Genetic Basis of Somaclonal Variation

Somaclonal variation — a novel source of variability from cell cultures for plant improvement

Larkin, P. J., & Scowcroft, W. R. (1981) · Theoretical and Applied Genetics · doi:10.1007/bf02342540 · Cited by 3,002 · see citing works

Retrotransposons of rice involved in mutations induced by tissue culture.

Hirochika, H., Sugimoto, K., Otsuki, Y., Tsugawa, H., & Kanda, M. (1996) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.93.15.7783 · Cited by 748 · see citing works

Epigenetic aspects of somaclonal variation in plants

Kaeppler, S. M., Kaeppler, H. F., & Rhee, Y. (2000) · Plant Molecular Biology · doi:10.1023/a:1006423110134 · Cited by 743 · see citing works

Target Site Specificity of the Tos17 Retrotransposon Shows a Preference for Insertion within Genes and against Insertion in Retrotransposon-Rich Regions of the Genome

Miyao, A., Tanaka, K., Murata, K., Sawaki, H., Takeda, S., Abe, K., Shinozuka, Y., Onosato, K., & Hirochika, H. (2003) · The Plant Cell · doi:10.1105/tpc.012559 · Cited by 514 · see citing works

Somaclonal variations and their applications in horticultural crops improvement

Krishna, H., Alizadeh, M., Singh, D., Singh, U., Chauhan, N., Eftekhari, M., & Sadh, R. K. (2016) · 3 Biotech · doi:10.1007/s13205-016-0389-7 · Cited by 436 · see citing works

Proteomic analysis of a disease-resistance-enhanced lesion mimic mutant spotted leaf 5 in rice

Chen, X., Fu, S., Zhang, P., Gu, Z., Liu, J., Qian, Q., & Ma, B. (2013) · Rice · doi:10.1186/1939-8433-6-1 · Cited by 283 · see citing works

The plant MITE mPing is mobilized in anther culture

Kikuchi, K., Terauchi, K., Wada, M., & Hirano, H. (2003) · Nature · doi:10.1038/nature01218 · Cited by 277 · see citing works

New Insights Into Tissue Culture Plant-Regeneration Mechanisms

Long, Y., Yang, Y., Pan, G., & Shen, Y. (2022) · Frontiers in Plant Science · doi:10.3389/fpls.2022.926752 · Cited by 274 · see citing works

Epigenomic consequences of immortalized plant cell suspension culture

Tanurdzic, M., Vaughn, M. W., Jiang, H., Lee, T.-J., Slotkin, R. K., Sosinski, B., Thompson, W. F., Doerge, R. W., & Martienssen, R. A. (2008) · PLoS Biology · doi:10.1371/journal.pbio.0060302 · Cited by 218 · see citing works

A Microsphere-Based Assay for Multiplexed Single Nucleotide Polymorphism Analysis Using Single Base Chain ExtensionPreprint

Chen, J., Iannone, M. A., Li, M.-S., Taylor, J. D., Rivers, P., Nelsen, A. J., Slentz‐Kesler, K., Roses, A. D., & Weiner, M. P. (2000) · Genome Research · doi:10.1101/gr.10.4.549 · Cited by 211 · see citing works

Beyond Junk-Variable Tandem Repeats as Facilitators of Rapid Evolution of Regulatory and Coding Sequences

Gemayel, R., Cho, J. M., Boeynaems, S., & Verstrepen, K. J. (2012) · Genes · doi:10.3390/genes3030461 · Cited by 147 · see citing works

A large-scale collection of phenotypic data describing an insertional mutant population to facilitate functional analysis of rice genes

Miyao, A., Iwasaki, Y., Kitano, H., Itoh, J., Maekawa, M., Murata, K., Yatou, O., Nagato, Y., & Hirochika, H. (2006) · Plant Molecular Biology · doi:10.1007/s11103-006-9118-7 · Cited by 147 · see citing works

Molecular spectrum of somaclonal variation in regenerated rice revealed by whole-genome sequencing

Miyao, A., Nakagome, M., Ohnuma, T., Yamagata, H., Kanamori, H., Katayose, Y., Takahashi, A., Matsumoto, T., & Hirochika, H. (2012) · Plant and Cell Physiology · doi:10.1093/pcp/pcr172 · Cited by 135 · see citing works

Retrotransposons of rice: their regulation and use for genome analysis

Hirochika, H. (1997) · Springer eBooks · doi:10.1007/978-94-011-5794-0_22 · Cited by 128 · see citing works

Somaclonal Variation—Advantage or Disadvantage in Micropropagation of the Medicinal Plants

