) Somaclonal variation at the nucleotide sequence level in rice (Oryza sativa L.) as revealed by RAPD and ISSR markers, and by pairwise sequence analysis. J Appl Genet 48:329–336

    PubMed  Google Scholar 

  • Niizeki M, Ishikawa R, Saito K (1990) Variation in a single protoplast- and seed-derived population of Lotus corniculatus L. Theor Appl Genet 80:732–736

    Google Scholar 

  • Noro Y, Takano-Shimizu T, Syono K, Kishima Y, Sano Y (2007) Genetic variations in rice in vitro cultures at the EPSPsRPS20 region. Theor Appl Genet 114:705–711

    PubMed  CAS  Google Scholar 

  • Nwauzoma AB, Tenkouano A, Crouch JH, Pillay M, Vuylsteke D, Daniel Kalio LA (2002) Yield and disease resistance of plantain (Musa spp., AAB group) somaclones in Nigeria. Euphytica 123:323–331

    Google Scholar 

  • Olmos S, Lavia G, Di Renzo M, Mroginski L, Echenique V (2002) Genetic analysis of variation in micropropagated plants of Melia azedarach L. In Vitro Cell Dev Biol Plant 38:617–622

    CAS  Google Scholar 

  • Oono K (1985) Putative homozygous mutations in regenerated plants of rice. Mol Gen Genet 198:377–384

    Google Scholar 

  • Orbović V, Ćalović M, Viloria Z, Nielsen B, Gmitter F, Castle W, Grosser J (2008) Analysis of genetic variability in various tissue culture-derived lemon plant populations using RAPD and flow cytometry. Euphytica 161:329–335

    Google Scholar 

  • Palombi MA, Lombardo B, Caboni E (2007) In vitro regeneration of wild pear (Pyrus pyraster Burgsd) clones tolerant to Fe-chlorosis and somaclonal variation analysis by RAPD markers. Plant Cell Rep 26:489–496

    PubMed  CAS  Google Scholar 

  • Pardha Saradhi P, Alia (1995) Production and selection of somaclonal variants of Leucaena leucocephala with high carbon dioxide assimilating potential. Energ Convers Manage 36:759–762

    Google Scholar 

  • Peraza-Echeverria S, Herrera-Valencia VA, Kay A-J (2001) Detection of DNA methylation changes in micropropagated banana plants using methylation-sensitive amplification polymorphism (MSAP). Plant Sci 161:359–367

    PubMed  CAS  Google Scholar 

  • Peschke VM, Phillips RL (1992) Genetic implications of somaclonal variation in plants. Adv Genet 30:41–75

    CAS  Google Scholar 

  • Peschke VM, Phillips RL, Gengenbach BG (1987) Discovery of transposable element activity among progeny of tissue culture-derived maize plants. Science 238:804–807

    PubMed  CAS  Google Scholar 

  • Petolino JF, Roberts JL, Jayakumar P (2003) Plant cell culture: a critical tool for agricultural biotechnology. In: Vinci VA, Parekh SR (eds) Handbook of industrial cell culture: mammalian, microbial and plant cells. Humana Press, New Jersey, pp 243–258

    Google Scholar 

  • Peyvandi M, Noormohammadi Z, Banihashemi O, Farahani F, Majd A, Hosseini-Mazinani M, Sheidai M (2009) Molecular analysis of genetic stability in long-term micropropagated shoots of Olea europaea L. (cv. Dezful). Asian J Plant Sci 8:146–152

    CAS  Google Scholar 

  • Pfosser M, Heberle-Bors E, Amon A, Lelley T (1995) Evaluation of sensitivity of flow cytometry in detecting aneuploidy in wheat using disomic and ditelosomic wheat-rye addition lines. Cytometry 21:387–393

    PubMed  CAS  Google Scholar 

  • Phinney B (1985) Gibberellin A1 dwarfism and shoot elongation in higher plants. Biol Plant 27:172–179

    CAS  Google Scholar 

  • Pierik RLM (1987) In vitro culture of higher plants. Kluwer Academic Publishers, Dordrecht

    Google Scholar 

  • Pietsch G, Anderson N (2007) Epigenetic variation in tissue cultured Gaura lindheimeri. Plant Cell Tissue Organ Cult 89:91–103

