Abstract
Genetic variability induced by cell and tissue culture provides a new source of variation within a species that can be utilized for crop improvement. The selection of novel variants through in vitro induced somaclonal variation helps in the generation of new cultivars with many important agronomic traits, which may be exploited in agriculture for breeding purpose. Some desirable characteristics can also be achieved by in vitro selection pressure technique. During the last 3–4 decades, several useful somaclonal variants particularly linked to the agronomic and agriculturally useful traits like yield, nutrient quality, disease resistance, abiotic stress tolerance, etc. have been selected and few of them have been released as cultivars for commercial production. However, selection of somaclonal variants for crop improvement has some major limitations like selection of undesirable traits, genetic instability and loss of regeneration after selection. Therefore, many efforts are needed to achieve desired results. In this chapter, the source and genetic basis of somaclonal variation, its detection methods and advantages of somaclonal variation in agriculture with main emphasis on some useful somaclonal variants released as a cultivar are discussed.
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References
Abdelnour-Esquivel A, Perez J, Rojas M, Vargas W, Gatica-Arias A (2020) Use of gamma radiation to induce mutations in rice (Oryza sativa L.) and the selection of lines with tolerance to salinity and drought. In Vitro Cell Dev Biol-Plant 56:88–97
Anil VS, Bennur S, Lobo S (2018) Somaclonal variations for crop improvement: selection for disease resistant variants in vitro. Plant Sci Today 5:44–54
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
Ashrafzadeh S, Leung DW (2017) Novel potato plants with enhanced cadmium resistance and antioxidative defence generated after in vitro cell line selection. PLoS One 12:e0185621
Bairu MW, Aremu AO, Van Staden J (2011) Somaclonal variation in plants: causes and detection methods. Plant Growth Regul 63:147–173
Bhandari HR, Bhanu AN, Srivastava K, Singh MN, Shreya HA (2017) Assessment of genetic diversity in crop plants—an overview. Adv Plants Agric Res 7(3):279–286
Bhojwani SS, Dantu PK (2013) Somaclonal variation in: plant tissue culture: an introductory text. Springer, New York, pp 141–152
Bradai F, Pliego-Alfaro F, Sanchez-Romero C (2016) Somaclonal variation in olive (Olea europaea L.) plants regenerated via somatic embryogenesis: influence of genotype and culture age on phenotypic stability. Sci Hortic 213:208–215
Brar DS, Jain SM (1998) Somaclonal variation: mechanism and application 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
Campbell BC, LeMare S, Piperidis G, Godwin ID (2011) IRAP, a retrotransposon-based marker system for the detection of somaclonal variation in barley. Mol Breed 27:193–206
Cao Z, Sui S, Cai X, Yang Q, Deng Z (2016) Somaclonal variation in ‘red flash’ caladium: morphological, cytological and molecular characterization. Plant Cell Tiss Org Cult 126:269–279
Carloni E, Tommasino E, Colomba EL, Ribotta A, Quiroga M, Griffa S, Grunberg K (2017) In vitro selection and characterization of buffelgrass somaclones with different responses to water stress. Plant Cell Tiss Org Cult 130:265–277
Chakraborty N, Banerjee M, Acharya K (2020) In vitro selection of elite clone of Withania somnifera against leaf blight disease caused by Alternaria alternata. Physiol Mol Plant Pathol 112:101560
