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Rep-PCR Identifies Both Inter- and Intra-Specific Mitochondrial Genome Differences in Carthamus

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Abstract

Mitochondria are derived from ancient prokaryotic endosymbionts, and their genomes exhibit similarities to prokaryote genomes. Therefore, it was hypothesized that the molecular techniques suitable for distinguishing prokaryotic genomes could also be used to assess mitochondrial diversity. The rep-PCR (repetitive element palindromic-PCR) technique, based on the repetitive sequences found in bacterial genomes, has been used extensively for identifying and distinguishing bacterial strains. This study was undertaken to evaluate the utility of rep-PCR for identifying mitochondrial (mt) genome diversity in safflower (Carthamus tinctorius L.) and its wild relatives. Using three sets of commonly used primers, BOX, ERIC and REP, both inter-specific and intra-specific mt genome diversities in Carthamus were identified. To confirm that the amplicons obtained with rep-PCR were derived from mitochondrial genomes, we cloned and sequenced six randomly chosen bands from rep-PCR gels and demonstrated that the amplified products were mitochondrial-genome-specific. The advantages of rep-PCR in assessing chondriome variability are discussed.

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Acknowledgments

The authors gratefully acknowledge Dr. K. Anjani, Principal Scientist, Directorate of Oilseeds Research, Rajendranagar, Hyderabad for kindly providing the plant material used in the study. Facilities provided by the Project Director, Directorate of Oilseeds Research, Rajendranagar, Hyderabad for carrying out this research work is acknowledged. The authors also acknowledge the efforts of Mr. Velu Mani Selvaraj, Research Scholar with VDK for critical reading and useful editing of the manuscript that improved presentation substantially. The authors are also grateful to the two anonymous reviewers whose critical comments helped improve the readability and clarity of this manuscript.

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  1. Narasimha Rao Nizampatnam

    Present address: Plant Science Department, South Dakota State University, NPB 137, Northern Plains Biostress, Brookings, SD 57007, USA

Authors and Affiliations

  1. Directorate of Oilseeds Research, Rajendranagar, Hyderabad, 500 030, India

    Dinesh Kumar Viswanathaswamy & Narasimha Rao Nizampatnam

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  1. Dinesh Kumar Viswanathaswamy
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Correspondence to Dinesh Kumar Viswanathaswamy.

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Viswanathaswamy, D.K., Nizampatnam, N.R. Rep-PCR Identifies Both Inter- and Intra-Specific Mitochondrial Genome Differences in Carthamus . Plant Mol Biol Rep 31, 1150–1156 (2013). https://doi.org/10.1007/s11105-013-0580-5

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