Exploring the Coffee Genome: a Comprehensive Analysis of the Plant-Specific DoF Transcription Factor Gene Family

Authors

Humera Amin, Department of Horticulture, University of the Punjab New campus, Lahore, PakistanFollow
Shumaila Dastgir, Department of Horticulture, University of the Punjab New campus, Lahore, PakistanFollow
Numan Ali, Department of Plant Pathology, University of the Punjab New campus, Lahore, PakistanFollow
Muhammad Shafiq, Department of Horticulture, University of the Punjab New campus, Lahore, PakistanFollow
Muhammad Haseeb, Department of Plant Pathology, University of the Punjab New campus, Lahore, PakistanFollow
Syed Agha Armaghan Asad Abbas Naqvi, Department of Agronomy, University of the Punjab New campus, Lahore, PakistanFollow
Laiba Sharif, Department of Food Sciences, University of the Punjab New campus, Lahore, PakistanFollow
Syeda Shehar Bano Rizvi, Department of Horticulture, University of the Punjab New campus, Lahore, PakistanFollow
Sohaib Ahmad, Department of Food Sciences, University of the Punjab New campus, Lahore, PakistanFollow
Farooq Ahmad, Free University of Bozen-Bolzano, Faculty of Science and Technology, Universitätsplatz 5, 39100 Bozen-Bolzano, ItalyFollow

Abstract

Dof (DNA binding with one finger) proteins constitute highly ubiquitous transcription factor gene families that are found across all plant species, playing crucial role in fruit ripening, organ development, and other activities. A comprehensive genome-wide analysis of the coffee genome uncovered 49 CaDof genes, which were described in terms of their gene structures, phylogenetic relationships, subcellular localization, gene duplication, and expression in various plant organs. In Coffea arabica, segmental duplication outnumbered tandem duplication. Expressed sequence tags were used to determine the expression of specific organs in CaDof genes. Most genes showed high expression in fruits at various stages, in flower buds and suspension cells. Light responsiveness, seed specificity, anaerobic induction, endosperm specificity, abscisic acid response, hormone specificity, low-temperature responsiveness, and meristem specificity are among the elements identified through the cis-regulatory elements study. The analysis for subcellular localization revealed that within the nucleus were the CaDof proteins and many other important organelles. Furthermore, a comparison of these genes in coffee, arabidopsis and olive revealed 13 groups of Dof at all. The complete genomic analysis of the entire gene family of Dof in coffee provides valuable blueprints for the purpose of tissue culturing and functional investigations of the various members of this family of gene.

Article History

Received: Oct 28, 2023; Accepted: Apr 05, 2024; Published: Jun 30, 2024

Recommended Citation

Amin, H., Dastgir, S., Ali, N., Shafiq, M., Haseeb, M., Asad Abbas Naqvi, S., Sharif, L., Rizvi, S., Ahmad, S., & Ahmad, F. (2024). Exploring the Coffee Genome: a Comprehensive Analysis of the Plant-Specific DoF Transcription Factor Gene Family, Journal of Bioresource Management, 11 (2).