Cichorz S, Gośka M, Mańkowski DR (2018) Miscanthus×giganteus: regeneration system with assessment of genetic and epigenetic stability in long-term in vitro culture. Ind Crop Prod 116:150–161
Daub ME (1986) Tissue culture and the selection of resistance to pathogens. Annu Rev Phytopathol 24:159–186
Eeckhaut T, Van Houtven W, Bruznican S, Leus L, Van Huylenbroeck J (2020) Somaclonal variation in Chrysanthemum × morifolium protoplast regenerants. Front Plant Sci 11:607171
Espinosa-Leal CA, Puente-Garza CA, Garcia-Lara S (2018) In vitro plant tissue culture: means for production of biological active compounds. Planta 247:1–18
Evans DA (1989) Somaclonal variation—genetic basis and breeding applications. Trends Genet 5:46–50
Flores PS, Otoni WC, Dhingra OD, Souza Diniz SPS, Santos TM, Bruckner CH (2012) In vitro selection of yellow passion fruit genotypes for resistance to Fusarium vascular wilt. Plant Cell Tiss Org Cult 108:37–45
Fossi M, Amundson K, Kuppu S, Britt A, Comai L (2019) Regeneration of Solanum tuberosum plants from protoplasts induces widespread genome instability. Plant Physiol 180:78–86
Gao MW (1992) Hezu 8, a new wheat variety developed with in vitro mutation technique. Nuclear Phys Rev 9:45–46
Gao Y, Ran L, Kong Y, Jiang J, Sokolov V, Wang Y (2014) Assessment of DNA methylation changes in tissue culture of Brassica napus. Russian J Genet 50:1338–1344
Ge H, Li Y, Fu H, Long G, Luo L, Li R, Deng Z (2015) Production of sweet orange somaclones tolerant to citrus canker disease by in vitro mutagenesis with EMS. Plant Cell Tiss Org Cult 123:29–38
Germana MA, Aleza P, Grosser JW, Dutt M, Wang N, Cuenca J, Kaur P (2020) Citrus biotechnology. In: Talon M, Caruso M, Gmitter FG (eds) The genus citrus. Woodhead Publishing, Cambridge, pp 171–192
Ghane SG, Lokhande VH, Nikam TD (2014) Growth, physiological, and biochemical responses in relation to salinity tolerance for in vitro selection in oil seed crop Guizotia abyssinica Cass. J Crop Sci Biotechnol 17:11–20
Gonzalez AI, Saiz A, Acedo A, Ruiz ML et al (2013) Analysis of genomic DNA methylation patterns in regenerated and control plants of rye (Secale cereale L.). Plant Growth Regul 70:227–236
Grosser JW, Gmitter FG, Chandler JL (1997) Development of improved sweet orange cultivars using tissue culture methods. Proc Fla State Hort Soc 110:13–16
Halim NAA, Tan BC, Midin MR, Madon M, Khalid N, Yaacob JS (2018) Abscisic acid and salinity stress induced somaclonal variation and increased histone deacetylase (HDAC) activity in Ananas comosus var. MD2. Plant Cell Tiss Org Cult 133:123–135
Heinz DJ (1973) Sugarcane improvement through induced mutations using vegetative propagules and cell culture techniques. Induced mutations in vegetatively propagated plants. In: Proceedings of a panel, International Atomic Energy Agency, Vienna, pp 53–59
Heszky LE, Simon-Kiss I, Do Quangh B (1996) Release of rice variety ‘DAMA’ developed through haploid somaclone breeding. In: YPS B (ed) Biotechnology in agriculture and forestry, Somaclonal variation in crop improvement II. Springer, Berlin, pp 46–54
Hwang SC, Ko WH (2004) Cavendish banana cultivars resistant to Fusarium wilt acquired through somaclonal variation. Plant Dis 88:580–588
Jain SM (2001) Tissue culture-derived variation in crop improvement. Euphytica 118:153–166
Jalaja NC, Sreenivasan TV, Pawar SM, Bhoi PG, Garker RM (2006) Co94012—a new sugarcane variety through somaclonal variation. Sugar Tech 8:132–136