Duta-Cornescu, G., Constantin, N., Pojoga, D.-M., Nicuta, D., & Simon-Gruita, A. (2023) · International Journal of Molecular Sciences · doi:10.3390/ijms24010838 · Cited by 108 · see citing works

Ploidy level determination within the context of in vitro breeding

Ochatt, S., Patat-Ochatt, E. M., & Moessner, A. (2011) · Plant Cell Tissue and Organ Culture (PCTOC) · doi:10.1007/s11240-011-9918-6 · Cited by 106 · see citing works

Two-Step Regulation and Continuous Retrotransposition of the Rice LINE-Type Retrotransposon Karma

Komatsu, M., Shimamoto, K., & Kyozuka, J. (2003) · The Plant Cell · doi:10.1105/tpc.011809 · Cited by 99 · see citing works

Regenerant Arabidopsis Lineages Display a Distinct Genome-Wide Spectrum of Mutations Conferring Variant Phenotypes

Jiang, C., Mithani, A., Gan, X., Belfield, E. J., Klingler, J., Zhu, J., Ragoussis, J., Mott, R., & Harberd, N. P. (2011) · Current Biology · doi:10.1016/j.cub.2011.07.002 · Cited by 98 · see citing works

Application of molecular markers in plant genome analysis: a review

Adhikari, S., Saha, S., Biswas, A., Rana, T. S., Bandyopadhyay, T. K., & Ghosh, P. (2017) · The Nucleus · doi:10.1007/s13237-017-0214-7 · Cited by 96 · see citing works

Tissue Culture-Induced Heritable Genomic Variation in Rice, and Their Phenotypic Implications

Zhang, D., Wang, Z., Wang, N., Gao, Y., Liu, Y., Wu, Y., Bai, Y., Zhang, Z., Lin, X., Dong, Y., et al. (2014) · PLoS ONE · doi:10.1371/journal.pone.0096879 · Cited by 90 · see citing works

RAPD, ISSR, and SCoT markers based genetic stability assessment of micropropagated Dendrobium fimbriatum Lindl. var. oculatum Hk. f.—An important endangered orchid

Tikendra, L., Potshangbam, A. M., Dey, A., Devi, T. R., Sahoo, M. R., & Nongdam, P. (2021) · Physiology and Molecular Biology of Plants · doi:10.1007/s12298-021-00939-x · Cited by 83 · see citing works

Putative homozygous mutations in regenerated plants of rice

Oono, K. (1985) · Molecular and General Genetics MGG · doi:10.1007/bf00332926 · Cited by 77 · see citing works

Micropropagation of Viola uliginosa (Violaceae) for endangered species conservation and for somaclonal variation-enhanced cyclotide biosynthesis

Ślązak, B., Śliwińska, E., Saługa, M., Ronikier, M., Bujak, J., Słomka, A., Göransson, U., & Kuta, E. (2014) · Plant Cell Tissue and Organ Culture (PCTOC) · doi:10.1007/s11240-014-0592-3 · Cited by 77 · see citing works

Genotoxicity of 2,4-D and dicamba revealed by transgenic Arabidopsis thaliana plants harboring recombination and point mutation markers

Filkowski, J. N., Besplug, J., Burke, P., Kovalchuk, I., & Kovalchuk, O. (2003) · Mutation Research/Genetic Toxicology and Environmental Mutagenesis · doi:10.1016/j.mrgentox.2003.07.008 · Cited by 71 · see citing works

The Stem Cell State in Plant Development and in Response to Stress

Grafi, G., Florentin, A., Ransbotyn, V., & Morgenstern, Y. (2011) · Frontiers in Plant Science · doi:10.3389/fpls.2011.00053 · Cited by 67 · see citing works

Somaclonal Variation Is Induced De Novo via the Tissue Culture Process: A Study Quantifying Mutated Cells in Saintpaulia

Sato, M., Hosokawa, M., & Doi, M. (2011) · PLoS ONE · doi:10.1371/journal.pone.0023541 · Cited by 65 · see citing works

Indirect Organogenesis and Assessment of Somaclonal Variation in Plantlets of Vanilla planifolia Jacks

Ramírez-Mosqueda, M. A., & Iglesias-Andreu, L. G. (2015) · Plant Cell, Tissue and Organ Culture (PCTOC) · doi:10.1007/s11240-015-0868-2 · Cited by 60 · see citing works

Tissue culture-induced genetic and epigenetic alterations in rice pure-lines, F1 hybrids and polyploids

Wang, X., Wu, R., Lin, X., Bai, Y., Song, C., Yu, X., Xu, C., Zhao, N., Dong, Y., & Liu, B. (2013) · BMC Plant Biology · doi:10.1186/1471-2229-13-77 · Cited by 55 · see citing works