    Google Scholar 

  • Piola F, Rohr R, Heizmann P (1999) Rapid detection of genetic variation within and among in vitro propagated cedar (Cedrus libani Loudon) clones. Plant Sci 141:159–163

    CAS  Google Scholar 

  • Plader W, Malepszy S, Burza W, Rusinowski Z (1998) The relationship between the regeneration system and genetic variability in the cucumber (Cucumis sativus L.). Euphytica 103:9–15

    Google Scholar 

  • Podwyszyńska M (2005) Somaclonal variation in micropropagated tulips based on phenotype observation. J Fruit Ornam Plant Res 13:109–122

    Google Scholar 

  • Polanco C, Ruiz ML (2002) AFLP analysis of somaclonal variation in Arabidopsis thaliana regenerated plants. Plant Sci 162:817–824

    CAS  Google Scholar 

  • Pontaroli AC, Camadro EL (2005) Somaclonal variation in Asparagus officinalis plants regenerated by organogenesis from long-term callus cultures. Genet Mol Biol 28:423–430

    Google Scholar 

  • Popescu AN, Isac VS, Coman MS MSR (1997) Somaclonal variation in plants regenerated by organogenesis from callus cultures of strawberry (Fragaria × ananassa). Acta Hortic 439:89–96

    Google Scholar 

  • Prado M, Rodriguez E, Rey L, González M, Santos C, Rey M (2010) Detection of somaclonal variants in somatic embryogenesis-regenerated plants of Vitis vinifera by flow cytometry and microsatellite markers. Plant Cell Tissue Organ Cult 103:49–59

    Google Scholar 

  • Predieri S (2001) Mutation induction and tissue culture in improving fruits. Plant Cell Tissue Organ Cult 64:185–210

    CAS  Google Scholar 

  • Radhakrishnan R, Ranjitha Kumari B (2008) Morphological and agronomic evaluation of tissue culture derived Indian soybean plants. Acta Agric Slov 91:391–396

    Google Scholar 

  • Rady M (2006) In vitro culture of Gypsophila paniculata L. and random amplified polymorphic DNA analysis of the propagated plants. Biol Plant 50:507–513

    CAS  Google Scholar 

  • Rahman MH, Rajora OP (2001) Microsatellite DNA somaclonal variation in micropropagated trembling aspen (Populus tremuloides). Plant Cell Rep 20:531–536

    CAS  Google Scholar 

  • Raimondi JP, Masuelli RW, Camadro EL (2001) Assessment of somaclonal variation in asparagus by RAPD fingerprinting and cytogenetic analyses. Sci Hortic 90:19–29

    Google Scholar 

  • Rani V, Raina S (2000) Genetic fidelity of organized meristem-derived micropropagated plants: a critical reappraisal. In Vitro Cell Dev Biol Plant 36:319–330

    CAS  Google Scholar 

  • Rani V, Parida A, Raina S (1995) Random amplified polymorphic DNA (RAPD) markers for genetic analysis in micropropagated plants of Populus deltoides Marsh. Plant Cell Rep 14:459–462

    CAS  Google Scholar 

  • Rao IM, Roca WM, Ayarza MA, Tabares E, Garcia R (1992) Somaclonal variation in plant adaptation to acid soil in the tropical forage legume Stylosanthes guianensis. Plant Soil 146:21–30

    CAS  Google Scholar 

  • Rasheed S, Tahira F, Khurram B, Tayyab H, Shiekh R (2003) Agronomical and physiochemical characterization of somaclonal variants in Indica basmati rice. Pak J Biol Sci 6:844–848

    Google Scholar 

  • Ray T, Dutta I, Saha P, Das S, Roy SC (2006) Genetic stability of three economically important micropropagated banana (Musa spp.) cultivars of lower Indo-Gangetic plains, as assessed by RAPD and ISSR markers. Plant Cell Tissue Organ Cult 85:11–21

    CAS  Google Scholar 

  • Reuveni O, Israeli Y (1990) Measures to reduce somaclonal variation in in vitro propagated bananas. Acta Hortic 275:307–313

    Google Scholar 

  • Reuveni O, Israeli Y, Golubowicz S (1993) Factors influencing the occurrence of somaclonal variations in micropropagated bananas. Acta Hortic 336:357–364

    Google Scholar 

  • Rietveld RC, Hasegawa PM, Bressan RA (1991) Somaclonal variation in tuber disc-derived populations of potato. Theor Appl Genet 82:430–440