Kaeppler SM, Kaeppler HF, Rhee Y (2000) Epigenetic aspects of somaclonal variation in plants. Plant Mol Biol 43:179–188
Kalia RK, Rai MK, Kalia S, Singh R, Dhawan AK (2011) Microsatelite markers: an overview of the recent progress in plants. Euphytica 177:309–334
Karp A (1995) Somaclonal variation as a tool for crop improvement. Euphytica 85:295–302
Katiyar RK, Chopra VL (1995) A somaclone of Brassica juncea is processed into a variety and is released for commercial cultivation in India. Cruciferae Newslett 17:92–93
Krishna H, Alizadeh M, Singh D, Singh U, Chauhan N, Eftekhari M, Sadh RK (2016) Somaclonal variations and their applications in horticultural crops improvement. 3 Biotech 6:54
Krishnamurthi M, Tlaskal J (1974) Fiji disease resistant Saccharum officinarum var Pindar subclones from tissue cultures. Proc Int Soc Sugarcane Technol 15:130–137
Kumari G, Kanwar K, Soni M, Sharma D (2017) In vitro selection of cell lines in Punica granatum L. (Daru) against bacterial blight. Proc Natl Acad Sci India Sec B Biol Sci 87:591–597
Landey RB, Cenci A, Guyot R (2015) Assessment of genetic and epigenetic changes during cell culture ageing and relations with somaclonal variation in Coffea arabica. Plant Cell Tiss Org Cult 122:517–531
Larkin PJ, Scowcroft WR (1981) Somaclonal variation a new source of variability from cell cultures for crop improvement. Theor Appl Genet 60:197–214
Larkin PJ, Scowcroft WR (1983) Somaclonal variation and eyespot toxin tolerance in sugarcane. Plant Cell Tiss Org Cult 2:111–121
Li JC, Choo TM, Ho KM, Falk DE, Blatt R (2001) Barley somaclones associated with high yield or resistance to powdery mildew. Euphytica 121:349–356
Li W, Deng Y, Ning Y, He Z, Wang GL (2020) Exploiting broad-spectrum disease resistance in crops: from molecular dissection to breeding. Annu Rev Plant Biol 71:575–603
Linacero R, Rueda J, Esquivel E, Bellido A, Domingo A, Vázquez AM (2011) Genetic and epigenetic relationship in rye, Secale cereale L., somaclonal variation within somatic embryo-derived plants. In Vitro Cell Dev Biol Plant 47:618–628
Machczynska J, Zimny J, Bednarek PT (2015) Tissue culture-induced genetic and epigenetic variation in triticale (×Triticosecale spp. Wittmack ex A. Camus 1927) regenerants. Plant Mol Biol 89:279–292
Manchanda P, Kaur A, Gosal SS (2018) Somaclonal variation for sugarcane improvement. In: Gosal SS, Wani SH (eds.), Biotechnologies of crop improvement, Springer, Cham, pp. 299–325
Martinez-Estrada E, Caamal-Velázquez JH, Salina Ruíz J, Bello-Bello JJ (2017) Assessment of somaclonal variation during sugarcane micropropagation in temporary immersion bioreactors by inter simple sequence repeat (ISSR) markers. In Vitro Cell Dev Biol Plant 53:553–560
Masoabi M, Lloyd J, Kossmann J, van der Vyver C (2018) Ethyl methanesulfonate mutagenesis and in vitro polyethylene glycol selection for drought tolerance in sugarcane (Saccharum spp.). Sugar Tech 20:50–59
Mohammadi SA, Prasanna BM (2003) Analysis of genetic diversity in crop plants-salient stataistical tools and considerations. Crop Sci 43:1235–1248
Neelakandan A, Wang K (2012) Recent progress in the understanding of tissue culture-induced genome level changes in plants and potential applications. Plant Cell Rep 31:597–620
Nikam AA, Devarumath RM, Shitole MG, Ghole VS, Tawar PN, Suprasanna P (2014) Gamma radiation, in vitro selection for salt (NaCl) tolerance, and characterization of mutants in sugarcane (Saccharum officinarum L.). In Vitro Cell Dev Biol Plant 50:766–776