Molecular markers based genetic fidelity assessment of micropropagated Dendrobium chrysotoxum Lindl

Tikendra, L., Koijam, A. S., & Nongdam, P. (2019) · Meta Gene · doi:10.1016/j.mgene.2019.100562 · Cited by 48 · see citing works

IRAP, a retrotransposon-based marker system for the detection of somaclonal variation in barley

Campbell, B. C., LeMare, S., Piperidis, G., & Godwin, I. D. (2010) · Molecular Breeding · doi:10.1007/s11032-010-9422-4 · Cited by 47 · see citing works

A review of somaclonal variation in plantain (<i>Musa</i> spp): mechanisms and applications

Nwauzoma, A., & Jaja, E. (2013) · Journal of Applied Biosciences · doi:10.4314/jab.v67i0.95046 · Cited by 45 · see citing works

Somaclonal variation in rye

Linacero, R., & Vázquez, A. M. (1993) · Mutation Research Letters · doi:10.1016/0165-7992(93)90105-5 · Cited by 43 · see citing works

Ploidy stability in embryogenic cultures and regenerated plantlets of tamarillo

Currais, L., Loureiro, J., Santos, C., & Canhoto, J. (2013) · Plant Cell Tissue and Organ Culture (PCTOC) · doi:10.1007/s11240-013-0311-5 · Cited by 41 · see citing works

Assessment of somaclonal variation in Dieffenbachia plants regenerated through indirect shoot organogenesis

Shen, X., Chen, J., Kane, M. E., & Henny, R. J. (2007) · Plant Cell Tissue and Organ Culture (PCTOC) · doi:10.1007/s11240-007-9273-9 · Cited by 40 · see citing works

Genetic fidelity assessment of long term in vitro shoot cultures and regenerated plants in Japanese plum cvs Santa Rosa and Frontier through RAPD, ISSR and SCoT markers

Thakur, M., Rakshandha, Sharma, V., & Chauhan, A. (2020) · South African Journal of Botany · doi:10.1016/j.sajb.2020.11.005 · Cited by 40 · see citing works

Detection of Somaclonal Variations in Tissue Cultured Date Palm (Phoenix dactylifera L.) Using Transposable Element-Based Markers

Mirani, A. A., Teo, C. H., Markhand, G. S., Abul-Soad, A. A., & Harikrishna, J. A. (2020) · Plant Cell, Tissue and Organ Culture (PCTOC) · doi:10.1007/s11240-020-01772-y · Cited by 39 · see citing works

Somaclonal variation in olive (Olea europaea L.) plants regenerated via somatic embryogenesis: Influence of genotype and culture age on genetic stability

Bradaï, F., Sánchez-Romero, C., & Martín, C. (2019) · Scientia Horticulturae · doi:10.1016/j.scienta.2019.03.010 · Cited by 38 · see citing works

Retrotransposable Elements: DNA Fingerprinting and the Assessment of Genetic Diversity

Kalendar, R. N., Muterko, A., & Боронникова, С. В. (2020) · Methods in molecular biology · doi:10.1007/978-1-0716-0997-2_15 · Cited by 34 · see citing works

Stem cells: a lesson from dedifferentiation

Grafi, G., & Avivi, Y. (2004) · Trends in biotechnology · doi:10.1016/j.tibtech.2004.06.001 · Cited by 32 · see citing works

Genetic Evaluation of In Vitro Micropropagated and Regenerated Plants of Cannabis sativa L. Using SSR Molecular Markers

Ioannidis, K., Tomprou, I., Mitsis, V., & Koropouli, P. (2022) · Plants · doi:10.3390/plants11192569 · Cited by 31 · see citing works

RYS1, a foldback transposon, is activated by tissue culture and shows preferential insertion points into the rye genome

Alves, E., Ballesteros, I., Linacero, R., & Vázquez, A. M. (2005) · Theoretical and Applied Genetics · doi:10.1007/s00122-005-2013-9 · Cited by 31 · see citing works

TCUP: A Novel hAT Transposon Active in Maize Tissue Culture

Smith, A. M., Hansey, C. N., & Kaeppler, S. M. (2012) · Frontiers in Plant Science · doi:10.3389/fpls.2012.00006 · Cited by 30 · see citing works

In Vitro Mass Multiplication and Assessment of Genetic Stability of In Vitro Raised Artemisia absinthium L. Plants Using ISSR and SSAP Molecular Markers

Kour, B., Kour, G., Kaul, S., & Dhar, M. K. (2014) · Advances in Botany · doi:10.1155/2014/727020 · Cited by 30 · see citing works