    Google Scholar 

  • Rietveld RC, Bressan RA, Hasegawa PM (1993) Somaclonal variation in tuber disc-derived populations of potato. II. Differential effect of genotype. Theor Appl Genet 87:305–313

    Google Scholar 

  • Rivera FN (1983) Protein and isoenzyme banding patterns among Philippine cooking bananas and their wild parents (Musa species). Paradisiaca 6:7–12

    Google Scholar 

  • Rodrigues PHV (2008) Somaclonal variation in micropropagated Heliconia bihai cv. Lobster Claw I plantlets (Heliconiaceae). Sci Agric 65:681–684

    CAS  Google Scholar 

  • Rodrigues PHV, Tulmann Neto A, Cassieri Neto P, Mendes BMJ (1998) Influence of the number of subcultures on somoclonal variation in micropropagated Nanico (Musa spp., AAA group). Acta Hortic 490:469–473

    Google Scholar 

  • Rodríguez López C, Bravo H, Wetten A, Wilkinson M (2010) Detection of somaclonal variation during cocoa somatic embryogenesis characterised using cleaved amplified polymorphic sequence and the new freeware Artbio. Mol Breeding 25:501–516

    Google Scholar 

  • Rodríguez NV, Kowalski B, Rodríguez LG, Caraballoso IB, Suárez MA, Pérez PO, Quintana CR, González N, Ramos RQ (2007) In vitro and ex vitro selection of potato plantlets for resistance to early blight. J Phytopathol 155:582–586

    Google Scholar 

  • Roels S, Escalona M, Cejas I, Noceda C, Rodriguez R, Canal MJ, Sandoval J, Debergh P (2005) Optimization of plantain (Musa AAB) micropropagation by temporary immersion system. Plant Cell Tissue Organ Cult 82:57–66

    CAS  Google Scholar 

  • Roux NS (2004) Mutation induction in Musa—review. In: Jain SM, Swennen R (eds) Banana improvement: cellular, molecular biology, and induced mutation. Science Publishers, Inc., Enfield, pp 23–32

    Google Scholar 

  • Roy B, Mandal A (2005) Towards development of Al-toxicity tolerant lines in indica rice by exploiting somaclonal variation. Euphytica 145:221–227

    CAS  Google Scholar 

  • Ryan SA, Larkin PJ, Ellison FW (1987) Somaclonal variation in some agronomic and quality characters in wheat. Theor Appl Genet 74:77–82

    Google Scholar 

  • Sahijram L, Soneji J, Bollamma K (2003) Analyzing somaclonal variation in micropropagated bananas (Musa spp.). In Vitro Cell Dev Biol Plant 39:551–556

    Google Scholar 

  • Sanchez-Teyer LF, Quiroz-Figueroa F, Loyola-Vargas V, Infante D (2003) Culture-induced variation in plants of Coffea arabica cv. Caturra rojo, regenerated by direct and indirect somatic embryogenesis. Mol Biotechnol 23:107–115

    PubMed  CAS  Google Scholar 

  • Sandoval J, Kerbellec F, Côte F, Doumas P (1995) Distribution of endogenous gibberellins in dwarf and giant off-types banana (Musa AAA cv. ‘Grand nain’) plants from in vitro propagation. Plant Growth Regul 17:219–224

    CAS  Google Scholar 

  • Saxena G, Banerjee S, Rahman L, Mallavarapu GR, Sharma S, Kumar S (2000) An efficient in vitro procedure for micropropagation and generation of somaclones of rose scented Pelargonium. Plant Sci 155:133–140

    PubMed  CAS  Google Scholar 

  • Schlötterer C, Tautz D (1992) Slippage synthesis of simple sequence DNA. Nucleic Acids Res 20:211–215

    PubMed  Google Scholar 

  • Scowcroft WR (1984) Genetic variability in tissue culture: impact on germplasm conservation and utilization. International board for plant genetic resources (IBPGR) technical report AGPGIBPGR/84/152, Rome

  • Senevirathna AMWK, Stirling CM, Rodrigo VHL (2008) Acclimation of photosynthesis and growth of banana (Musa sp.) to natural shade in the humid tropics. Exp Agric 44:301–312