Noormohammadi Z, Habibollahi H, Farahani F, Sheidai M (2020) Molecular analysis of somaclonal variation in Linum usitatissimum and L. album. Plant. Gene 24:100261
Park JS, Park JH, Kim SJ, Park YD (2020) Genome analysis of tissue culture-derived variations in regenerated Brassica rapa ssp. pekinensis plants using next-generation sequencing. Horticult Environ Biotechnol 61:549–558
Pastelin-Solano MC, Salinas-Ruíz J, González-Arnao MT, Castañeda-Castro O, Galindo-Tovar ME, Bello-Bello JJ (2019) Evaluation of in vitro shoot multiplication and ISSR marker based assessment of somaclonal variants at different subcultures of vanilla (Vanilla planifolia jacks). Physiol Mol Biol Plants 25:561–567
Penna S, Vitthal SB, Yadav PV (2012) In-vitro mutagenesis and selection in plant tissue cultures and their prospects for crop improvement. Bioremediat Biodivers Bioavailab 6:6–14
Phulwaria M, Rai MK, Shekhawat NS (2013) An improved micropropagation of Arnebia hispidissima (Lehm.) DC and assessment of genetic fidelity of micropropagated plants using DNA based molecular markers. Appl Biochem Biotechnol 170:1163–1173
Pradhan S, Singh SK, Srivastav M, Prakash J, Lal SK, Padaria JC, Goswami AK, Maurya NK (2021) Polyethylene glycol mediated in vitro screening and physico-biochemical changes induced in mango callus due to moisture stress. Plant Cell Tiss Org Cult 145:155–172. https://doi.org/10.1007/s11240-020-01999-9
Rai MK, Kalia RK, Singh R, Gangola MP, Dhawan AK (2011) Develo** stress tolerant plants through in vitro selection—an overview of the recent progress. Environ Exp Bot 71:89–98
Rai MK, Phulwaria M, Harish, Gupta AK, Shekhawat NS, Jaiswal U (2012) Genetic homogeneity of guava plants derived from somatic embryogenesis using SSR and ISSR markers. Plant Cell Tiss Org Cult 111:259–264
Rai MK, Shekhawat NS (2014) Recent advances in genetic engineering for improvement of fruit crops. Plant Cell Tiss Org Cult 116:1–15
Ramirez-Mosqueda MA, Iglesias-Andreu LG, da Silva JA, Luna-Rodríguez M, Noa-Carrazana JC, Bautista Aguilar JR, Ovalle L, Murguía González J (2019) In vitro selection of vanilla plants resistant to Fusarium oxysporum f. sp. vanillae. Acta Physiol Plant 41:40
Rani V, Raina SN (2000) Genetic fidelity of organized meristem derived micropropagated plants: a critical reappraisal. In Vitro Cell Dev Biol Plant 36:319–330
Rao R, Patil P (2012) In vitro selection of salt tolerant calli lines and regeneration of salt tolerant plantlets in mung bean (Vigna radiata L. Wilczek). In: Sammour R (ed) Biotechnology - molecular studies and novel applications for improved quality of human life. InTech, Rijeka, pp 197–212
Rao S, Jabeen FTZ (2013) In vitro selection and characterization of polyethylene glycol (PEG) tolerant callus lines and regeneration of plantlets from the selected callus lines in sugarcane (Saccharum officinarum L.). Physiol Mol Biol Plants 19:261–268
Rathore NS, Rai MK, Phulwaria M, Rathore N, Shekhawat NS (2014) Genetic stability in micropropagated Cleome gynandra revealed by SCoT analysis. Acta Physiol Plant 36:555–559
Regalado JJ, Carmona-Martín E, Moreno R, Gil J, Encina CL (2015) Study of the somaclonal variation produced by different methods of polyploidization with colchicine in Asparagus officinalis. Plant Cell Tiss Org Cult 122:31–44