Clonal micropropagation of Pistacia lentiscus L. and assessment of genetic stability using IRAP markers

Kılınç, F. M., Süzerer, V., Çiftçi, Y. Ö., Onay, A., Yıldırım, H., Uncuoğlu, A. A., Tilkat, E., Koç, İ., Akdemir, Ö. F., & Metin, Ö. K. (2014) · Plant Growth Regulation · doi:10.1007/s10725-014-9933-9 · Cited by 29 · see citing works

Autotetraploid Emergence via Somatic Embryogenesis in Vitis vinifera Induces Marked Morphological Changes in Shoots, Mature Leaves, and Stomata

Catalano, C., Abbate, L., Motisi, A., Crucitti, D., Cangelosi, V., Pisciotta, A., Lorenzo, R. D., Carimi, F., & Carra, A. (2021) · Cells · doi:10.3390/cells10061336 · Cited by 25 · see citing works

Genetic fidelity assessment of in vitro-regenerated plants of Albizia julibrissin using SCoT and IRAP fingerprinting

Rahmani, M.-S., Pijut, P. M., Shabanian, N., & Nasri, M. (2015) · In Vitro Cellular & Developmental Biology - Plant · doi:10.1007/s11627-015-9692-y · Cited by 24 · see citing works

Use of Combined MSAP and NGS Techniques to Identify Differentially Methylated Regions in Somaclones: A Case Study of Two Stable Somatic Wheat Mutants

Baránek, M., Čechová, J., Kovács, T., Eichmeier, A., Wang, S., Raddová, J., Nečas, T., & Ye, X. (2016) · PLoS ONE · doi:10.1371/journal.pone.0165749 · Cited by 23 · see citing works

Primer Binding Site (PBS) Profiling of Genetic Diversity of Natural Populations of Endemic Species Allium ledebourianum Schult.

Khapilina, O. N., Туржанова, А., Danilova, A. N., Tumenbayeva, A., Shevtsov, V., Kotukhov, Y., & Kalendar, R. N. (2021) · BioTech · doi:10.3390/biotech10040023 · Cited by 23 · see citing works

Cytogenetic variation in rye regenerated plants and their progeny

Linacero, R., & Vazquez, A. M. (1992) · Genome · doi:10.1139/g92-063 · Cited by 22 · see citing works

In vitro leaf-derived organogenesis and somaclonal variant detection in Humulus lupulus L.

Liberatore, C. M., Rodolfi, M., Beghè, D., Fabbri, A., Ganino, T., & Chiancone, B. (2020) · In Vitro Cellular & Developmental Biology - Plant · doi:10.1007/s11627-020-10088-7 · Cited by 18 · see citing works

Vertical heterogeneity of DNA ploidy level assessed by flow cytometry in calli of Passiflora Cincinnata

da Silva, T. C. R., & Carvalho, C. R. (2013) · In Vitro Cellular & Developmental Biology - Plant · doi:10.1007/s11627-013-9582-0 · Cited by 17 · see citing works

Evaluation of genetic stability in olive callus-induced and meristem-induced shoots using flow cytometry and amplified fragment length polymorphism techniques

Mirzaei, L., Yadollahi, A., Kermani, M. J., Naderpour, M., Zeinanloo, A. A., Farsi, M., & Davoodi, D. (2021) · Plant Methods · doi:10.1186/s13007-021-00724-7 · Cited by 16 · see citing works

Genome-wide discovery of DNA variants in cucumber somaclonal lines

Skarzyńska, A., Pawełkowicz, M. E., & Pląder, W. (2020) · Gene · doi:10.1016/j.gene.2020.144412 · Cited by 16 · see citing works

Molecular marker based assessment of genetic homogeneity within the in vitro regenerated plants of Crocus sativus L. – a globally important high value spice crop

Gautam, N., & Bhattacharya, A. (2021) · South African Journal of Botany · doi:10.1016/j.sajb.2021.03.038 · Cited by 14 · see citing works

Somaclonal variation in callus samples ofPlantago majorusing inter-simple sequence repeat marker

Ghorbanpour, M., & Khadivi, A. (2015) · Caryologia · doi:10.1080/00087114.2014.998128 · Cited by 13 · see citing works

Molecular spectrum of somaclonal variation in PLB-regenerated Oncidium revealed by SLAF-seq

Wang, C., Tian, M., Zhang, Y., & Tong, O. (2019) · Plant Cell Tissue and Organ Culture (PCTOC) · doi:10.1007/s11240-019-01589-4 · Cited by 13 · see citing works

Genomic Variations of Rice Regenerants from Tissue Culture Revealed by Whole Genome Re-Sequencing