    CAS  Google Scholar 

  • Sengar A, Thind K, Kumar B, Pallavi M, Gosal S (2009) In vitro selection at cellular level for red rot resistance in sugarcane (Saccharum sp.). Plant Growth Regul 58:201–209

    CAS  Google Scholar 

  • Shah SH, Wainwright SJ, Merret MJ (2003) Regeneration and somaclonal variation in Medicago sativa and Medicago media. Pak J Biol Sci 6:816–820

    Google Scholar 

  • Sharma S, Bryan G, Winfield M, Millam S (2007) Stability of potato (Solanum tuberosum L.) plants regenerated via somatic embryos, axillary bud proliferated shoots, microtubers and true potato seeds: a comparative phenotypic, cytogenetic and molecular assessment. Planta 226:1449–1458

    PubMed  CAS  Google Scholar 

  • Shchukin A, Ben-Bassat D, Israeli Y (1997) Plant regenration via somatic embryogenesis in Grand Naine banana and its effect on somoclonal variation. Acta Hortic 447:317–318

    Google Scholar 

  • Sheidai M, Aminpoor H, Noormohammadi Z, Farahani F (2008) RAPD analysis of somaclonal variation in banana (Musa acuminate L.) cultivar Valery. Acta Biol Szeged 52:307–311

    Google Scholar 

  • Shen X, Chen J, Kane M, Henny R (2007) Assessment of somaclonal variation in Dieffenbachia plants regenerated through indirect shoot organogenesis. Plant Cell Tissue Organ Cult 91:21–27

    Google Scholar 

  • Shepherd K, Dos Santos JA (1996) Mitotic instability in banana varieties. I. Plants from callus and shoot tip cultures. Fruits 51:5–11

    Google Scholar 

  • Shushu DD, Comar JM, Abegaz BM (2009) Somaclonal variation in in vitro regenerated Ledebouria graminifolia (hyacinthaceae), an indigenous bulb in Botswana and its potential exploitation as an ornamental plant. J Biol Sci 9:152–158

    CAS  Google Scholar 

  • Simmons MP, Zhang L-B, Webb CT, Müller K (2007) A penalty of using anonymous dominant markers (AFLPs, ISSRs, and RAPDs) for phylogenetic inference. Mol Phylogenet Evol 42:528–542

    PubMed  CAS  Google Scholar 

  • Singh A, Lai M, Singh M, Lai K, Singh S (2000) Variations for red rot resistance in somaclones of sugarcane. Sugar Tech 2:56–58

    Google Scholar 

  • Singh M, Chaudhary K, Singal H, Magill C, Boora K (2006) Identification and characterization of RAPD and SCAR markers linked to anthracnose resistance gene in sorghum [Sorghum bicolor (L.) Moench]. Euphytica 149:179–187

    CAS  Google Scholar 

  • Singh G, Sandhu S, Meeta M, Singh K, Gill R, Gosal S (2008a) In vitro induction and characterization of somaclonal variation for red rot and other agronomic traits in sugarcane. Euphytica 160:35–47

    Google Scholar 

  • Singh R, Srivastava S, Singh S, Sharma M, Mohopatra T, Singh N (2008b) Identification of new microsatellite DNA markers for sugar and related traits in sugarcane. Sugar Tech 10:327–333

    CAS  Google Scholar 

  • Siragusa M, Carra A, Salvia L, Puglia A, De Pasquale F, Carimi F (2007) Genetic instability in calamondin (Citrus madurensis Lour.) plants derived from somatic embryogenesis induced by diphenylurea derivatives. Plant Cell Rep 26:1289–1296

    PubMed  CAS  Google Scholar 

  • Sivanesan I (2007) Shoot regeneration and somaclonal variation from leaf callus cultures of Plumbago zeylanica Linn. Asian J Plant Sci 6:83–86

    CAS  Google Scholar 

  • Skirvin RM (1978) Natural and induced variation in tissue culture. Euphytica 27:241–266

    Google Scholar 

  • Skirvin RM, Norton M, McPheeters KD (1993) Somaclonal variation: has it proved useful for plant improvement? Acta Hortic 336:333–340

    Google Scholar 

  • Skirvin RM, McPheeters KD, Norton M (1994) Sources and frequency of somaclonal variation. HortScience 29:1232–1237

    Google Scholar 

  • Skoog F, Miller CO (1957) Chemical regulation of growth and organ formation in plant tissues cultured in vitro. Symp Soc Exp Biol 54:118–130