Remotti PC (1998) Somaclonal variation and in vitro selection for crop improvement. In: Jain SM, Brar DS, Ahloowalia BS (eds) Somaclonal variation and induced mutations in crop improvement. Kluwer Academic Publishers, Dordrecht, pp 169–201
Rival A, Ilbert P, Labeyrie A, Torres E, Doulbeau S, Personne A, Dussert S, Beulé T, Durand-Gasselin T, Tregear JW, Jaligot E (2013) Variations in genomic DNA methylation during the long-term in vitro proliferation of oil palm embryogenic suspension cultures. Plant Cell Rep 32:359–368
Sahijram L (2015) Somaclonal variation in micropropagated plants. In: Bahadur B, Rajam MV, Sahijram L, Krishnamurthy KV (eds) Plant biology and biotechnology. Springer, New Delhi, pp 407–416
Singh D, Kaur S, Kumar A (2020) In vitro drought tolerance in selected elite clones of Eucalyptus tereticornis Sm. Acta Physiol Plant 42:17
Slazak B, Sliwinska E, Saługa M, Ronikier M, Bujak J, Słomka A, Göransson U, Kuta E (2015) Micropropagation of Viola uliginosa (Violaceae) for endangered species conservation and for somaclonal variation-enhanced cyclotide biosynthesis. Plant Cell Tiss Org Cult 120:179–190
Smulders M, de Klerk G (2011) Epigenetics in plant tissue culture. Plant Growth Regul 63:137–146
Springer NM, Schmitz RJ (2017) Exploiting induced and natural epigenetic variation for crop improvement. Nat Rev Genet 18:563–575
Sreenivasulu N, Sopory SK, Kavi-Kishor PB (2007) Deciphering the regulatory mechanisms of abiotic stress tolerance in plants by genomic approaches. Gene 388:1–13
Suprasanna P, Meenakshi S, Bapat VA (2009) Integrated approaches of mutagenesis and in vitro selection for crop improvement. In: Kumar A, Shekhawat NS (eds) Plant tissue culture molecular markers and their role in crop productivity. IK International Publishers, New Delhi, pp 73–92
Tawar PN, Sawant RA, Sushir KV, Devarumath RM, Hapase RS, Meti NT (2016) VSI 434: new sugarcane variety obtained through somaclonal variation. Agric Res 5:127–136
Van den Bulk RW (1991) Application of cell and tissue culture and in vitro selection for disease resistance breeding-a review. Euphytica 56:269–285
van Esse HP, Reuber TL, van der Does D (2020) Genetic modification to improve disease resistance in crops. New Phytol 225:70–86
van Zelm E, Zhang Y, Testerink C (2020) Salt tolerance mechanisms of plants. Annu Rev Plant Biol 71:403–433
Verma D, Ansari MW, Agrawal GK, Rakwal R, Shukla A, Tuteja N (2013) In vitro selection and field responses of somaclonal variant plants of rice cv PS113 for drought tolerance. Plant Signal Behav 8:23519
Verma S, Modgil M, Patidar S (2021) In vitro screening of apple rootstock MM106 somaclones with Phytophthora cactorum culture filtrate. J Plant Pathol 103:231–240
Wiszniewska A, Hanus-Fajerska E, Smoleń S, Muszyńska E (2015) In vitro selection for lead tolerance in shoot culture of Daphne species. Acta Sci Pol Hortorum Cultus 14:129–142
Yerzhebayeva RS, Abekova AM, Bersimbaeva GH, Konysbekov KT, Bastaubaeva SO, Roik NV, Urazaliev KR (2019) In vitro cell selection of sugar beet for resistance to culture filtrate of the fungus Fusarium oxysporum. Cytol Genet 53:307–314
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Rai, M.K. (2021). Somaclonal Variation in Improvement of Agricultural Crops: Recent Progress. In: Kumar Srivastava, D., Kumar Thakur, A., Kumar, P. (eds) Agricultural Biotechnology: Latest Research and Trends . Springer, Singapore. https://doi.org/10.1007/978-981-16-2339-4_6
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