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The Role of Transposable Elements in Pongamia Unigenes and Protein Diversity

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Abstract

Pongamia pinnata (also called Millettia pinnata), a non-edible oil yielding tree, is well known for its multipurpose benefits and acts as a potential source for medicine and biodiesel preparation. Due to increase in demand for cultivation, understanding of genetic diversity is an important parameter for further breeding and cultivation programme. Transposable elements (TEs) are a major component of plant genome but still, their evolutionary significance in Pongamia remains unexplored. In view to understand the role of TEs in genome diversity, Pongamia unigenes were screened for the presence of TE cassettes. Our analysis showed the presence of all categories of TE cassettes in unigenes with major contribution of long terminal repeat-retrotransposons towards unigene diversity. Interestingly, the insertion of some TEs was also observed in both organellar genomes. The study of insertion of TEs in coding sequence is of great interest as they may be responsible for protein diversity thereby influencing the phenotype. The present investigation confirms the exaptation phenomenon in pyruvate decarboxylase (PDC) gene where the entire exon sequence was derived from Ty3-gypsy like retrotransposon. The study of PDC protein revealed the translation of gypsy element into protein. Furthermore, the phylogenetic study confirmed the diversity in PDC gene due to insertion of the gypsy element, where the PDC genes with and without gypsy insertion were clustered separately.

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Acknowledgements

We thank MHRD and IIT Guwahati, India for providing fellowship and computational facilities.

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  1. Applied Biodiversity Laboratory, Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Assam, 781 039, India

    Rahul G. Shelke & Latha Rangan

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  1. Rahul G. Shelke
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Correspondence to Latha Rangan.

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Shelke, R.G., Rangan, L. The Role of Transposable Elements in Pongamia Unigenes and Protein Diversity. Mol Biotechnol 62, 31–42 (2020). https://doi.org/10.1007/s12033-019-00223-0

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