    Google Scholar 

  • Smýkal P, Valledor L, Rodríguez R, Griga M (2007) Assessment of genetic and epigenetic stability in long-term in vitro shoot culture of pea (Pisum sativum L.). Plant Cell Rep 26:1985–1998

    PubMed  Google Scholar 

  • Squirrell J, Hollingsworth PM, Woodhead M, Russell J, Lowe AJ, Gibby M, Powell W (2003) How much effort is required to isolate nuclear microsatellites from plants? Mol Ecol 12:1339–1348

    PubMed  CAS  Google Scholar 

  • Srivastava S, Gupta PS, Srivastava BL (2005) Genetic relationship and clustering of some sugarcane genotypes based on esterase, peroxidase and amylase isozyme polymorphism. Cytologia 70:355–363

    CAS  Google Scholar 

  • Stover RH (1987) Somaclonal variation in Grande Naine and Saba bananas in the nursery and in the field. In: Persley GJ, De Langhe E (eds) ACIAR proceeding no. 21, Canberra

  • Sultana R, Tahira F, Tayyab H, Khurram B, Shiekh R (2005) RAPD characterization of somaclonal variation in indica basmati rice. Pak J Bot 37:249–262

    Google Scholar 

  • Swartz HJ (1991) Post culture behaviour, genetic and epigenetic effects and related problems. In: Debergh PC, Zimmerman RH (eds) Micropropagation: technology and application. Kluwer Academic Publishers, Dodrecht, pp 95–122

    Google Scholar 

  • Symillides Y, Henry Y, Buyser J (1995) Analysis of Chinese Spring regenerants obtained from short- and long-term wheat somatic embryogenesis. Euphytica 82:263–268

    Google Scholar 

  • Tangpong P, Taychasinpitak T, Jompuk C, Jompuk P (2009) Effects of acute and chronic gamma irradiations on in vitro culture of Anubias congensis N.E. Brown. Kasetsart J (Nat Sci) 43:449–457

    Google Scholar 

  • Tautz D, Renz M (1984) Simple sequences are ubiquitous repetitive components of eukaryotic genomes. Nucleic Acids Res 12:4127–4138

    PubMed  CAS  Google Scholar 

  • Taylor PWJ, Geijskes JR, Ko HL, Fraser TA, Henry RJ, Birch RG (1995) Sensitivity of random amplified polymorphic DNA analysis to detect genetic change in sugarcane during tissue culture. Theor Appl Genet 90:1169–1173

    CAS  Google Scholar 

  • Thieme R, Griess H (2005) Somaclonal variation in tuber traits of potato. Potato Res 48:153–165

    Google Scholar 

  • Thomas J, Raj Kumar R, Mandal AKA (2006) Metabolite profiling and characterization of somaclonal variants in tea (Camellia spp.) for identifying productive and quality accession. Phytochemistry 67:1136–1142

    PubMed  CAS  Google Scholar 

  • Thomas JO, Margaret AC, Karl K, Iris E, Rony S, Christopher AC (2007) Genomic changes associated with somaclonal variation in banana (Musa spp.). Physiol Plant 129:766–774

    Google Scholar 

  • Todorovska E, Trikonova A, Petrova M, Vitanova Z, Marinova E, Gramatikova M, Valcheva D, Zaprianov S, Mersinkov N, Atanassov A (1997) Agronomic performance and molecular assessment of tissue culture-derived barley lines. Plant Breed 116:511–517

    CAS  Google Scholar 

  • Tremblay L, Levasseur C, Tremblay FM (1999) Frequency of somaclonal variation in plants of black spruce (Picea mariana, Pinaceae) and white spruce (P. glauca, Pinaceae) derived from somatic embryogenesis and identification of some factors involved in genetic instability. Am J Bot 86:1373–1381

    PubMed  Google Scholar 

  • Unai E, Iselen T, de Garcia E (2004) Comparison of characteristics of bananas (Musa sp.) from the somaclone CIEN BTA-03 and its parental clone Williams. Fruits 59:257–263

    Google Scholar 

  • Van Belkum A, Scherer S, Van Alphen L, Verbrugh H (1998) Short-sequence DNA repeats in prokaryotic genomes. Microbiol Mol Biol Rev 62:275–293

