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Genome-wide identification and characterization of the dof gene family in mango (Mangifera indica L.)

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Abstract

DOF transcription factors are essential plant-specific gene regulators that are crucial in plant growth and stress responses. Mangifera indica, a tropical fruit species with diverse applications, undergoes complex genetic regulation during fruit ripening, influenced by climacteric conditions. This study focuses on DNA-binding one zinc finger genes (MiDofs) in Mangifera indica (mango) and their response to drought stress during fruit development. We found 36 MiDof genes in mango, categorizing them into six distinct clusters based on evolutionary relationships. Despite variations in various characteristics, the fundamental structures of these MiDof transcription factors remained consistent. Notably, two MiDof genes were outside the nucleus. Gene structure analysis and motif identification revealed common features among all MiDofs, with certain genes like MiDof5.3 and MiDof2.2 performing unique functions. Our analysis of conserved domains highlighted crucial functional sites and protein–protein interaction networks, with the zf-Dof domain being the most conserved. Additionally, we explored cis-acting regulatory elements, shedding light on the mechanisms by which MiDofs respond to light and drought stress. Expression analysis demonstrated the involvement of MiDofs in mango fruit ripening and development under light conditions. Quantitative reverse transcription-polymerase chain reaction (qRT-PCR) confirmed the induction of MiDofs under drought stress when compared to a control group. This study contributes valuable insights to the field of fruit biology and provides a deeper understanding of the role of MiDof genes in mango fruit development, offering potential avenues for crop improvement strategies.

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Data availability

All data generated or analyzed analyzed during this study are included in this published article.

Abbreviations

Dof :

DNA-binding One Zinc Finger

GSDS:

Gene Structure Display Server

GRAVY:

Average hydropathy

pI:

Isoelectric point

AI:

Aliphatic index

PPI:

Protein–protein interactions

FPKM:

Fragments per kilobase of transcript per million mapped reads

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Acknowledgements

Princess Nourah bint Abdulrahman University researchers Supporting Project number (PNURSP2023R294), Princess Nourah bint Abdulrahman University, Riyadh, Saudi Arabia.

Funding

Princess Nourah bint Abdulrahman University researchers Supporting Project number (PNURSP2023R294), Princess Nourah bint Abdulrahman University, Riyadh, Saudi Arabia.

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Authors and Affiliations

  1. Department of Biology, College of Science, Qassim University, 52571, Buraydah, Saudi Arabia

    Suliman M. S. Alghanem

  2. Department of Biology, College of Science, Jouf University, Sakaka 2014, Saudi Arabia

    Ghalia S. H. Alnusairi

  3. Department of Biology, College of Science, Princess Nourah bint Abdulrahman University, 84428, Riyadh 11671, Saudi Arabia

    Mariam Abdulaziz Alkhateeb & Khairiah Mubarak Alwutayd

  4. Department of Biology, Faculty of Science, University of Bisha, 551, Bisha 61922, Saudi Arabia

    Abdullah Alaklabi

  5. Department of Biology, Faculty of Science, University of Tabuk, Tabuk-71491, Saudi Arabia

    Basmah M. Alharbi, Doha Abdullah Albalawi & Dikhnah Alshehri

  6. Biology Department, University College of Tayma, University of Tabuk, Tabuk 47512, Saudi Arabia

    Nadi Awad Al-Harbi & Salem Mesfir Al-Qahtani

  7. Botany and Microbiology Department, Faculty of Science, Cairo University, Giza 12613, Egypt

    Mona H. Soliman

  8. Biology Department, Faculty of Science, Taibah University, Al-Sharm, 46429, Yanbu El-Bahr, Saudi Arabia

    Mona H. Soliman

Authors
  1. Suliman M. S. Alghanem
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  2. Ghalia S. H. Alnusairi
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  3. Mariam Abdulaziz Alkhateeb
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  10. Salem Mesfir Al-Qahtani
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  11. Mona H. Soliman
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Contributions

All the authors contributed to the study conception and design. SMSA, AA, MAA, MHS and BMA involved in conceptualization and supervision. MAA for  funding acquisition. Material preparation, data collection and analysis were performed by NAA, MAA, SMSA, GSHA and DA. BMA, DA and MAA, KMA provided technical support during the analysis. The first draft of the manuscript was written by DAA, DA, SMAQ and MHS and all the authors commented on previous versions of the manuscript. All the authors read and approved the final manuscript.

Corresponding author

Correspondence to Mariam Abdulaziz Alkhateeb.

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Alghanem, S.M.S., Alnusairi, G.S.H., Alkhateeb, M.A. et al. Genome-wide identification and characterization of the dof gene family in mango (Mangifera indica L.). Genet Resour Crop Evol (2023). https://doi.org/10.1007/s10722-023-01767-6

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