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DNA methylation and methylation polymorphism in ecotypes of Jatropha curcas L. using methylation-sensitive AFLP markers

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Abstract

We investigated DNA methylation and polymorphism in the methylated DNA using AFLP based methylation-sensitive amplification polymorphism (MS-AFLP) markers in ecotypes of Jatropha curcas L. growing in similar and different geo-ecological conditions. Three ecotypes growing in different geo-ecological conditions with environmental heterogeneity (Group-1) and five ecotypes growing in similar environmental conditions (Group-2) were assessed. In ecotypes growing in group-1, 44.32 % DNA was methylated and of which 93.59 % DNA was polymorphic. While in group-2, 32.27 % DNA was methylated, of which 51.64 % DNA was polymorphic. In site 1 and site 2 of group-1, overall methylation was 18.94 and 22.44 % respectively with difference of 3.5 %, while overall polymorphism was 41.14 and 39.23 % with a difference of 1.91 %. In site 1 and site 2 of group-2, overall methylation was 24.68 and 24.18 % respectively with difference of 0.5 %, while overall polymorphism was 12.19 and 12.65 % with a difference of 0.46 %. The difference of methylation percentage and percentage of methylation polymorphism throughout the genome of J. curcas at site 1 and 2 of group-1 is higher than that of J. curcas at site 1 and 2 of group-2. These results correlated the physico-chemical properties of soil at these sites. The variations of physico-chemical properties of soil at Chorwadla (site 1 in group-1 and site 2 in group-2) compared to the soil at Brahmapur (site 2 in group-1) is higher than that of soil at Neswad (site 1 in group-2). The study suggests that these homologous nucleotide sequences probably play important role in ecotype adaptation to environmental heterogeneity by creating epiallelic variations hence in evolution of ecotypes/clines or forms of species showing phenotypic/genotypic differences in different geographical areas.

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Acknowledgments

CSMCRI communication no.—PRIS/101/2012. Authors acknowledge the financial support from CSIR-NMITLY project to carry out the present work. Authors also acknowledge the financial support from CSIR, New Delhi (MSR + SGM), AcSIR for Ph. D. (SGM) and General Motors, USA (VB).

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Authors and Affiliations

  1. Academy of Scientific and Innovative Research (AcSIR), CSIR-Central Salt and Marine Chemicals Research Institute (CSIR-CSMCRI), Council of Scientific & Industrial Research (CSIR), Gijubhai Badheka Marg, Bhavnagar, 364 002, Gujarat, India

    Shaik G. Mastan, Mangal S. Rathore & A. Ghosh

  2. Discipline of Wasteland Research, CSIR-Central Salt and Marine Chemicals Research Institute (CSIR-CSMCRI), Council of Scientific & Industrial Research (CSIR), Gijubhai Badheka Marg, Bhavnagar, 364 002, Gujarat, India

    Shaik G. Mastan, Mangal S. Rathore, Vacha D. Bhatt, J. Chikara & A. Ghosh

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  1. Shaik G. Mastan
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  2. Mangal S. Rathore
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  3. Vacha D. Bhatt
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  4. J. Chikara
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  5. A. Ghosh
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Correspondence to Mangal S. Rathore or A. Ghosh.

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Mastan, S.G., Rathore, M.S., Bhatt, V.D. et al. DNA methylation and methylation polymorphism in ecotypes of Jatropha curcas L. using methylation-sensitive AFLP markers. Mol Biol Rep 41, 8261–8271 (2014). https://doi.org/10.1007/s11033-014-3734-0

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  • DOI: https://doi.org/10.1007/s11033-014-3734-0

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