    PubMed  Google Scholar 

  • Van den Bulk RW, Löffler HJM, Lindhout WH, Koornneef M (1990) Somaclonal variation in tomato: effect of explant source and a comparison with chemical mutagenesis. Theor Appl Genet 80:817–825

    Google Scholar 

  • Van der Wurff AWG, Chan YL, Van Straalen NM, Schouten J (2000) TE-AFLP: combining rapidity and robustness in DNA fingerprinting. Nucleic Acids Res 28:e105

    Google Scholar 

  • Van Harten AM (1998) Mutation breeding: theory and practical applications. Cambridge University Press, Cambridge

    Google Scholar 

  • Van Harten AM, Bouter H, Broertjes C (1981) In vitro adventitious bud techniques for vegetative propagation and mutation breeding of potato (Solanum tuberosum L.). II. Significance for mutation breeding. Euphytica 30:1–8

    Google Scholar 

  • Van Sint Jan V, Costa de Macedo C, Kinet J-M, Bouharmont J (1997) Selection of Al-resistant plants from a sensitive rice cultivar, using somaclonal variation, in vitro and hydroponic cultures. Euphytica 97:303–310

    Google Scholar 

  • Vendrame WA, Kochert G, Wetzstein HY (1999) AFLP analysis of variation in pecan somatic embryos. Plant Cell Rep 18:853–857

    CAS  Google Scholar 

  • Venkatachalam L, Sreedhar RV, Bhagyalakshmi N (2007a) Genetic analyses of micropropagated and regenerated plantlets of banana as assessed by RAPD and ISSR markers. In Vitro Cell Dev Biol Plant 43:267–274

    CAS  Google Scholar 

  • Venkatachalam L, Sreedhar RV, Bhagyalakshmi N (2007b) Molecular analysis of genetic stability in long-term micropropagated shoots of bananas using RAPD and ISSR markers. Electron J Biotechnol 10:1–8

    Google Scholar 

  • Venkatachalam L, Sreedhar RV, Bhagyalakshmi N (2008) The use of genetic markers for detecting DNA polymorphism, genotype identification and phylogenetic relationships among banana cultivars. Mol Phylogenet Evol 47:974–985

    PubMed  CAS  Google Scholar 

  • Vidal MDC, De García E (2000) Analysis of a Musa spp. somaclonal variant resistant to yellow Sigatoka. Plant Mol Biol Rep 18:23–31

    Google Scholar 

  • Vos P, Hogers R, Bleeker M, Reijans M, Tvd Lee, Hornes M, Friters A, Pot J, Paleman J, Kuiper M, Zabeau M (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res 23:4407–4414

    PubMed  CAS  Google Scholar 

  • Vuylsteke D, Swennen R, Wilson GF, De Langhe E (1988) Phenotypic variation among in vitro propagated plantain (Musa sp. cultivar ‘AAB’). Sci Hortic 36:79–88

    Google Scholar 

  • Vyskot B, Fajkus J, Kuglík P, Koukalová B, Kuhrová V (1991) Genome modifications in protoplast-derived tobacco plants: phenotypic evaluation and RFLP Analysis. Biol Plant 33:455–460

    CAS  Google Scholar 

  • Wang Y, Wang F, Zhai H, Liu Q (2007) Production of a useful mutant by chronic irradiation in sweetpotato. Sci Hortic 111:173–178

    CAS  Google Scholar 

  • Wattanasiri C, Walton PD (1993) Effects of growth regulators on callus cell growth, plant regeneration, and somaclonal variation of smooth bromegrass (Bromus inermis Leyss.). Euphytica 69:77–82

    CAS  Google Scholar 

  • Weising K, Nybom H, Wolff K, Kahl G (2005) DNA fingerprinting in plants: principles, methods, and applications. CRC Press, New York

    Google Scholar 

  • Welsh J, McClelland M (1990) Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acids Res 18:7213–7218

    PubMed  CAS  Google Scholar 

  • Welter L, Göktürk-Baydar N, Akkurt M, Maul E, Eibach R, Töpfer R, Zyprian E (2007) Genetic mapping and localization of quantitative trait loci affecting fungal disease resistance and leaf morphology in grapevine (Vitis vinifera L). Mol Breeding 20:359–374

