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Effect of salinity on ccmfn gene RNA editing of mitochondria in wild barley and uncommon types of RNA editing

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Abstract

The primary function of mitochondria is cellular respiration and energy production. Cytochrome C complex is an essential complex that transports electrons in the respiratory chain between complex III and complex IV. One of this complex’s main subunits is CcmFN, which is believed to be crucial for holocytochrome assembly. In wild-type plant Hordeum vulgare subsp. spontaneum, four ccmfn cDNAs are subjected to high salt stress (500 mM salinity), 0 h (or control) (GenBank accession no. ON764850), after 2 h (GenBank accession no. ON7648515), after 12 h (GenBank accession no. ON764852), and after 24 h (GenBank accession no. ON764853) and mtDNA of ccmfn gene (GenBank accession no. ON764854). Using raw data from RNA-seq, 47 sites with nucleotide and amino acid modifications were detected. There were ten different RNA editing types, with most of them are C to U. Unusual editing types in plants have also been found, such as A to C, C to A, A to G, A to U, T to A, T to C, C to G, G to C, and T to G. High levels of editing were observed in control as well as treatments of salinity stress. Amino acid changes were found in 43 sites; nearly all showed hydrophilic to hydrophilic alterations. Only C749 showed regulation under salinity stress.

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All data generated or analyzed during this study are included in this published article [and its supplementary information files].

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Acknowledgements

This project was funded by the Deanship of Scientific Research (DSR) at King Abdulaziz University, Jeddah, under grant no. G: 51-130-1440. The authors, therefore, acknowledge and thank DSR’s technical and financial support.

Funding

This project was funded by the Deanship of Scientific Research (DSR) at King Abdulaziz University, Jeddah, under grant no. G: 51-130-1440.

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Authors and Affiliations

  1. Biological Science Department, Faculty of Science, King Abdulaziz University, Jeddah, Saudi Arabia

    Ahmed Ramadan, Afnan A. Alnufaei, Thana K. Khan & Sabah M. Hassan

  2. Princess Najla bint Saud Al-Saud Center for Excellence Research in Biotechnology, King Abdulaziz University, Jeddah, Saudi Arabia

    Ahmed Ramadan & Sabah M. Hassan

  3. Plant Molecular Biology Department, Agriculture Research Center (ARC), Agricultural Genetic Engineering Research Institute (AGERI), Giza, Egypt

    Ahmed Ramadan

  4. Department of Plant Breeding and Genetics, University of Haripur, Haripur, Pakistan

    Sajid Fiaz

  5. Department of Genetics, Faculty of Agriculture, Ain Shams University, Cairo, Egypt

    Sabah M. Hassan

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  1. Ahmed Ramadan
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  2. Afnan A. Alnufaei
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  3. Sajid Fiaz
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  4. Thana K. Khan
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Contributions

A.M.R. contributed to the study’s conception and design. A.A.A. prepared material and data collection. T.K. performed analysis. S.M.H. and S.F. wrote the first draft of the manuscript, and all authors commented on previous versions of the manuscript. All authors read and approved the final manuscript.

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Correspondence to Ahmed Ramadan or Afnan A. Alnufaei.

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Ramadan, A., Alnufaei, A.A., Fiaz, S. et al. Effect of salinity on ccmfn gene RNA editing of mitochondria in wild barley and uncommon types of RNA editing. Funct Integr Genomics 23, 50 (2023). https://doi.org/10.1007/s10142-023-00978-5

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  • DOI: https://doi.org/10.1007/s10142-023-00978-5

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