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Tissue culture-induced DNA methylation in crop plants: a review

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Abstract

Plant tissue culture techniques have been extensively employed in commercial micropropagation to provide year-round production. Tissue culture regenerants are not always genotypically and phenotypically similar. Due to the changes in the tissue culture microenvironment, plant cells are exposed to additional stress which induces genetic and epigenetic instabilities in the regenerants. These changes lead to tissue culture-induced variations (TCIV) which are also known as somaclonal variations to categorically specify the inducing environment. TCIV includes molecular and phenotypic changes persuaded in the in vitro culture due to continuous sub-culturing and tissue culture-derived stress. Epigenetic variations such as altered DNA methylation pattern are induced due to the above-mentioned factors. Reportedly, alteration in DNA methylation pattern is much more frequent in the plant genome during the tissue culture process. DNA methylation plays an important role in gene expression and regulation of plant development. Variants originated in tissue culture process due to heritable methylation changes, can contribute to intra-species phenotypic variation. Several molecular techniques are available to detect DNA methylation at different stages of in vitro culture. Here, we review the aspects of TCIV with respect to DNA methylation and its effect on crop improvement programs. It is anticipated that a precise and comprehensive knowledge of molecular basis of in vitro-derived DNA methylation will help to design strategies to overcome the bottlenecks of micropropagation system and maintain the clonal fidelity of the regenerants.

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Acknowledgements

Authors’ research in this area is supported by the St. John’s Research and Development Centre, Agriculture and Agri-Food Canada, St. John’s, Newfoundland and Labrador, Canada.

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Agriculture and Agri-Food Canada St. John’s Research and Development Centre contribution No. 240.

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  1. Department of Biology, Memorial University of Newfoundland, St. John’s, NL, Canada

    Amrita Ghosh & Abir U. Igamberdiev

  2. St. John’s Research and Development Centre, Agriculture and Agri-Food Canada, St. John’s, NL, Canada

    Amrita Ghosh & Samir C. Debnath

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A.G. outlined, wrote the manuscript, prepared the tables and the figures. A.U.I. revised and reviewed the manuscript. S.C.D. conceptualized, helped in writing, revised, and reviewed the manuscript. All authors have approved the final version.

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Correspondence to Samir C. Debnath.

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Ghosh, A., Igamberdiev, A.U. & Debnath, S.C. Tissue culture-induced DNA methylation in crop plants: a review. Mol Biol Rep 48, 823–841 (2021). https://doi.org/10.1007/s11033-020-06062-6

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