    CAS  Google Scholar 

  • Wenz H-M, Robertson JM, Menchen S, Oaks F, Demorest DM, Scheibler D, Rosenblum BB, Wike C, Gilbert DA, Efcavitch JW (1998) High-precision genotyping by denaturing capillary electrophoresis. Genome Res 8:69–80

    PubMed  CAS  Google Scholar 

  • Wilhelm E, Hristoforoglu K, Fluch S, Burg K (2005) Detection of microsatellite instability during somatic embryogenesis of oak (Quercus robur L.). Plant Cell Rep 23:790–795

    PubMed  CAS  Google Scholar 

  • Williams JGK, Kubelik AR, Livak KJ, Rafalski JA, Tingey SV (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res 18:6531–6535

    PubMed  CAS  Google Scholar 

  • Xu Q-l, Hu Z, Li C-y, Wang X-y, Wang C-y (2009) Tissue culture of Sinningia speciosa and analysis of the in vitro-generated tricussate whorled phyllotaxis (twp) variant. In Vitro Cell Dev Biol Plant 45:583–590

    Google Scholar 

  • Yadav P, Suprasanna P, Gopalrao K, Anant B (2006) Molecular profiling using RAPD technique of salt and drought tolerant regenerants of sugarcane. Sugar Tech 8:63–68

    CAS  Google Scholar 

  • Yamagishi M, Koba T, Shimada T, Itoh K, Sukekiyo Y, Shimamoto K (1997) Characteristics of genetic variation in the progenies of protoplast-derived plants of rice, Oryza sativa cv Nipponbare. Theor Appl Genet 94:1–7

    PubMed  CAS  Google Scholar 

  • Yang H, Tabei Y, Kamada H, Kayano T, Takaiwa F (1999) Detection of somaclonal variation in cultured rice cells using digoxigenin-based random amplified polymorphic DNA. Plant Cell Rep 18:520–526

    CAS  Google Scholar 

  • Yang W-R, Zhang Q-X, Pan H-T, Sun M (2010) In vitro regeneration of Lilium tsingtauense Gilg. and analysis of genetic variability in micropropagated plants using RAPD and ISSR techniques. Propag Ornam Plants 10:59–66

    Google Scholar 

  • Zaffari GR, Peres LEP, Kerbauy GB (1998) Endogenous levels of cytokinins, indoleacetic acid, abscisic acid, and pigments in variegated somaclones of micropropagated banana leaves. J Plant Growth Regul 17:59–61

    CAS  Google Scholar 

  • Zaid A, Al Kaabi H (2003) Plant-off types in tissue culture-derived date palm (Phoenix dactylifera L.). Emirates J Agric Sci 15:17–35

    Google Scholar 

  • Zhang M, Wang H, Dong Z, Qi B, Xu K, Liu B (2010) Tissue culture-induced variation at simple sequence repeats in sorghum (Sorghum bicolor L.) is genotype-dependent and associated with down-regulated expression of a mismatch repair gene, MLH3. Plant Cell Rep 29:51–59

    PubMed  Google Scholar 

  • Zhao Y, Grout BWW, Crisp P (2005) Variations in morphology and disease susceptibility of micropropagated rhubarb (Rheum rhaponticum) PC49, compared to conventional plants. Plant Cell Tissue Organ Cult 82:357–361

    CAS  Google Scholar 

  • Zheng K-L, Zhou Z-M, Wang G-L, Luo Y-K, Xiong Z-M (1989) Somatic cell culture of rice cultivars with different grain types: somaclonal variation in some grain and quality characters. Plant Cell Tissue Organ Cult 18:201–208

    Google Scholar 

  • Zhong Z, Smith HG, Thomas TH (1993) In vitro culture of petioles and intact leaves of sugar beet (Beta vulgaris). Plant Growth Regul 12:59–66

    CAS  Google Scholar 

  • Zietkiewicz E, Rafalski A, Labuda D (1994) Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction amplification. Genomics 20:176–183

    PubMed  CAS  Google Scholar 

Download references

Acknowledgments

We acknowledge the financial support of the University of KwaZulu-Natal and the National Research Foundation, South Africa.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Johannes Van Staden.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Bairu, M.W., Aremu, A.O. & Van Staden, J. Somaclonal variation in plants: causes and detection methods. Plant Growth Regul 63, 147–173 (2011). https://doi.org/10.1007/s10725-010-9554-x

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10725-010-9554-x

Keywords

Navigation