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

BMC Plant Biology

Research Article

Na Zhao¹  Xiuyun Lin²  Congdi Song³  Xiaoran Wang³  Yan Bai³  Bao Liu³  Chunming Xu³  Rui Wu⁴  Xiaoming Yu⁵  Yuzhu Dong⁶ 

[1] Faculty of Agronomy, Jilin Agricultural University, 13118, Changchun, China;Jilin Academy of Agricultural Sciences, 130033, Changchun, China;Key Laboratory of Molecular Epigenetics of the Ministry of Education (MOE), Northeast Normal University, 130024, Changchun, China;Key Laboratory of Molecular Epigenetics of the Ministry of Education (MOE), Northeast Normal University, 130024, Changchun, China;Carnegie Institution for Science, Department of Plant Biology, Stanford University, 94305, Stanford, CA, USA;Key Laboratory of Molecular Epigenetics of the Ministry of Education (MOE), Northeast Normal University, 130024, Changchun, China;School of Bioengineering, Jilin College of Agricultural Science & Technology, 132301, Jilin, China;School of Life Science, Changchun Normal University, 130032, Changchun, China;

关键词: Amplify Fragment Length Polymorphism;    Somaclonal Variation;    Epigenetic Alteration;    Tissue Culture Condition;    CCGG Site;   

DOI  :  10.1186/1471-2229-13-77

 received in 2013-01-27, accepted in 2013-04-26,  发布年份 2013

来源: Springer

【 摘 要 】

BackgroundGenetic and epigenetic alterations can be invoked by plant tissue culture, which may result in heritable changes in phenotypes, a phenomenon collectively termed somaclonal variation. Although extensive studies have been conducted on the molecular nature and spectrum of tissue culture-induced genomic alterations, the issue of whether and to what extent distinct plant genotypes, e.g., pure-lines, hybrids and polyploids, may respond differentially to the tissue culture condition remains poorly understood.ResultsWe investigated tissue culture-induced genetic and epigenetic alterations in a set of rice genotypes including two pure-lines (different subspecies), a pair of reciprocal F1 hybrids parented by the two pure-lines, and a pair of reciprocal tetraploids resulted from the hybrids. Using two molecular markers, amplified fragment length polymorphism (AFLP) and methylation-sensitive amplified polymorphism (MSAP), both genetic and DNA methylation alterations were detected in calli and regenerants from all six genotypes, but genetic alteration is more prominent than epigenetic alteration. While significant genotypic difference was observed in frequencies of both types of alterations, only genetic alteration showed distinctive features among the three types of genomes, with one hybrid (N/9) being exceptionally labile. Surprisingly, difference in genetic alteration frequencies between the pair of reciprocal F1 hybrids is much greater than that between the two pure-line subspecies. Difference also exists in the pair of reciprocal tetraploids, but is to a less extent than that between the hybrids. The steady-state transcript abundance of genes involved in DNA repair and DNA methylation was significantly altered in both calli and regenerants, and some of which were correlated with the genetic and/or epigenetic alterations.ConclusionsOur results, based on molecular marker analysis of ca. 1,000 genomic loci, document that genetic alteration is the major cause of somaclonal variation in rice, which is concomitant with epigenetic alterations. Perturbed expression by tissue culture of a set of 41 genes encoding for enzymes involved in DNA repair and DNA methylation is associated with both genetic and epigenetic alterations. There exist fundamental differences among distinct genotypes, pure-lines, hybrids and tetraploids, in propensities of generating both genetic and epigenetic alterations under the tissue culture condition. Parent-of-origin has a conspicuous effect on the alteration frequencies.

【 授权许可】

Unknown   
© Wang et al.; licensee BioMed Central Ltd. 2013. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.