Qin, Y., Shin, K.-S., Woo, H., & Lim, M.-H. (2018) · Plant Breeding and Biotechnology · doi:10.9787/pbb.2018.6.4.426 · Cited by 11 · see citing works

NGS sequencing reveals that many of the genetic variations in transgenic rice plants match the variations found in natural rice population

Park, D., Park, S. H., Kim, Y. S., Choi, B., Kim, J., Kim, N., & Choi, I. (2018) · Genes & Genomics · doi:10.1007/s13258-018-0754-5 · Cited by 10 · see citing works

Genome analysis of tissue culture-derived variations in regenerated Brassica rapa ssp. pekinensis plants using next-generation sequencing

Park, J.-S., Park, J., Kim, S., & Park, Y. (2020) · Horticulture Environment and Biotechnology · doi:10.1007/s13580-020-00237-7 · Cited by 10 · see citing works

Establishment of regeneration system of Pyrus and the genetic stability analysis of regenerated population

Liu, Q., Yang, Y., Liu, J., Song, J., Li, D., Wang, R., & Wang, R. (2022) · Plant Cell Tissue and Organ Culture (PCTOC) · doi:10.1007/s11240-022-02378-2 · Cited by 8 · see citing works

Molecular analysis of somaclonal variation in Linum usitatissimum and L. album

Noormohammadi, Z., Habibollahi, H., Farahani, F., & Sheidai, M. (2020) · Plant Gene · doi:10.1016/j.plgene.2020.100261 · Cited by 4 · see citing works

Somaclonal Variation and Clonal Fidelity in Commercial Micropropagation: Challenges and Perspectives

Majumder, S., Igamberdiev, A. U., & Debnath, S. C. (2025) · Agronomy · doi:10.3390/agronomy15061489 · Cited by 46 · see citing works

Synergistic effects of plant growth regulators and fe₃o₄ nanoparticles on in vitro organogenesis and bioactive compound production in hypericum perforatum

Nooh, K. M. A., Salim, A. M., Faizy, W. S., Dargiri, S. A., & Meftahizadeh, H. (2025) · BMC Plant Biology · doi:10.1186/s12870-025-07409-6 · Cited by 12 · see citing works

Apomixis in Farmers’ Fields: Overview, Case Studies from Forage Grasses and Considerations for Future Apomictic Crops

Jank, L., Rios, E., Santos, M. F., Jauregui, R. N., Vigna, B. B. Z., Barrios, S. C. L., Acuña, C. A., Zilli, A. L., do Valle, C. B., Reyno, R., et al. (2025) · Critical Reviews in Plant Sciences · doi:10.1080/07352689.2025.2578983 · Cited by 6 · see citing works

Transcriptomic Signatures of Somaclonal Variation

López-Hernández, F., & Cortés, A. J. (2026) · Concepts and strategies in plant sciences · doi:10.1007/978-981-95-5183-5_5 · Cited by 3 · see citing works

Influence of in vitro culture on seed size in somaclonal variants of spelt

Palekha, D. Y., Nitovska, I. O., & Моргун, Б. В. (2025) · Faktori eksperimental noi evolucii organizmiv · doi:10.7124/feeo.v37.1769

Establishing and Validating Secure Germplasm Conservation Protocols of Woody Plants and Banana by Cryopreservation Techniques

Lambardi, M., Panis, B., Bilavčík, A., Özüdoğru, E. A., Ruta, C., & Sánchez‐Romero, C. (2026) · Springer eBooks · doi:10.1007/978-3-032-28071-8_8

Progress in Plant Somaclonal Variation

Li, X., Cong, J., Yu, X., & Dong, Y. (2008) · Chinese Bulletin of Botany · doi:10.3724/cbb-t27-012

Somaclonal Variation

Leva, A., & Rinaldi, L. M. R. (2016) · Encyclopedia of Applied Plant Sciences · doi:10.1016/b978-0-12-394807-6.00150-7 · Cited by 13 · see citing works

Advances in Research on Plant Somaclonal Variation

Yu, Z. (2009) · Jiangxi Forestry Science and Technology

Genetics of micropropagated woody plants

Skirvin, R. M., Abu-Qaoud, H., Sriskandarajah, S., & Harry, D. E. (1993) · Forestry sciences · doi:10.1007/978-94-015-8116-5_8 · Cited by 5 · see citing works

Somaclonal variations in horticultural crops

Magray, S. A., Kour, K., Bakshi, P., Kumar, R., & Javed, A. (2021) · International Journal of Advanced Chemistry Research · doi:10.33545/26646781.2021.v3.i1a.69